Mock Version: 1.4.21 Mock Version: 1.4.21 ENTER ['do_with_status'](['bash', '--login', '-c', '/usr/bin/rpmbuild -bs --target riscv64 --nodeps /builddir/build/SPECS/bout++.spec'], chrootPath='/var/lib/mock/f33-build-327654-58040/root'env={'TERM': 'vt100', 'SHELL': '/bin/bash', 'HOME': '/builddir', 'HOSTNAME': 'mock', 'PATH': '/usr/bin:/bin:/usr/sbin:/sbin', 'PROMPT_COMMAND': 'printf "\\033]0;\\007"', 'PS1': ' \\s-\\v\\$ ', 'LANG': 'en_US.UTF-8'}shell=Falselogger=timeout=432000uid=987gid=135user='mockbuild'nspawn_args=[]unshare_net=TrueprintOutput=False) Executing command: ['bash', '--login', '-c', '/usr/bin/rpmbuild -bs --target riscv64 --nodeps /builddir/build/SPECS/bout++.spec'] with env {'TERM': 'vt100', 'SHELL': '/bin/bash', 'HOME': '/builddir', 'HOSTNAME': 'mock', 'PATH': '/usr/bin:/bin:/usr/sbin:/sbin', 'PROMPT_COMMAND': 'printf "\\033]0;\\007"', 'PS1': ' \\s-\\v\\$ ', 'LANG': 'en_US.UTF-8'} and shell False Building target platforms: riscv64 Building for target riscv64 setting SOURCE_DATE_EPOCH=1596844800 Wrote: /builddir/build/SRPMS/bout++-4.3.1-5.fc33.src.rpm Child return code was: 0 ENTER ['do_with_status'](['bash', '--login', '-c', '/usr/bin/rpmbuild -bb --target riscv64 --nodeps /builddir/build/SPECS/bout++.spec'], chrootPath='/var/lib/mock/f33-build-327654-58040/root'env={'TERM': 'vt100', 'SHELL': '/bin/bash', 'HOME': '/builddir', 'HOSTNAME': 'mock', 'PATH': '/usr/bin:/bin:/usr/sbin:/sbin', 'PROMPT_COMMAND': 'printf "\\033]0;\\007"', 'PS1': ' \\s-\\v\\$ ', 'LANG': 'en_US.UTF-8'}shell=Falselogger=timeout=432000uid=987gid=135user='mockbuild'nspawn_args=[]unshare_net=TrueprintOutput=False) Executing command: ['bash', '--login', '-c', '/usr/bin/rpmbuild -bb --target riscv64 --nodeps /builddir/build/SPECS/bout++.spec'] with env {'TERM': 'vt100', 'SHELL': '/bin/bash', 'HOME': '/builddir', 'HOSTNAME': 'mock', 'PATH': '/usr/bin:/bin:/usr/sbin:/sbin', 'PROMPT_COMMAND': 'printf "\\033]0;\\007"', 'PS1': ' \\s-\\v\\$ ', 'LANG': 'en_US.UTF-8'} and shell False Building target platforms: riscv64 Building for target riscv64 setting SOURCE_DATE_EPOCH=1596844800 Executing(%prep): /bin/sh -e /var/tmp/rpm-tmp.x7v91S + umask 022 + cd /builddir/build/BUILD + cd /builddir/build/BUILD + rm -rf BOUT++-v4.3.1 + /usr/bin/gzip -dc /builddir/build/SOURCES/BOUT++-v4.3.1.tar.gz + /usr/bin/tar -xof - + STATUS=0 + '[' 0 -ne 0 ']' + cd BOUT++-v4.3.1 + /usr/bin/chmod -Rf a+rX,u+w,g-w,o-w . + rm -rf externalpackages/mpark.variant/ + mkdir -p externalpackages/mpark.variant/include/ + echo 'Patch #0 (remove-mpark.patch):' Patch #0 (remove-mpark.patch): + /usr/bin/patch --no-backup-if-mismatch -p1 --fuzz=0 patching file make.config.in ++ grep -v _boutcore_build ++ find -L tools/pylib/ -type f + for f in $(find -L tools/pylib/ -type f | grep -v _boutcore_build ) + sed -i '/^#!\//d' tools/pylib/boututils/moment_xyzt.py + for f in $(find -L tools/pylib/ -type f | grep -v _boutcore_build ) + sed -i '/^#!\//d' tools/pylib/boututils/boutwarnings.py + for f in $(find -L tools/pylib/ -type f | grep -v _boutcore_build ) + sed -i '/^#!\//d' tools/pylib/boututils/datafile.py + for f in $(find -L tools/pylib/ -type f | grep -v _boutcore_build ) + sed -i '/^#!\//d' tools/pylib/boututils/mode_structure.py + for f in $(find -L tools/pylib/ -type f | grep -v _boutcore_build ) + sed -i '/^#!\//d' tools/pylib/boututils/contour.py + for f in $(find -L tools/pylib/ -type f | grep -v _boutcore_build ) + sed -i '/^#!\//d' tools/pylib/boututils/run_wrapper.py + for f in $(find -L tools/pylib/ -type f | grep -v _boutcore_build ) + sed -i '/^#!\//d' tools/pylib/boututils/read_geqdsk.py + for f in $(find -L tools/pylib/ -type f | grep -v _boutcore_build ) + sed -i '/^#!\//d' tools/pylib/boututils/fft_integrate.py + for f in $(find -L tools/pylib/ -type f | grep -v _boutcore_build ) + sed -i '/^#!\//d' tools/pylib/boututils/fft_deriv.py + for f in $(find -L tools/pylib/ -type f | grep -v _boutcore_build ) + sed -i '/^#!\//d' tools/pylib/boututils/options.py + for f in $(find -L tools/pylib/ -type f | grep -v _boutcore_build ) + sed -i '/^#!\//d' tools/pylib/boututils/calculus.py + for f in $(find -L tools/pylib/ -type f | grep -v _boutcore_build ) + sed -i '/^#!\//d' tools/pylib/boututils/efit_analyzer.py + for f in $(find -L tools/pylib/ -type f | grep -v _boutcore_build ) + sed -i '/^#!\//d' tools/pylib/boututils/anim.py + for f in $(find -L tools/pylib/ -type f | grep -v _boutcore_build ) + sed -i '/^#!\//d' tools/pylib/boututils/linear_regression.py + for f in $(find -L tools/pylib/ -type f | grep -v _boutcore_build ) + sed -i '/^#!\//d' tools/pylib/boututils/volume_integral.py + for f in $(find -L tools/pylib/ -type f | grep -v _boutcore_build ) + sed -i '/^#!\//d' tools/pylib/boututils/analyse_equil_2.py + for f in $(find -L tools/pylib/ -type f | grep -v _boutcore_build ) + sed -i '/^#!\//d' tools/pylib/boututils/check_scaling.py + for f in $(find -L tools/pylib/ -type f | grep -v _boutcore_build ) + sed -i '/^#!\//d' tools/pylib/boututils/idl_tabulate.py + for f in $(find -L tools/pylib/ -type f | grep -v _boutcore_build ) + sed -i '/^#!\//d' tools/pylib/boututils/__init__.py + for f in $(find -L tools/pylib/ -type f | grep -v _boutcore_build ) + sed -i '/^#!\//d' tools/pylib/boututils/boutgrid.py + for f in $(find -L tools/pylib/ -type f | grep -v _boutcore_build ) + sed -i '/^#!\//d' tools/pylib/boututils/boutarray.py + for f in $(find -L tools/pylib/ -type f | grep -v _boutcore_build ) + sed -i '/^#!\//d' tools/pylib/boututils/View3D.py + for f in $(find -L tools/pylib/ -type f | grep -v _boutcore_build ) + sed -i '/^#!\//d' tools/pylib/boututils/file_import.py + for f in $(find -L tools/pylib/ -type f | grep -v _boutcore_build ) + sed -i '/^#!\//d' tools/pylib/boututils/int_func.py + for f in $(find -L tools/pylib/ -type f | grep -v _boutcore_build ) + sed -i '/^#!\//d' tools/pylib/boututils/spectrogram.py + for f in $(find -L tools/pylib/ -type f | grep -v _boutcore_build ) + sed -i '/^#!\//d' tools/pylib/boututils/crosslines.py + for f in $(find -L tools/pylib/ -type f | grep -v _boutcore_build ) + sed -i '/^#!\//d' tools/pylib/boututils/plotpolslice.py + for f in $(find -L tools/pylib/ -type f | grep -v _boutcore_build ) + sed -i '/^#!\//d' tools/pylib/boututils/watch.py + for f in $(find -L tools/pylib/ -type f | grep -v _boutcore_build ) + sed -i '/^#!\//d' tools/pylib/boututils/ask.py + for f in $(find -L tools/pylib/ -type f | grep -v _boutcore_build ) + sed -i '/^#!\//d' tools/pylib/boututils/surface_average.py + for f in $(find -L tools/pylib/ -type f | grep -v _boutcore_build ) + sed -i '/^#!\//d' tools/pylib/boututils/showdata.py + for f in $(find -L tools/pylib/ -type f | grep -v _boutcore_build ) + sed -i '/^#!\//d' tools/pylib/boututils/geqdsk.py + for f in $(find -L tools/pylib/ -type f | grep -v _boutcore_build ) + sed -i '/^#!\//d' tools/pylib/boututils/radial_grid.py + for f in $(find -L tools/pylib/ -type f | grep -v _boutcore_build ) + sed -i '/^#!\//d' tools/pylib/boututils/plotdata.py + for f in $(find -L tools/pylib/ -type f | grep -v _boutcore_build ) + sed -i '/^#!\//d' tools/pylib/boututils/closest_line.py + for f in $(find -L tools/pylib/ -type f | grep -v _boutcore_build ) + sed -i '/^#!\//d' tools/pylib/boututils/local_min_max.py + for f in $(find -L tools/pylib/ -type f | grep -v _boutcore_build ) + sed -i '/^#!\//d' tools/pylib/bout_runners/__init__.py + for f in $(find -L tools/pylib/ -type f | grep -v _boutcore_build ) + sed -i '/^#!\//d' tools/pylib/bout_runners/bout_runners.py + for f in $(find -L tools/pylib/ -type f | grep -v _boutcore_build ) + sed -i '/^#!\//d' tools/pylib/bout_runners/README.md + for f in $(find -L tools/pylib/ -type f | grep -v _boutcore_build ) + sed -i '/^#!\//d' tools/pylib/Makefile + for f in $(find -L tools/pylib/ -type f | grep -v _boutcore_build ) + sed -i '/^#!\//d' tools/pylib/post_bout/read_inp.py + for f in $(find -L tools/pylib/ -type f | grep -v _boutcore_build ) + sed -i '/^#!\//d' tools/pylib/post_bout/read_cxx.py + for f in $(find -L tools/pylib/ -type f | grep -v _boutcore_build ) + sed -i '/^#!\//d' tools/pylib/post_bout/pb_present.py + for f in $(find -L tools/pylib/ -type f | grep -v _boutcore_build ) + sed -i '/^#!\//d' tools/pylib/post_bout/pb_nonlinear.py + for f in $(find -L tools/pylib/ -type f | grep -v _boutcore_build ) + sed -i '/^#!\//d' tools/pylib/post_bout/ListDict.py + for f in $(find -L tools/pylib/ -type f | grep -v _boutcore_build ) + sed -i '/^#!\//d' tools/pylib/post_bout/grate2.py + for f in $(find -L tools/pylib/ -type f | grep -v _boutcore_build ) + sed -i '/^#!\//d' tools/pylib/post_bout/rms.py + for f in $(find -L tools/pylib/ -type f | grep -v _boutcore_build ) + sed -i '/^#!\//d' tools/pylib/post_bout/pb_corral.py + for f in $(find -L tools/pylib/ -type f | grep -v _boutcore_build ) + sed -i '/^#!\//d' tools/pylib/post_bout/pb_draw.py + for f in $(find -L tools/pylib/ -type f | grep -v _boutcore_build ) + sed -i '/^#!\//d' tools/pylib/post_bout/__init__.py + for f in $(find -L tools/pylib/ -type f | grep -v _boutcore_build ) + sed -i '/^#!\//d' tools/pylib/post_bout/basic_info.py + for f in $(find -L tools/pylib/ -type f | grep -v _boutcore_build ) + sed -i '/^#!\//d' tools/pylib/boutdata/shiftz.py + for f in $(find -L tools/pylib/ -type f | grep -v _boutcore_build ) + sed -i '/^#!\//d' tools/pylib/boutdata/settings.py + for f in $(find -L tools/pylib/ -type f | grep -v _boutcore_build ) + sed -i '/^#!\//d' tools/pylib/boutdata/griddata.py + for f in $(find -L tools/pylib/ -type f | grep -v _boutcore_build ) + sed -i '/^#!\//d' tools/pylib/boutdata/squashoutput.py + for f in $(find -L tools/pylib/ -type f | grep -v _boutcore_build ) + sed -i '/^#!\//d' tools/pylib/boutdata/mms.py + for f in $(find -L tools/pylib/ -type f | grep -v _boutcore_build ) + sed -i '/^#!\//d' tools/pylib/boutdata/processor_rearrange.py + for f in $(find -L tools/pylib/ -type f | grep -v _boutcore_build ) + sed -i '/^#!\//d' tools/pylib/boutdata/pol_slice.py + for f in $(find -L tools/pylib/ -type f | grep -v _boutcore_build ) + sed -i '/^#!\//d' tools/pylib/boutdata/restart.py + for f in $(find -L tools/pylib/ -type f | grep -v _boutcore_build ) + sed -i '/^#!\//d' tools/pylib/boutdata/input.py + for f in $(find -L tools/pylib/ -type f | grep -v _boutcore_build ) + sed -i '/^#!\//d' tools/pylib/boutdata/cbdtoeqdsk.py + for f in $(find -L tools/pylib/ -type f | grep -v _boutcore_build ) + sed -i '/^#!\//d' tools/pylib/boutdata/__init__.py + for f in $(find -L tools/pylib/ -type f | grep -v _boutcore_build ) + sed -i '/^#!\//d' tools/pylib/boutdata/data.py + for f in $(find -L tools/pylib/ -type f | grep -v _boutcore_build ) + sed -i '/^#!\//d' tools/pylib/boutdata/mayavi2.py + for f in $(find -L tools/pylib/ -type f | grep -v _boutcore_build ) + sed -i '/^#!\//d' tools/pylib/boutdata/collect.py + for f in $(find -L tools/pylib/ -type f | grep -v _boutcore_build ) + sed -i '/^#!\//d' tools/pylib/boutdata/gen_surface.py + for f in $(find -L tools/pylib/ -type f | grep -v _boutcore_build ) + sed -i '/^#!\//d' tools/pylib/.gitignore + for f in $(find -L tools/pylib/ -type f | grep -v _boutcore_build ) + sed -i '/^#!\//d' tools/pylib/README.md + for f in $(find -L tools/pylib/ -type f | grep -v _boutcore_build ) + sed -i '/^#!\//d' tools/pylib/zoidberg/field.py + for f in $(find -L tools/pylib/ -type f | grep -v _boutcore_build ) + sed -i '/^#!\//d' tools/pylib/zoidberg/rzline.py + for f in $(find -L tools/pylib/ -type f | grep -v _boutcore_build ) + sed -i '/^#!\//d' tools/pylib/zoidberg/grid.py + for f in $(find -L tools/pylib/ -type f | grep -v _boutcore_build ) + sed -i '/^#!\//d' tools/pylib/zoidberg/test_poloidal_grid.py + for f in $(find -L tools/pylib/ -type f | grep -v _boutcore_build ) + sed -i '/^#!\//d' tools/pylib/zoidberg/zoidberg.py + for f in $(find -L tools/pylib/ -type f | grep -v _boutcore_build ) + sed -i '/^#!\//d' tools/pylib/zoidberg/progress.py + for f in $(find -L tools/pylib/ -type f | grep -v _boutcore_build ) + sed -i '/^#!\//d' tools/pylib/zoidberg/test_fieldtracer.py + for f in $(find -L tools/pylib/ -type f | grep -v _boutcore_build ) + sed -i '/^#!\//d' tools/pylib/zoidberg/fieldtracer.py + for f in $(find -L tools/pylib/ -type f | grep -v _boutcore_build ) + sed -i '/^#!\//d' tools/pylib/zoidberg/test_grid.py + for f in $(find -L tools/pylib/ -type f | grep -v _boutcore_build ) + sed -i '/^#!\//d' tools/pylib/zoidberg/test_zoidberg.py + for f in $(find -L tools/pylib/ -type f | grep -v _boutcore_build ) + sed -i '/^#!\//d' tools/pylib/zoidberg/__init__.py + for f in $(find -L tools/pylib/ -type f | grep -v _boutcore_build ) + sed -i '/^#!\//d' tools/pylib/zoidberg/poloidal_grid.py + for f in $(find -L tools/pylib/ -type f | grep -v _boutcore_build ) + sed -i '/^#!\//d' tools/pylib/zoidberg/test_rzline.py + for f in $(find -L tools/pylib/ -type f | grep -v _boutcore_build ) + sed -i '/^#!\//d' tools/pylib/zoidberg/test_field.py + for f in $(find -L tools/pylib/ -type f | grep -v _boutcore_build ) + sed -i '/^#!\//d' tools/pylib/zoidberg/boundary.py + for f in $(find -L tools/pylib/ -type f | grep -v _boutcore_build ) + sed -i '/^#!\//d' tools/pylib/zoidberg/plot.py + autoreconf autoreconf: configure.ac: AM_GNU_GETTEXT is used, but not AM_GNU_GETTEXT_VERSION + RPM_EC=0 ++ jobs -p + exit 0 Executing(%build): /bin/sh -e /var/tmp/rpm-tmp.U5b8fV + umask 022 + cd /builddir/build/BUILD + cd BOUT++-v4.3.1 + export CC=mpicc + CC=mpicc + export CXX=mpicxx + CXX=mpicxx + for mpi in mpich openmpi + mkdir build_mpich + cp -al CHANGELOG.md CITATION.bib CITATION.cff CMakeLists.txt CONTRIBUTING.md LICENSE LICENSE.GPL README.md aclocal.m4 aminclude_static.am autom4te.cache change_summary.md cmake configure configure.ac examples externalpackages include locale m4 make.config.in makefile manual output.make requirements.txt src tests tools build-aux bin build_mpich + for mpi in mpich openmpi + mkdir build_openmpi + cp -al CHANGELOG.md CITATION.bib CITATION.cff CMakeLists.txt CONTRIBUTING.md LICENSE LICENSE.GPL README.md aclocal.m4 aminclude_static.am autom4te.cache change_summary.md cmake configure configure.ac examples externalpackages include locale m4 make.config.in makefile manual output.make requirements.txt src tests tools build-aux bin build_openmpi + for mpi in mpich openmpi + pushd build_mpich ~/build/BUILD/BOUT++-v4.3.1/build_mpich ~/build/BUILD/BOUT++-v4.3.1 + '[' mpich = mpich ']' + . /etc/profile.d/modules.sh ++ '[' -n /bin/sh ']' ++ shell=sh ++ '[' -f /usr/share/Modules/init/sh ']' ++ . /usr/share/Modules/init/sh +++ unset _mlshdbg +++ '[' 0 = 1 ']' +++ export 'MODULES_RUN_QUARANTINE=LD_LIBRARY_PATH LD_PRELOAD' +++ MODULES_RUN_QUARANTINE='LD_LIBRARY_PATH LD_PRELOAD' +++ unset _mlre _mlIFS +++ '[' -n x ']' +++ _mlIFS=' ' +++ IFS=' ' +++ for _mlv in ${MODULES_RUN_QUARANTINE:-} +++ '[' LD_LIBRARY_PATH = LD_LIBRARY_PATH -a LD_LIBRARY_PATH = LD_LIBRARY_PATH ']' ++++ eval 'echo ${LD_LIBRARY_PATH+x}' +++++ echo +++ '[' -n '' ']' +++ _mlrv=MODULES_RUNENV_LD_LIBRARY_PATH ++++ eval 'echo ${MODULES_RUNENV_LD_LIBRARY_PATH:-}' +++++ echo +++ _mlre='LD_LIBRARY_PATH='\'''\'' ' +++ for _mlv in ${MODULES_RUN_QUARANTINE:-} +++ '[' LD_PRELOAD = LD_PRELOAD -a LD_PRELOAD = LD_PRELOAD ']' ++++ eval 'echo ${LD_PRELOAD+x}' +++++ echo +++ '[' -n '' ']' +++ _mlrv=MODULES_RUNENV_LD_PRELOAD ++++ eval 'echo ${MODULES_RUNENV_LD_PRELOAD:-}' +++++ echo +++ _mlre='LD_LIBRARY_PATH='\'''\'' LD_PRELOAD='\'''\'' ' +++ '[' -n 'LD_LIBRARY_PATH='\'''\'' LD_PRELOAD='\'''\'' ' ']' +++ _mlre='eval LD_LIBRARY_PATH='\'''\'' LD_PRELOAD='\'''\'' ' ++++ eval 'LD_LIBRARY_PATH='\'''\''' 'LD_PRELOAD='\'''\''' /usr/bin/tclsh /usr/share/Modules/libexec/modulecmd.tcl sh autoinit +++++ LD_LIBRARY_PATH= +++++ LD_PRELOAD= +++++ /usr/bin/tclsh /usr/share/Modules/libexec/modulecmd.tcl sh autoinit +++ _mlcode='module() { unset _mlshdbg; if [ "${MODULES_SILENT_SHELL_DEBUG:-0}" = '\''1'\'' ]; then case "$-" in *v*x*) set +vx; _mlshdbg='\''vx'\'' ;; *v*) set +v; _mlshdbg='\''v'\'' ;; *x*) set +x; _mlshdbg='\''x'\'' ;; *) _mlshdbg='\'''\'' ;; esac; fi; unset _mlre _mlIFS; if [ -n "${IFS+x}" ]; then _mlIFS=$IFS; fi; IFS='\'' '\''; for _mlv in ${MODULES_RUN_QUARANTINE:-}; do if [ "${_mlv}" = "${_mlv##*[!A-Za-z0-9_]}" -a "${_mlv}" = "${_mlv#[0-9]}" ]; then if [ -n "`eval '\''echo ${'\''$_mlv'\''+x}'\''`" ]; then _mlre="${_mlre:-}${_mlv}_modquar='\''`eval '\''echo ${'\''$_mlv'\''}'\''`'\'' "; fi; _mlrv="MODULES_RUNENV_${_mlv}"; _mlre="${_mlre:-}${_mlv}='\''`eval '\''echo ${'\''$_mlrv'\'':-}'\''`'\'' "; fi; done; if [ -n "${_mlre:-}" ]; then eval `eval ${_mlre} /usr/bin/tclsh /usr/share/Modules/libexec/modulecmd.tcl sh '\''"$@"'\''`; else eval `/usr/bin/tclsh /usr/share/Modules/libexec/modulecmd.tcl sh "$@"`; fi; _mlstatus=$?; if [ -n "${_mlIFS+x}" ]; then IFS=$_mlIFS; else unset IFS; fi; unset _mlre _mlv _mlrv _mlIFS; if [ -n "${_mlshdbg:-}" ]; then set -$_mlshdbg; fi; unset _mlshdbg; return $_mlstatus; }; ml() { module ml "$@"; }; MODULES_CMD=/usr/share/Modules/libexec/modulecmd.tcl; export MODULES_CMD; MODULESHOME=/usr/share/Modules; export MODULESHOME; test 0;' +++ _mlret=0 +++ '[' -n x ']' +++ IFS=' ' +++ unset _mlIFS +++ unset _mlre _mlv _mlrv +++ '[' 0 -eq 0 ']' +++ eval 'module() { unset _mlshdbg; if [ "${MODULES_SILENT_SHELL_DEBUG:-0}" = '\''1'\'' ]; then case "$-" in *v*x*) set +vx; _mlshdbg='\''vx'\'' ;; *v*) set +v; _mlshdbg='\''v'\'' ;; *x*) set +x; _mlshdbg='\''x'\'' ;; *) _mlshdbg='\'''\'' ;; esac; fi; unset _mlre _mlIFS; if [ -n "${IFS+x}" ]; then _mlIFS=$IFS; fi; IFS='\'' '\''; for _mlv in ${MODULES_RUN_QUARANTINE:-}; do if [ "${_mlv}" = "${_mlv##*[!A-Za-z0-9_]}" -a "${_mlv}" = "${_mlv#[0-9]}" ]; then if [ -n "`eval '\''echo ${'\''$_mlv'\''+x}'\''`" ]; then _mlre="${_mlre:-}${_mlv}_modquar='\''`eval '\''echo ${'\''$_mlv'\''}'\''`'\'' "; fi; _mlrv="MODULES_RUNENV_${_mlv}"; _mlre="${_mlre:-}${_mlv}='\''`eval '\''echo ${'\''$_mlrv'\'':-}'\''`'\'' "; fi; done; if [ -n "${_mlre:-}" ]; then eval `eval ${_mlre} /usr/bin/tclsh /usr/share/Modules/libexec/modulecmd.tcl sh '\''"$@"'\''`; else eval `/usr/bin/tclsh /usr/share/Modules/libexec/modulecmd.tcl sh "$@"`; fi; _mlstatus=$?; if [ -n "${_mlIFS+x}" ]; then IFS=$_mlIFS; else unset IFS; fi; unset _mlre _mlv _mlrv _mlIFS; if [ -n "${_mlshdbg:-}" ]; then set -$_mlshdbg; fi; unset _mlshdbg; return $_mlstatus; }; ml() { module ml "$@"; }; MODULES_CMD=/usr/share/Modules/libexec/modulecmd.tcl; export MODULES_CMD; MODULESHOME=/usr/share/Modules; export MODULESHOME; test 0;' ++++ MODULES_CMD=/usr/share/Modules/libexec/modulecmd.tcl ++++ export MODULES_CMD ++++ MODULESHOME=/usr/share/Modules ++++ export MODULESHOME ++++ test 0 +++ '[' 0 = 1 ']' +++ '[' /bin/sh '!=' '' ']' +++ '[' -t 2 ']' +++ export -f module ++++ type -t ml +++ '[' function = function ']' +++ export -f ml +++ '[' /bin/sh '!=' '' ']' +++ export -f switchml +++ case ":$PATH:" in +++ '[' '!' -n x ']' +++ case ":`manpath 2>/dev/null`:" in ++++ manpath +++ unset _mlcode _mlret +++ '[' -n '' ']' + module load mpi/mpich-riscv64 + unset _mlshdbg + '[' 0 = 1 ']' + unset _mlre _mlIFS + '[' -n x ']' + _mlIFS=' ' + IFS=' ' + for _mlv in ${MODULES_RUN_QUARANTINE:-} + '[' LD_LIBRARY_PATH = LD_LIBRARY_PATH -a LD_LIBRARY_PATH = LD_LIBRARY_PATH ']' ++ eval 'echo ${LD_LIBRARY_PATH+x}' +++ echo + '[' -n '' ']' + _mlrv=MODULES_RUNENV_LD_LIBRARY_PATH ++ eval 'echo ${MODULES_RUNENV_LD_LIBRARY_PATH:-}' +++ echo + _mlre='LD_LIBRARY_PATH='\'''\'' ' + for _mlv in ${MODULES_RUN_QUARANTINE:-} + '[' LD_PRELOAD = LD_PRELOAD -a LD_PRELOAD = LD_PRELOAD ']' ++ eval 'echo ${LD_PRELOAD+x}' +++ echo + '[' -n '' ']' + _mlrv=MODULES_RUNENV_LD_PRELOAD ++ eval 'echo ${MODULES_RUNENV_LD_PRELOAD:-}' +++ echo + _mlre='LD_LIBRARY_PATH='\'''\'' LD_PRELOAD='\'''\'' ' + '[' -n 'LD_LIBRARY_PATH='\'''\'' LD_PRELOAD='\'''\'' ' ']' ++ eval 'LD_LIBRARY_PATH='\'''\''' 'LD_PRELOAD='\'''\''' /usr/bin/tclsh /usr/share/Modules/libexec/modulecmd.tcl sh '"$@"' +++ LD_LIBRARY_PATH= +++ LD_PRELOAD= +++ /usr/bin/tclsh /usr/share/Modules/libexec/modulecmd.tcl sh load mpi/mpich-riscv64 + eval 'LD_LIBRARY_PATH=/usr/lib64/mpich/lib;' export 'LD_LIBRARY_PATH; MPI_COMPILER=mpich-riscv64;' export 'MPI_COMPILER; MANPATH=/usr/share/man/mpich-riscv64::;' export 'MANPATH; MPI_INCLUDE=/usr/include/mpich-riscv64;' export 'MPI_INCLUDE; MPI_MAN=/usr/share/man/mpich-riscv64;' export 'MPI_MAN; MPI_PYTHON_SITEARCH=%\{python2_sitearch\}/mpich;' export 'MPI_PYTHON_SITEARCH; _LMFILES_=/usr/share/modulefiles/mpi/mpich-riscv64;' export '_LMFILES_; LOADEDMODULES=mpi/mpich-riscv64;' export 'LOADEDMODULES; MODULES_LMCONFLICT=mpi/mpich-riscv64\&mpi;' export 'MODULES_LMCONFLICT; PKG_CONFIG_PATH=/usr/lib64/mpich/lib/pkgconfig::/usr/lib64/pkgconfig:/usr/share/pkgconfig;' export 'PKG_CONFIG_PATH; MANPATH_modshare=/usr/share/man/mpich-riscv64:1::2;' export 'MANPATH_modshare; MPI_PYTHON3_SITEARCH=/usr/lib64/python3.9/site-packages/mpich;' export 'MPI_PYTHON3_SITEARCH; MODULES_LMCONFLICT_modshare=mpi/mpich-riscv64\&mpi:1;' export 'MODULES_LMCONFLICT_modshare; PKG_CONFIG_PATH_modshare=:1:/usr/lib64/pkgconfig:1:/usr/lib64/mpich/lib/pkgconfig:1:/usr/share/pkgconfig:1;' export 'PKG_CONFIG_PATH_modshare; MPI_FORTRAN_MOD_DIR=/usr/lib64/gfortran/modules/mpich;' export 'MPI_FORTRAN_MOD_DIR; MPI_HOME=/usr/lib64/mpich;' export 'MPI_HOME; LD_LIBRARY_PATH_modshare=/usr/lib64/mpich/lib:1;' export 'LD_LIBRARY_PATH_modshare; MPI_SYSCONFIG=/etc/mpich-riscv64;' export 'MPI_SYSCONFIG; MPI_SUFFIX=_mpich;' export 'MPI_SUFFIX; MPI_PYTHON2_SITEARCH=%\{python2_sitearch\}/mpich;' export 'MPI_PYTHON2_SITEARCH; _LMFILES__modshare=/usr/share/modulefiles/mpi/mpich-riscv64:1;' export '_LMFILES__modshare; LOADEDMODULES_modshare=mpi/mpich-riscv64:1;' export 'LOADEDMODULES_modshare; MPI_LIB=/usr/lib64/mpich/lib;' export 'MPI_LIB; PATH=/usr/lib64/mpich/bin:/usr/share/Modules/bin:/usr/bin:/bin:/usr/sbin:/sbin:/usr/local/sbin;' export 'PATH; MPI_BIN=/usr/lib64/mpich/bin;' export 'MPI_BIN; PATH_modshare=/bin:1:/usr/sbin:1:/usr/lib64/mpich/bin:1:/usr/bin:1:/usr/local/sbin:1:/usr/share/Modules/bin:1:/sbin:1;' export 'PATH_modshare; test' '0;' ++ LD_LIBRARY_PATH=/usr/lib64/mpich/lib ++ export LD_LIBRARY_PATH ++ MPI_COMPILER=mpich-riscv64 ++ export MPI_COMPILER ++ MANPATH=/usr/share/man/mpich-riscv64:: ++ export MANPATH ++ MPI_INCLUDE=/usr/include/mpich-riscv64 ++ export MPI_INCLUDE ++ MPI_MAN=/usr/share/man/mpich-riscv64 ++ export MPI_MAN ++ MPI_PYTHON_SITEARCH='%{python2_sitearch}/mpich' ++ export MPI_PYTHON_SITEARCH ++ _LMFILES_=/usr/share/modulefiles/mpi/mpich-riscv64 ++ export _LMFILES_ ++ LOADEDMODULES=mpi/mpich-riscv64 ++ export LOADEDMODULES ++ MODULES_LMCONFLICT='mpi/mpich-riscv64&mpi' ++ export MODULES_LMCONFLICT ++ PKG_CONFIG_PATH=/usr/lib64/mpich/lib/pkgconfig::/usr/lib64/pkgconfig:/usr/share/pkgconfig ++ export PKG_CONFIG_PATH ++ MANPATH_modshare=/usr/share/man/mpich-riscv64:1::2 ++ export MANPATH_modshare ++ MPI_PYTHON3_SITEARCH=/usr/lib64/python3.9/site-packages/mpich ++ export MPI_PYTHON3_SITEARCH ++ MODULES_LMCONFLICT_modshare='mpi/mpich-riscv64&mpi:1' ++ export MODULES_LMCONFLICT_modshare ++ PKG_CONFIG_PATH_modshare=:1:/usr/lib64/pkgconfig:1:/usr/lib64/mpich/lib/pkgconfig:1:/usr/share/pkgconfig:1 ++ export PKG_CONFIG_PATH_modshare ++ MPI_FORTRAN_MOD_DIR=/usr/lib64/gfortran/modules/mpich ++ export MPI_FORTRAN_MOD_DIR ++ MPI_HOME=/usr/lib64/mpich ++ export MPI_HOME ++ LD_LIBRARY_PATH_modshare=/usr/lib64/mpich/lib:1 ++ export LD_LIBRARY_PATH_modshare ++ MPI_SYSCONFIG=/etc/mpich-riscv64 ++ export MPI_SYSCONFIG ++ MPI_SUFFIX=_mpich ++ export MPI_SUFFIX ++ MPI_PYTHON2_SITEARCH='%{python2_sitearch}/mpich' ++ export MPI_PYTHON2_SITEARCH ++ _LMFILES__modshare=/usr/share/modulefiles/mpi/mpich-riscv64:1 ++ export _LMFILES__modshare ++ LOADEDMODULES_modshare=mpi/mpich-riscv64:1 ++ export LOADEDMODULES_modshare ++ MPI_LIB=/usr/lib64/mpich/lib ++ export MPI_LIB ++ PATH=/usr/lib64/mpich/bin:/usr/share/Modules/bin:/usr/bin:/bin:/usr/sbin:/sbin:/usr/local/sbin ++ export PATH ++ MPI_BIN=/usr/lib64/mpich/bin ++ export MPI_BIN ++ PATH_modshare=/bin:1:/usr/sbin:1:/usr/lib64/mpich/bin:1:/usr/bin:1:/usr/local/sbin:1:/usr/share/Modules/bin:1:/sbin:1 ++ export PATH_modshare ++ test 0 + _mlstatus=0 + '[' -n x ']' + IFS=' ' + unset _mlre _mlv _mlrv _mlIFS + '[' -n '' ']' + unset _mlshdbg + return 0 + export 'CFLAGS= -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection' + CFLAGS=' -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection' + CFLAGS=' -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection' + export CFLAGS + CXXFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection' + export CXXFLAGS + FFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection -I/usr/lib64/gfortran/modules' + export FFLAGS + FCFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection -I/usr/lib64/gfortran/modules' + export FCFLAGS + LDFLAGS='-Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld' + export LDFLAGS + LT_SYS_LIBRARY_PATH=/usr/lib64: + export LT_SYS_LIBRARY_PATH + CC=gcc + export CC + CXX=g++ + export CXX + '[' '-flto=auto -ffat-lto-objectsx' '!=' x ']' ++ find . -type f -name configure -print + for file in $(find . -type f -name configure -print) + /usr/bin/sed -r --in-place=.backup 's/^char \(\*f\) \(\) = /__attribute__ ((used)) char (*f) () = /g' ./configure + diff -u ./configure.backup ./configure + mv ./configure.backup ./configure + /usr/bin/sed -r --in-place=.backup 's/^char \(\*f\) \(\);/__attribute__ ((used)) char (*f) ();/g' ./configure + diff -u ./configure.backup ./configure + mv ./configure.backup ./configure + /usr/bin/sed -r --in-place=.backup 's/^char \$2 \(\);/__attribute__ ((used)) char \$2 ();/g' ./configure + diff -u ./configure.backup ./configure --- ./configure.backup 2020-08-17 09:17:32.622394779 -0400 +++ ./configure 2020-08-17 09:17:48.882402406 -0400 @@ -1936,7 +1936,7 @@ #ifdef __cplusplus extern "C" #endif -char $2 (); +__attribute__ ((used)) char $2 (); /* The GNU C library defines this for functions which it implements to always fail with ENOSYS. Some functions are actually named something starting with __ and the normal name is an alias. */ + /usr/bin/sed --in-place=.backup '1{$!N;$!N};$!N;s/int x = 1;\nint y = 0;\nint z;\nint nan;/volatile int x = 1; volatile int y = 0; volatile int z, nan;/;P;D' ./configure + diff -u ./configure.backup ./configure + mv ./configure.backup ./configure + /usr/bin/sed --in-place=.backup 's#^lt_cv_sys_global_symbol_to_cdecl=.*#lt_cv_sys_global_symbol_to_cdecl="sed -n -e '\''s/^T .* \\(.*\\)$/extern int \\1();/p'\'' -e '\''s/^$symcode* .* \\(.*\\)$/extern char \\1;/p'\''"#' ./configure + diff -u ./configure.backup ./configure + mv ./configure.backup ./configure + for file in $(find . -type f -name configure -print) + /usr/bin/sed -r --in-place=.backup 's/^char \(\*f\) \(\) = /__attribute__ ((used)) char (*f) () = /g' ./tools/pdb2idl/configure + diff -u ./tools/pdb2idl/configure.backup ./tools/pdb2idl/configure + mv ./tools/pdb2idl/configure.backup ./tools/pdb2idl/configure + /usr/bin/sed -r --in-place=.backup 's/^char \(\*f\) \(\);/__attribute__ ((used)) char (*f) ();/g' ./tools/pdb2idl/configure + diff -u ./tools/pdb2idl/configure.backup ./tools/pdb2idl/configure + mv ./tools/pdb2idl/configure.backup ./tools/pdb2idl/configure + /usr/bin/sed -r --in-place=.backup 's/^char \$2 \(\);/__attribute__ ((used)) char \$2 ();/g' ./tools/pdb2idl/configure + diff -u ./tools/pdb2idl/configure.backup ./tools/pdb2idl/configure + mv ./tools/pdb2idl/configure.backup ./tools/pdb2idl/configure + /usr/bin/sed --in-place=.backup '1{$!N;$!N};$!N;s/int x = 1;\nint y = 0;\nint z;\nint nan;/volatile int x = 1; volatile int y = 0; volatile int z, nan;/;P;D' ./tools/pdb2idl/configure + diff -u ./tools/pdb2idl/configure.backup ./tools/pdb2idl/configure + mv ./tools/pdb2idl/configure.backup ./tools/pdb2idl/configure + /usr/bin/sed --in-place=.backup 's#^lt_cv_sys_global_symbol_to_cdecl=.*#lt_cv_sys_global_symbol_to_cdecl="sed -n -e '\''s/^T .* \\(.*\\)$/extern int \\1();/p'\'' -e '\''s/^$symcode* .* \\(.*\\)$/extern char \\1;/p'\''"#' ./tools/pdb2idl/configure + diff -u ./tools/pdb2idl/configure.backup ./tools/pdb2idl/configure + mv ./tools/pdb2idl/configure.backup ./tools/pdb2idl/configure + '[' 1 = 1 ']' +++ dirname ./configure ++ find . -name config.guess -o -name config.sub + for i in $(find $(dirname ./configure) -name config.guess -o -name config.sub) ++ basename ./build-aux/config.sub + '[' -f /usr/lib/rpm/redhat/config.sub ']' + /usr/bin/rm -f ./build-aux/config.sub ++ basename ./build-aux/config.sub + /usr/bin/cp -fv /usr/lib/rpm/redhat/config.sub ./build-aux/config.sub '/usr/lib/rpm/redhat/config.sub' -> './build-aux/config.sub' + for i in $(find $(dirname ./configure) -name config.guess -o -name config.sub) ++ basename ./build-aux/config.guess + '[' -f /usr/lib/rpm/redhat/config.guess ']' + /usr/bin/rm -f ./build-aux/config.guess ++ basename ./build-aux/config.guess + /usr/bin/cp -fv /usr/lib/rpm/redhat/config.guess ./build-aux/config.guess '/usr/lib/rpm/redhat/config.guess' -> './build-aux/config.guess' + '[' 1 = 1 ']' + '[' x '!=' 'x-Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld' ']' ++ find . -name ltmain.sh + for i in $(find . -name ltmain.sh) + /usr/bin/sed -i.backup -e 's~compiler_flags=$~compiler_flags="-Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld"~' ./build-aux/ltmain.sh + ./configure --build=riscv64-redhat-linux-gnu --host=riscv64-redhat-linux-gnu --program-prefix= --disable-dependency-tracking --prefix=/usr --exec-prefix=/usr --bindir=/usr/bin --sbindir=/usr/sbin --sysconfdir=/etc --datadir=/usr/share --includedir=/usr/include --libdir=/usr/lib64 --libexecdir=/usr/libexec --localstatedir=/var --sharedstatedir=/var/lib --mandir=/usr/share/man --infodir=/usr/share/info --with-netcdf --with-hdf5 --enable-shared --libdir=/usr/lib64/mpich/lib --bindir=/usr/lib64/mpich/bin --sbindir=/usr/lib64/mpich/sbin --includedir=/usr/include/mpich-riscv64 --datarootdir=/usr/share configure: WARNING: unrecognized options: --disable-dependency-tracking checking for riscv64-redhat-linux-gnu-mpic++... no checking for riscv64-redhat-linux-gnu-mpicxx... no checking for riscv64-redhat-linux-gnu-mpiCC... no checking for riscv64-redhat-linux-gnu-sxmpic++... no checking for riscv64-redhat-linux-gnu-hcp... no checking for riscv64-redhat-linux-gnu-mpxlC_r... no checking for riscv64-redhat-linux-gnu-mpxlC... no checking for riscv64-redhat-linux-gnu-mpixlcxx_r... no checking for riscv64-redhat-linux-gnu-mpixlcxx... no checking for riscv64-redhat-linux-gnu-mpg++... no checking for riscv64-redhat-linux-gnu-mpc++... no checking for riscv64-redhat-linux-gnu-mpCC... no checking for riscv64-redhat-linux-gnu-cmpic++... no checking for riscv64-redhat-linux-gnu-mpiFCC... no checking for riscv64-redhat-linux-gnu-CCicpc... no checking for riscv64-redhat-linux-gnu-pgCC... no checking for riscv64-redhat-linux-gnu-pathCC... no checking for riscv64-redhat-linux-gnu-sxc++... no checking for riscv64-redhat-linux-gnu-xlC_r... no checking for riscv64-redhat-linux-gnu-xlC... no checking for riscv64-redhat-linux-gnu-bgxlC_r... no checking for riscv64-redhat-linux-gnu-bgxlC... no checking for riscv64-redhat-linux-gnu-openCC... no checking for riscv64-redhat-linux-gnu-sunCC... no checking for riscv64-redhat-linux-gnu-crayCC... no checking for riscv64-redhat-linux-gnu-aCC... no checking for riscv64-redhat-linux-gnu-CC... no checking for riscv64-redhat-linux-gnu-g++... no checking for riscv64-redhat-linux-gnu-c++... no checking for riscv64-redhat-linux-gnu-gpp... no checking for riscv64-redhat-linux-gnu-cxx... no checking for riscv64-redhat-linux-gnu-cc++... no checking for riscv64-redhat-linux-gnu-cl.exe... no checking for riscv64-redhat-linux-gnu-FCC... no checking for riscv64-redhat-linux-gnu-KCC... no checking for riscv64-redhat-linux-gnu-RCC... no checking for mpic++... mpic++ checking whether the C++ compiler works... yes checking for C++ compiler default output file name... a.out checking for suffix of executables... checking whether we are cross compiling... no checking for suffix of object files... o checking whether we are using the GNU C++ compiler... yes checking whether mpic++ accepts -g... yes checking for function MPI_Init... yes checking for mpi.h... yes checking for a thread-safe mkdir -p... /usr/bin/mkdir -p checking whether ln -s works... yes checking whether make sets $(MAKE)... yes checking for a BSD-compatible install... /usr/bin/install -c checking for gmake... gmake checking for riscv64-redhat-linux-gnu-ranlib... no checking for ranlib... ranlib checking whether mpic++ supports C++11 features by default... yes checking for sqrt in -lm... yes checking how to run the C++ preprocessor... mpic++ -E checking for grep that handles long lines and -e... /usr/bin/grep checking for egrep... /usr/bin/grep -E checking for ANSI C header files... yes checking for sys/types.h... yes checking for sys/stat.h... yes checking for stdlib.h... yes checking for string.h... yes checking for memory.h... yes checking for strings.h... yes checking for inttypes.h... yes checking for stdint.h... yes checking for unistd.h... yes checking malloc.h usability... yes checking malloc.h presence... yes checking for malloc.h... yes checking for stdlib.h... (cached) yes checking for string.h... (cached) yes checking for strings.h... (cached) yes checking for stdlib.h... (cached) yes checking for GNU libc compatible malloc... yes checking for stdlib.h... (cached) yes checking for GNU libc compatible realloc... yes checking for vprintf... yes checking for _doprnt... no checking does C++ compiler support __PRETTY_FUNCTION__... yes checking for a sed that does not truncate output... /usr/bin/sed checking whether to build with code coverage support... no checking whether C++ compiler accepts -Werror=unknown-warning-option... no checking whether C++ compiler accepts -we10006,10148... no checking whether C++ compiler accepts -Wall... yes checking whether C++ compiler accepts -Wextra... yes checking whether C++ compiler accepts -Wnull-dereference... yes checking whether C++ compiler accepts -Wno-cast-function-type... yes configure: Enabling default optimisations checking whether C++ compiler accepts -O2... yes configure: Run-time checking enabled configure: -> Level 2 (Basic checking + stack tracing) configure: Segmentation fault handling enabled configure: Output coloring enabled configure: Field name tracking disabled configure: Signaling floating point exceptions disabled checking for addr2line... yes checking for popen... yes checking for backtrace... yes checking execinfo.h usability... yes checking execinfo.h presence... yes checking for execinfo.h... yes checking dlfcn.h usability... yes checking dlfcn.h presence... yes checking for dlfcn.h... yes checking for library containing dladdr... -ldl configure: Native backtrace enabled ./configure: line 6307: git: command not found checking for fftw-wisdom... /usr/bin/fftw-wisdom checking for fftw3.h... yes checking for libfftw3... yes checking for ncxx4-config... /usr/bin/ncxx4-config configure: -> NetCDF-4 support enabled configure: Parallel-NetCDF support disabled checking for gawk... gawk checking for riscv64-redhat-linux-gnu-gcc... gcc checking whether we are using the GNU C compiler... yes checking whether gcc accepts -g... yes checking for gcc option to accept ISO C89... none needed checking how to run the C preprocessor... gcc -E checking for h5cc... /usr/bin/h5cc checking for HDF5 type... serial checking for HDF5 libraries... yes (version 1.10.5) checking hdf5.h usability... yes checking hdf5.h presence... yes checking for hdf5.h... yes checking for H5Fcreate in -lhdf5... yes checking for main in -lhdf5_hl... yes configure: Found HDF5 configure: Parallel HDF5 support disabled configure: Supported file formats: netCDF HDF5 checking for libblas... yes checking for liblapack... yes configure: Using LAPACK checking for riscv64-redhat-linux-gnu-pkg-config... /usr/bin/riscv64-redhat-linux-gnu-pkg-config checking pkg-config is at least version 0.9.0... yes configure: Scorep support disabled configure: PVODE being built without OpenMP support configure: Building PVODE configure: Successfully built PVODE configure: Installing PVODE into BOUT++ sourcetree checking whether NLS is requested... yes checking for msgfmt... /usr/bin/msgfmt checking for gmsgfmt... /usr/bin/msgfmt checking for xgettext... /usr/bin/xgettext checking for msgmerge... /usr/bin/msgmerge checking build system type... riscv64-redhat-linux-gnu checking host system type... riscv64-redhat-linux-gnu checking for ld used by gcc... /usr/bin/ld checking if the linker (/usr/bin/ld) is GNU ld... yes checking for shared library run path origin... /bin/sh: build-aux/config.rpath: No such file or directory done checking 32-bit host C ABI... no checking for ELF binary format... yes checking for the common suffixes of directories in the library search path... ./configure: line 13514: cd: /lib64/lp64d/../lib64/lp64d/: No such file or directory ./configure: line 13514: cd: /usr/lib64/lp64d/../lib64/lp64d/: No such file or directory lib,lib,lib64 checking for CFPreferencesCopyAppValue... no checking for CFLocaleCopyPreferredLanguages... no checking for GNU gettext in libc... yes checking whether to use NLS... yes checking where the gettext function comes from... libc configure: Enabling language support with gettext gmake: Entering directory '/builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/locale' Building language: de Building language: es Building language: fr Building language: zh_CN Building language: zh_TW gmake: Leaving directory '/builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/locale' configure: creating ./config.status config.status: creating make.config config.status: executing po-directories commands configure: WARNING: unrecognized options: --disable-dependency-tracking configure: creating ./config.status config.status: creating make.config config.status: creating bin/bout-config config.status: executing po-directories commands configure: WARNING: unrecognized options: --disable-dependency-tracking configure: ------------------------- configure: Configuration summary configure: ------------------------- configure: PETSc support : no (has SUNDIALS: no) configure: SLEPc support : no configure: IDA support : no configure: CVODE support : no configure: ARKODE support : no configure: FFTW support : yes configure: NetCDF support : yes configure: Parallel-NetCDF support : no configure: HDF5 support : yes (parallel: no) configure: MUMPS support : no configure: Lapack support : yes configure: Scorep support : no configure: OpenMP support : no (schedule: ) configure: Natural language support: yes (path: ${datarootdir}/locale) configure: configure: ------------------------------- configure: Data analysis configuration configure: ------------------------------- configure: configure: === IDL === configure: configure: Make sure that the tools/idllib directory is in your IDL_PATH configure: e.g. by adding to your ~/.bashrc file configure: configure: export IDL_PATH=+/builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/tools/idllib:'':$IDL_PATH configure: configure: === Python === configure: configure: Make sure that the tools/pylib directory is in your PYTHONPATH configure: e.g. by adding to your ~/.bashrc file configure: configure: export PYTHONPATH=/builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/tools/pylib/:$PYTHONPATH configure: configure: *** Now run 'gmake' to compile BOUT++ *** + make -j4 shared python Compiling field.cxx Compiling nc_format.cxx Compiling boutmesh.cxx Compiling cyclic.cxx Compiling ncxx4.cxx Compiling field2d.cxx In file included from /usr/include/mpich-riscv64/ncFile.h:2, from /usr/include/mpich-riscv64/netcdf:16, from ncxx4.hxx:51, from ncxx4.cxx:23: /usr/include/mpich-riscv64/ncGroup.h:18:14: warning: 'netCDF::file_id' defined but not used [-Wunused-variable] 18 | static int file_id; | ^~~~~~~ Compiling invert_parderiv.cxx Compiling pnetcdf.cxx Compiling h5_format.cxx Compiling parderiv_factory.cxx Compiling field3d.cxx Compiling shiftedmetric.cxx Compiling datafile.cxx Compiling serial_tri.cxx Compiling fieldperp.cxx Compiling fci.cxx Compiling serial_band.cxx Compiling field_data.cxx Compiling dataformat.cxx Compiling identity.cxx Compiling pdd.cxx Compiling formatfactory.cxx Compiling fieldgroup.cxx In file included from /usr/include/mpich-riscv64/ncFile.h:2, from /usr/include/mpich-riscv64/netcdf:16, from impls/netcdf4/ncxx4.hxx:51, from formatfactory.cxx:8: /usr/include/mpich-riscv64/ncGroup.h:18:14: warning: 'netCDF::file_id' defined but not used [-Wunused-variable] 18 | static int file_id; | ^~~~~~~ Compiling gridfromoptions.cxx Compiling invert_laplace.cxx Compiling field_factory.cxx invert_laplace.cxx: In constructor 'Laplacian::Laplacian(Options*, CELL_LOC, Mesh*)': invert_laplace.cxx:100:16: warning: 'virtual void Laplacian::setFlags(int)' is deprecated: Please use setGlobalFlags, setInnerBoundaryFlags and setOuterBoundaryFlags methods instead [-Wdeprecated-declarations] 100 | Laplacian::setFlags(flags); | ^~~~~~~~ In file included from invert_laplace.cxx:36: ../../../include/invert_laplace.hxx:189:16: note: declared here 189 | virtual void setFlags(int f); | ^~~~~~~~ invert_laplace.cxx:100:30: warning: 'virtual void Laplacian::setFlags(int)' is deprecated: Please use setGlobalFlags, setInnerBoundaryFlags and setOuterBoundaryFlags methods instead [-Wdeprecated-declarations] 100 | Laplacian::setFlags(flags); | ^ In file included from invert_laplace.cxx:36: ../../../include/invert_laplace.hxx:189:16: note: declared here 189 | virtual void setFlags(int f); | ^~~~~~~~ invert_laplace.cxx: In function 'int invert_laplace(const FieldPerp&, FieldPerp&, int, const Field2D*, const Field2D*, const Field2D*)': invert_laplace.cxx:770:22: warning: 'virtual void Laplacian::setFlags(int)' is deprecated: Please use setGlobalFlags, setInnerBoundaryFlags and setOuterBoundaryFlags methods instead [-Wdeprecated-declarations] 770 | lap->setFlags(flags); | ^ In file included from invert_laplace.cxx:36: ../../../include/invert_laplace.hxx:189:16: note: declared here 189 | virtual void setFlags(int f); | ^~~~~~~~ invert_laplace.cxx: In function 'int invert_laplace(const Field3D&, Field3D&, int, const Field2D*, const Field2D*, const Field2D*)': invert_laplace.cxx:800:22: warning: 'virtual void Laplacian::setFlags(int)' is deprecated: Please use setGlobalFlags, setInnerBoundaryFlags and setOuterBoundaryFlags methods instead [-Wdeprecated-declarations] 800 | lap->setFlags(flags); | ^ In file included from invert_laplace.cxx:36: ../../../include/invert_laplace.hxx:189:16: note: declared here 189 | virtual void setFlags(int f); | ^~~~~~~~ invert_laplace.cxx: In function 'const Field3D invert_laplace(const Field3D&, int, const Field2D*, const Field2D*, const Field2D*)': invert_laplace.cxx:831:22: warning: 'virtual void Laplacian::setFlags(int)' is deprecated: Please use setGlobalFlags, setInnerBoundaryFlags and setOuterBoundaryFlags methods instead [-Wdeprecated-declarations] 831 | lap->setFlags(flags); | ^ In file included from invert_laplace.cxx:36: ../../../include/invert_laplace.hxx:189:16: note: declared here 189 | virtual void setFlags(int f); | ^~~~~~~~ Compiling spt.cxx Compiling gridfromfile.cxx Compiling laplacexy.cxx Compiling bilinear.cxx Compiling petsc_laplace.cxx Compiling mumps_laplace.cxx Compiling fieldgenerators.cxx Compiling cyclic_laplace.cxx Compiling initialprofiles.cxx Compiling hermite_spline.cxx Compiling difops.cxx Compiling vecops.cxx Compiling shoot_laplace.cxx Compiling monotonic_hermite_spline.cxx Compiling lagrange_4pt.cxx Compiling multigrid_laplace.cxx Compiling vector2d.cxx Compiling naulin_laplace.cxx Compiling interpolation_factory.cxx Compiling vector3d.cxx Compiling multigrid_alg.cxx Compiling where.cxx Compiling interpolation.cxx Compiling globalfield.cxx Compiling multigrid_solver.cxx Compiling generated_fieldops.cxx Compiling mesh.cxx Compiling physicsmodel.cxx Compiling laplacefactory.cxx Compiling laplacexz-cyclic.cxx Compiling smoothing.cxx Compiling laplacexz.cxx Compiling boundary_standard.cxx Compiling sourcex.cxx Compiling laplacexz-petsc.cxx Compiling boundary_factory.cxx Compiling fft_fftw.cxx Compiling gyro_average.cxx gyro_average.cxx: In function 'Field3D gyroPade0(const Field3D&, BoutReal, int)': gyro_average.cxx:170:22: warning: 'virtual void Laplacian::setFlags(int)' is deprecated: Please use setGlobalFlags, setInnerBoundaryFlags and setOuterBoundaryFlags methods instead [-Wdeprecated-declarations] 170 | lap->setFlags(flags); | ^ In file included from ../../include/gyro_average.hxx:36, from gyro_average.cxx:34: ../../include/invert_laplace.hxx:189:16: note: declared here 189 | virtual void setFlags(int f); | ^~~~~~~~ gyro_average.cxx: In function 'Field3D gyroPade0(const Field3D&, const Field2D&, int)': gyro_average.cxx:187:22: warning: 'virtual void Laplacian::setFlags(int)' is deprecated: Please use setGlobalFlags, setInnerBoundaryFlags and setOuterBoundaryFlags methods instead [-Wdeprecated-declarations] 187 | lap->setFlags(flags); | ^ In file included from ../../include/gyro_average.hxx:36, from gyro_average.cxx:34: ../../include/invert_laplace.hxx:189:16: note: declared here 189 | virtual void setFlags(int f); | ^~~~~~~~ gyro_average.cxx: In function 'Field3D gyroPade0(const Field3D&, const Field3D&, int)': gyro_average.cxx:194:37: warning: 'Field3D gyroPade0(const Field3D&, const Field2D&, int)' is deprecated: Please use version with separate inner_boundary_flags and outer_boundary_flags [-Wdeprecated-declarations] 194 | return gyroPade0(f, DC(rho), flags); | ^ gyro_average.cxx:175:9: note: declared here 175 | Field3D gyroPade0(const Field3D& f, const Field2D& rho, int flags) { | ^~~~~~~~~ gyro_average.cxx: In function 'Field3D gyroPade1(const Field3D&, BoutReal, int)': gyro_average.cxx:209:22: warning: 'virtual void Laplacian::setFlags(int)' is deprecated: Please use setGlobalFlags, setInnerBoundaryFlags and setOuterBoundaryFlags methods instead [-Wdeprecated-declarations] 209 | lap->setFlags(flags); | ^ In file included from ../../include/gyro_average.hxx:36, from gyro_average.cxx:34: ../../include/invert_laplace.hxx:189:16: note: declared here 189 | virtual void setFlags(int f); | ^~~~~~~~ gyro_average.cxx: In function 'Field3D gyroPade1(const Field3D&, const Field2D&, int)': gyro_average.cxx:226:22: warning: 'virtual void Laplacian::setFlags(int)' is deprecated: Please use setGlobalFlags, setInnerBoundaryFlags and setOuterBoundaryFlags methods instead [-Wdeprecated-declarations] 226 | lap->setFlags(flags); | ^ In file included from ../../include/gyro_average.hxx:36, from gyro_average.cxx:34: ../../include/invert_laplace.hxx:189:16: note: declared here 189 | virtual void setFlags(int f); | ^~~~~~~~ gyro_average.cxx: In function 'Field3D gyroPade1(const Field3D&, const Field3D&, int)': gyro_average.cxx:232:37: warning: 'Field3D gyroPade1(const Field3D&, const Field2D&, int)' is deprecated: Please use version with separate inner_boundary_flags and outer_boundary_flags [-Wdeprecated-declarations] 232 | return gyroPade1(f, DC(rho), flags); | ^ gyro_average.cxx:214:9: note: declared here 214 | Field3D gyroPade1(const Field3D& f, const Field2D& rho, int flags) { | ^~~~~~~~~ gyro_average.cxx: In function 'Field2D gyroPade1(const Field2D&, const Field2D&, int)': gyro_average.cxx:238:34: warning: 'Field3D gyroPade1(const Field3D&, const Field2D&, int)' is deprecated: Please use version with separate inner_boundary_flags and outer_boundary_flags [-Wdeprecated-declarations] 238 | tmp = gyroPade1(tmp, rho, flags); | ^ gyro_average.cxx:214:9: note: declared here 214 | Field3D gyroPade1(const Field3D& f, const Field2D& rho, int flags) { | ^~~~~~~~~ gyro_average.cxx: In function 'Field3D gyroPade2(const Field3D&, BoutReal, int)': gyro_average.cxx:243:53: warning: 'Field3D gyroPade1(const Field3D&, BoutReal, int)' is deprecated: Please use version with separate inner_boundary_flags and outer_boundary_flags [-Wdeprecated-declarations] 243 | Field3D result = gyroPade1(gyroPade1(f, rho, flags), rho, flags); | ^ gyro_average.cxx:197:9: note: declared here 197 | Field3D gyroPade1(const Field3D& f, BoutReal rho, int flags) { | ^~~~~~~~~ gyro_average.cxx:243:66: warning: 'Field3D gyroPade1(const Field3D&, BoutReal, int)' is deprecated: Please use version with separate inner_boundary_flags and outer_boundary_flags [-Wdeprecated-declarations] 243 | Field3D result = gyroPade1(gyroPade1(f, rho, flags), rho, flags); | ^ gyro_average.cxx:197:9: note: declared here 197 | Field3D gyroPade1(const Field3D& f, BoutReal rho, int flags) { | ^~~~~~~~~ gyro_average.cxx: In function 'Field3D gyroPade2(const Field3D&, const Field2D&, int)': gyro_average.cxx:251:53: warning: 'Field3D gyroPade1(const Field3D&, const Field2D&, int)' is deprecated: Please use version with separate inner_boundary_flags and outer_boundary_flags [-Wdeprecated-declarations] 251 | Field3D result = gyroPade1(gyroPade1(f, rho, flags), rho, flags); | ^ gyro_average.cxx:214:9: note: declared here 214 | Field3D gyroPade1(const Field3D& f, const Field2D& rho, int flags) { | ^~~~~~~~~ gyro_average.cxx:251:66: warning: 'Field3D gyroPade1(const Field3D&, const Field2D&, int)' is deprecated: Please use version with separate inner_boundary_flags and outer_boundary_flags [-Wdeprecated-declarations] 251 | Field3D result = gyroPade1(gyroPade1(f, rho, flags), rho, flags); | ^ gyro_average.cxx:214:9: note: declared here 214 | Field3D gyroPade1(const Field3D& f, const Field2D& rho, int flags) { | ^~~~~~~~~ gyro_average.cxx: In function 'Field3D gyroPade2(const Field3D&, const Field3D&, int)': gyro_average.cxx:260:37: warning: 'Field3D gyroPade2(const Field3D&, const Field2D&, int)' is deprecated: Please use version with separate inner_boundary_flags and outer_boundary_flags [-Wdeprecated-declarations] 260 | return gyroPade2(f, DC(rho), flags); | ^ gyro_average.cxx:250:9: note: declared here 250 | Field3D gyroPade2(const Field3D& f, const Field2D& rho, int flags) { | ^~~~~~~~~ Compiling snb.cxx Compiling arkode.cxx Compiling pvode.cxx Compiling boundary_region.cxx Compiling lapack_routines.cxx Compiling cvode.cxx Compiling options_ini.cxx Compiling meshfactory.cxx Compiling ida.cxx Compiling bout_types.cxx Compiling petsc.cxx Compiling snes.cxx Compiling imex-bdf2.cxx Compiling power.cxx Compiling options_netcdf.cxx Compiling surfaceiter.cxx Compiling slepc.cxx Compiling coordinates.cxx In file included from /usr/include/mpich-riscv64/ncFile.h:2, from /usr/include/mpich-riscv64/netcdf:16, from options_netcdf.cxx:7: /usr/include/mpich-riscv64/ncGroup.h:18:14: warning: 'netCDF::file_id' defined but not used [-Wunused-variable] 18 | static int file_id; | ^~~~~~~ Compiling solver.cxx Compiling karniadakis.cxx Compiling boutexception.cxx Compiling derivs.cxx Compiling rk4.cxx Compiling msg_stack.cxx Compiling solverfactory.cxx Compiling index_derivs.cxx Compiling euler.cxx Compiling options.cxx Compiling rk3-ssp.cxx Compiling rkf45.cxx Compiling output.cxx Compiling rkgeneric.cxx Compiling utils.cxx Compiling cashkarp.cxx Compiling optionsreader.cxx Compiling parallel_boundary_region.cxx Compiling rk4simple.cxx Compiling rkf34.cxx Compiling boutcomm.cxx Compiling timer.cxx Compiling range.cxx Compiling petsclib.cxx Compiling expressionparser.cxx Compiling parallel_boundary_op.cxx Compiling rkscheme.cxx Compiling slepclib.cxx Compiling type_name.cxx Compiling split-rk.cxx Compiling rkschemefactory.cxx Compiling fv_ops.cxx Compiling bout++.cxx Recreating libbout++.a make -C tools/pylib python3 Creating libbout++.so make[1]: Entering directory '/builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/tools/pylib' PY=python3 make -C _boutcore_build pseudoinstall make[2]: Entering directory '/builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/tools/pylib/_boutcore_build' Generating boutcore.pyx Generating setup.py Generating helper.cxx Generating helper.h Generating resolve_enum.pxd Generating boutcpp.pxd yes - deflt yes - centre yes - xlow yes - ylow yes - zlow yes - vshift yes - deflt yes - u1 yes - u2 yes - c2 yes - w2 yes - w3 yes - c4 yes - u3 yes - fft yes - split yes - s2 yes - all yes - nobndry yes - nox yes - noy yes - noz yes - X yes - Y yes - Z yes - YAligned yes - YOrthogonal yes - Standard yes - Aligned yes - Standard yes - Average yes - C2L yes - L2C yes - Standard yes - StandardSecond yes - StandardFourth yes - Upwind yes - Flux yes - standard yes - simple yes - arakawa yes - ctu yes - arakawa_old /usr/lib64/python3.9/site-packages/Cython/Compiler/Main.py:369: FutureWarning: Cython directive 'language_level' not set, using 2 for now (Py2). This will change in a later release! File: /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/tools/pylib/_boutcore_build/boutcore.pyx tree = Parsing.p_module(s, pxd, full_module_name) warning: resolve_enum.pxd:49:25: 'deflt' redeclared warning: resolve_enum.pxd:189:28: 'Standard' redeclared warning: resolve_enum.pxd:223:19: 'Standard' redeclared Warning: passing language='c++' to cythonize() is deprecated. Instead, put "# distutils: language=c++" in your .pyx or .pxd file(s) Compiling boutcore.pyx because it changed. [1/1] Cythonizing boutcore.pyx running build_ext building 'boutcore' extension creating build creating build/temp.linux-riscv64-3.9 mpic++ -Wno-unused-result -Wsign-compare -DNDEBUG -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -fasynchronous-unwind-tables -fstack-clash-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -fasynchronous-unwind-tables -fstack-clash-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -fasynchronous-unwind-tables -fstack-clash-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include -I/usr/include -I/usr/include -I. -I/usr/include/python3.9 -c boutcore.cpp -o build/temp.linux-riscv64-3.9/boutcore.o -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection -DHAS_PRETTY_FUNCTION -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -DSIGHANDLE -DLOGCOLOR -DBOUT_VERSION_STRING=4.3.1 -DBOUT_VERSION_DOUBLE=4.31 -DBACKTRACE -fPIC -DBOUT_HAS_FFTW -DNCDF4 -DHDF5 -DLAPACK -DBOUT_HAS_PVODE -DBOUT_HAS_GETTEXT -DBOUT_LOCALE_PATH=/usr/share/locale -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection -DHAS_PRETTY_FUNCTION -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -DSIGHANDLE -DLOGCOLOR -DBOUT_VERSION_STRING=4.3.1 -DBOUT_VERSION_DOUBLE=4.31 -DBACKTRACE -fPIC -DBOUT_HAS_FFTW -DNCDF4 -DHDF5 -DLAPACK -DBOUT_HAS_PVODE -DBOUT_HAS_GETTEXT -DBOUT_LOCALE_PATH=/usr/share/locale -DBOUT_FLAGS_STRING=-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection -DHAS_PRETTY_FUNCTION -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -DSIGHANDLE -DLOGCOLOR -DBOUT_VERSION_STRING=4.3.1 -DBOUT_VERSION_DOUBLE=4.31 -DBACKTRACE -fPIC -DBOUT_HAS_FFTW -DNCDF4 -DHDF5 -DLAPACK -DBOUT_HAS_PVODE -DBOUT_HAS_GETTEXT -DBOUT_LOCALE_PATH=/usr/share/locale -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection -DHAS_PRETTY_FUNCTION -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -DSIGHANDLE -DLOGCOLOR -DBOUT_VERSION_STRING=4.3.1 -DBOUT_VERSION_DOUBLE=4.31 -DBACKTRACE -fPIC -DBOUT_HAS_FFTW -DNCDF4 -DHDF5 -DLAPACK -DBOUT_HAS_PVODE -DBOUT_HAS_GETTEXT -DBOUT_LOCALE_PATH=/usr/share/locale In file included from /usr/lib64/python3.9/site-packages/numpy/core/include/numpy/ndarraytypes.h:1822, from /usr/lib64/python3.9/site-packages/numpy/core/include/numpy/ndarrayobject.h:12, from /usr/lib64/python3.9/site-packages/numpy/core/include/numpy/arrayobject.h:4, from boutcore.cpp:856: /usr/lib64/python3.9/site-packages/numpy/core/include/numpy/npy_1_7_deprecated_api.h:17:2: warning: #warning "Using deprecated NumPy API, disable it with " "#define NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp] 17 | #warning "Using deprecated NumPy API, disable it with " \ | ^~~~~~~ boutcore.cpp: In function ‘PyObject* __pyx_pf_8boutcore_6DDX(PyObject*, __pyx_obj_8boutcore_Field3D*, PyObject*, PyObject*, PyObject*)’: boutcore.cpp:37504:96: warning: ‘Field3D DDX(const Field3D&, CELL_LOC, const string&, REGION)’ is deprecated: Please use #func(const #T& f, CELL_LOC outloc = CELL_DEFAULT, const std::string& method = "DEFAULT", const std::string& region = "RGN_ALL") instead [-Wdeprecated-declarations] 37504 | __pyx_t_6 = DDX((__pyx_v_field->cobj[0]), __pyx_v_outloc_, __pyx_v_method_, __pyx_v_region_); | ^ In file included from boutcore.cpp:848: /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/derivs.hxx:95:34: note: declared here 95 | DERIV_FUNC_REGION_ENUM_TO_STRING(DDX, Field3D) | ^~~ /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/derivs.hxx:46:10: note: in definition of macro ‘DERIV_FUNC_REGION_ENUM_TO_STRING’ 46 | inline T func(const T& f, CELL_LOC outloc, const std::string& method, \ | ^~~~ boutcore.cpp: In function ‘PyObject* __pyx_pf_8boutcore_8D2DX2(PyObject*, __pyx_obj_8boutcore_Field3D*, PyObject*, PyObject*, PyObject*)’: boutcore.cpp:37794:98: warning: ‘Field3D D2DX2(const Field3D&, CELL_LOC, const string&, REGION)’ is deprecated: Please use #func(const #T& f, CELL_LOC outloc = CELL_DEFAULT, const std::string& method = "DEFAULT", const std::string& region = "RGN_ALL") instead [-Wdeprecated-declarations] 37794 | __pyx_t_6 = D2DX2((__pyx_v_field->cobj[0]), __pyx_v_outloc_, __pyx_v_method_, __pyx_v_region_); | ^ In file included from boutcore.cpp:848: /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/derivs.hxx:225:34: note: declared here 225 | DERIV_FUNC_REGION_ENUM_TO_STRING(D2DX2, Field3D) | ^~~~~ /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/derivs.hxx:46:10: note: in definition of macro ‘DERIV_FUNC_REGION_ENUM_TO_STRING’ 46 | inline T func(const T& f, CELL_LOC outloc, const std::string& method, \ | ^~~~ boutcore.cpp: In function ‘PyObject* __pyx_pf_8boutcore_10VDDX(PyObject*, __pyx_obj_8boutcore_Field3D*, __pyx_obj_8boutcore_Field3D*, PyObject*, PyObject*, PyObject*)’: boutcore.cpp:38096:126: warning: ‘Field3D VDDX(const Field3D&, const Field3D&, CELL_LOC, const string&, REGION)’ is deprecated: Please use #func(const #T1 v, const #T2& f, CELL_LOC outloc = CELL_DEFAULT, const std::string& method = "DEFAULT", const std::string& region = "RGN_ALL") instead [-Wdeprecated-declarations] 38096 | __pyx_t_6 = VDDX((__pyx_v_velocity->cobj[0]), (__pyx_v_field->cobj[0]), __pyx_v_outloc_, __pyx_v_method_, __pyx_v_region_); | ^ In file included from boutcore.cpp:848: /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/derivs.hxx:420:35: note: declared here 420 | VDERIV_FUNC_REGION_ENUM_TO_STRING(VDDX, Field3D, Field3D, Field3D) | ^~~~ /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/derivs.hxx:66:10: note: in definition of macro ‘VDERIV_FUNC_REGION_ENUM_TO_STRING’ 66 | inline T func(const T1& v, const T2& f, CELL_LOC outloc, const std::string& method, \ | ^~~~ boutcore.cpp: In function ‘PyObject* __pyx_pf_8boutcore_12FDDX(PyObject*, __pyx_obj_8boutcore_Field3D*, __pyx_obj_8boutcore_Field3D*, PyObject*, PyObject*, PyObject*)’: boutcore.cpp:38398:126: warning: ‘Field3D FDDX(const Field3D&, const Field3D&, CELL_LOC, const string&, REGION)’ is deprecated: Please use #func(const #T1 v, const #T2& f, CELL_LOC outloc = CELL_DEFAULT, const std::string& method = "DEFAULT", const std::string& region = "RGN_ALL") instead [-Wdeprecated-declarations] 38398 | __pyx_t_6 = FDDX((__pyx_v_velocity->cobj[0]), (__pyx_v_field->cobj[0]), __pyx_v_outloc_, __pyx_v_method_, __pyx_v_region_); | ^ In file included from boutcore.cpp:848: /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/derivs.hxx:539:35: note: declared here 539 | VDERIV_FUNC_REGION_ENUM_TO_STRING(FDDX, Field3D, Field3D, Field3D) | ^~~~ /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/derivs.hxx:66:10: note: in definition of macro ‘VDERIV_FUNC_REGION_ENUM_TO_STRING’ 66 | inline T func(const T1& v, const T2& f, CELL_LOC outloc, const std::string& method, \ | ^~~~ boutcore.cpp: In function ‘PyObject* __pyx_pf_8boutcore_14DDY(PyObject*, __pyx_obj_8boutcore_Field3D*, PyObject*, PyObject*, PyObject*)’: boutcore.cpp:38688:96: warning: ‘Field3D DDY(const Field3D&, CELL_LOC, const string&, REGION)’ is deprecated: Please use #func(const #T& f, CELL_LOC outloc = CELL_DEFAULT, const std::string& method = "DEFAULT", const std::string& region = "RGN_ALL") instead [-Wdeprecated-declarations] 38688 | __pyx_t_6 = DDY((__pyx_v_field->cobj[0]), __pyx_v_outloc_, __pyx_v_method_, __pyx_v_region_); | ^ In file included from boutcore.cpp:848: /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/derivs.hxx:127:34: note: declared here 127 | DERIV_FUNC_REGION_ENUM_TO_STRING(DDY, Field3D) | ^~~ /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/derivs.hxx:46:10: note: in definition of macro ‘DERIV_FUNC_REGION_ENUM_TO_STRING’ 46 | inline T func(const T& f, CELL_LOC outloc, const std::string& method, \ | ^~~~ boutcore.cpp: In function ‘PyObject* __pyx_pf_8boutcore_16D2DY2(PyObject*, __pyx_obj_8boutcore_Field3D*, PyObject*, PyObject*, PyObject*)’: boutcore.cpp:38978:98: warning: ‘Field3D D2DY2(const Field3D&, CELL_LOC, const string&, REGION)’ is deprecated: Please use #func(const #T& f, CELL_LOC outloc = CELL_DEFAULT, const std::string& method = "DEFAULT", const std::string& region = "RGN_ALL") instead [-Wdeprecated-declarations] 38978 | __pyx_t_6 = D2DY2((__pyx_v_field->cobj[0]), __pyx_v_outloc_, __pyx_v_method_, __pyx_v_region_); | ^ In file included from boutcore.cpp:848: /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/derivs.hxx:257:34: note: declared here 257 | DERIV_FUNC_REGION_ENUM_TO_STRING(D2DY2, Field3D) | ^~~~~ /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/derivs.hxx:46:10: note: in definition of macro ‘DERIV_FUNC_REGION_ENUM_TO_STRING’ 46 | inline T func(const T& f, CELL_LOC outloc, const std::string& method, \ | ^~~~ boutcore.cpp: In function ‘PyObject* __pyx_pf_8boutcore_18VDDY(PyObject*, __pyx_obj_8boutcore_Field3D*, __pyx_obj_8boutcore_Field3D*, PyObject*, PyObject*, PyObject*)’: boutcore.cpp:39280:126: warning: ‘Field3D VDDY(const Field3D&, const Field3D&, CELL_LOC, const string&, REGION)’ is deprecated: Please use #func(const #T1 v, const #T2& f, CELL_LOC outloc = CELL_DEFAULT, const std::string& method = "DEFAULT", const std::string& region = "RGN_ALL") instead [-Wdeprecated-declarations] 39280 | __pyx_t_6 = VDDY((__pyx_v_velocity->cobj[0]), (__pyx_v_field->cobj[0]), __pyx_v_outloc_, __pyx_v_method_, __pyx_v_region_); | ^ In file included from boutcore.cpp:848: /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/derivs.hxx:454:35: note: declared here 454 | VDERIV_FUNC_REGION_ENUM_TO_STRING(VDDY, Field3D, Field3D, Field3D) | ^~~~ /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/derivs.hxx:66:10: note: in definition of macro ‘VDERIV_FUNC_REGION_ENUM_TO_STRING’ 66 | inline T func(const T1& v, const T2& f, CELL_LOC outloc, const std::string& method, \ | ^~~~ boutcore.cpp: In function ‘PyObject* __pyx_pf_8boutcore_20FDDY(PyObject*, __pyx_obj_8boutcore_Field3D*, __pyx_obj_8boutcore_Field3D*, PyObject*, PyObject*, PyObject*)’: boutcore.cpp:39582:126: warning: ‘Field3D FDDY(const Field3D&, const Field3D&, CELL_LOC, const string&, REGION)’ is deprecated: Please use #func(const #T1 v, const #T2& f, CELL_LOC outloc = CELL_DEFAULT, const std::string& method = "DEFAULT", const std::string& region = "RGN_ALL") instead [-Wdeprecated-declarations] 39582 | __pyx_t_6 = FDDY((__pyx_v_velocity->cobj[0]), (__pyx_v_field->cobj[0]), __pyx_v_outloc_, __pyx_v_method_, __pyx_v_region_); | ^ In file included from boutcore.cpp:848: /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/derivs.hxx:573:35: note: declared here 573 | VDERIV_FUNC_REGION_ENUM_TO_STRING(FDDY, Field3D, Field3D, Field3D) | ^~~~ /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/derivs.hxx:66:10: note: in definition of macro ‘VDERIV_FUNC_REGION_ENUM_TO_STRING’ 66 | inline T func(const T1& v, const T2& f, CELL_LOC outloc, const std::string& method, \ | ^~~~ boutcore.cpp: In function ‘PyObject* __pyx_pf_8boutcore_22DDZ(PyObject*, __pyx_obj_8boutcore_Field3D*, PyObject*, PyObject*, PyObject*)’: boutcore.cpp:39872:96: warning: ‘Field3D DDZ(const Field3D&, CELL_LOC, const string&, REGION)’ is deprecated: Please use #func(const #T& f, CELL_LOC outloc = CELL_DEFAULT, const std::string& method = "DEFAULT", const std::string& region = "RGN_ALL") instead [-Wdeprecated-declarations] 39872 | __pyx_t_6 = DDZ((__pyx_v_field->cobj[0]), __pyx_v_outloc_, __pyx_v_method_, __pyx_v_region_); | ^ In file included from boutcore.cpp:848: /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/derivs.hxx:159:34: note: declared here 159 | DERIV_FUNC_REGION_ENUM_TO_STRING(DDZ, Field3D) | ^~~ /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/derivs.hxx:46:10: note: in definition of macro ‘DERIV_FUNC_REGION_ENUM_TO_STRING’ 46 | inline T func(const T& f, CELL_LOC outloc, const std::string& method, \ | ^~~~ boutcore.cpp: In function ‘PyObject* __pyx_pf_8boutcore_24D2DZ2(PyObject*, __pyx_obj_8boutcore_Field3D*, PyObject*, PyObject*, PyObject*)’: boutcore.cpp:40162:98: warning: ‘Field3D D2DZ2(const Field3D&, CELL_LOC, const string&, REGION)’ is deprecated: Please use #func(const #T& f, CELL_LOC outloc = CELL_DEFAULT, const std::string& method = "DEFAULT", const std::string& region = "RGN_ALL") instead [-Wdeprecated-declarations] 40162 | __pyx_t_6 = D2DZ2((__pyx_v_field->cobj[0]), __pyx_v_outloc_, __pyx_v_method_, __pyx_v_region_); | ^ In file included from boutcore.cpp:848: /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/derivs.hxx:289:34: note: declared here 289 | DERIV_FUNC_REGION_ENUM_TO_STRING(D2DZ2, Field3D) | ^~~~~ /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/derivs.hxx:46:10: note: in definition of macro ‘DERIV_FUNC_REGION_ENUM_TO_STRING’ 46 | inline T func(const T& f, CELL_LOC outloc, const std::string& method, \ | ^~~~ boutcore.cpp: In function ‘PyObject* __pyx_pf_8boutcore_26VDDZ(PyObject*, __pyx_obj_8boutcore_Field3D*, __pyx_obj_8boutcore_Field3D*, PyObject*, PyObject*, PyObject*)’: boutcore.cpp:40464:126: warning: ‘Field3D VDDZ(const Field3D&, const Field3D&, CELL_LOC, const string&, REGION)’ is deprecated: Please use #func(const #T1 v, const #T2& f, CELL_LOC outloc = CELL_DEFAULT, const std::string& method = "DEFAULT", const std::string& region = "RGN_ALL") instead [-Wdeprecated-declarations] 40464 | __pyx_t_6 = VDDZ((__pyx_v_velocity->cobj[0]), (__pyx_v_field->cobj[0]), __pyx_v_outloc_, __pyx_v_method_, __pyx_v_region_); | ^ In file included from boutcore.cpp:848: /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/derivs.hxx:488:35: note: declared here 488 | VDERIV_FUNC_REGION_ENUM_TO_STRING(VDDZ, Field3D, Field3D, Field3D) | ^~~~ /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/derivs.hxx:66:10: note: in definition of macro ‘VDERIV_FUNC_REGION_ENUM_TO_STRING’ 66 | inline T func(const T1& v, const T2& f, CELL_LOC outloc, const std::string& method, \ | ^~~~ boutcore.cpp: In function ‘PyObject* __pyx_pf_8boutcore_28FDDZ(PyObject*, __pyx_obj_8boutcore_Field3D*, __pyx_obj_8boutcore_Field3D*, PyObject*, PyObject*, PyObject*)’: boutcore.cpp:40766:126: warning: ‘Field3D FDDZ(const Field3D&, const Field3D&, CELL_LOC, const string&, REGION)’ is deprecated: Please use #func(const #T1 v, const #T2& f, CELL_LOC outloc = CELL_DEFAULT, const std::string& method = "DEFAULT", const std::string& region = "RGN_ALL") instead [-Wdeprecated-declarations] 40766 | __pyx_t_6 = FDDZ((__pyx_v_velocity->cobj[0]), (__pyx_v_field->cobj[0]), __pyx_v_outloc_, __pyx_v_method_, __pyx_v_region_); | ^ In file included from boutcore.cpp:848: /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/derivs.hxx:607:35: note: declared here 607 | VDERIV_FUNC_REGION_ENUM_TO_STRING(FDDZ, Field3D, Field3D, Field3D) | ^~~~ /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/derivs.hxx:66:10: note: in definition of macro ‘VDERIV_FUNC_REGION_ENUM_TO_STRING’ 66 | inline T func(const T1& v, const T2& f, CELL_LOC outloc, const std::string& method, \ | ^~~~ boutcore.cpp: In function ‘PyObject* __Pyx_CyFunction_descr_get(PyObject*, PyObject*, PyObject*)’: boutcore.cpp:64265:86: warning: unused parameter ‘type’ [-Wunused-parameter] 64265 | static PyObject *__Pyx_CyFunction_descr_get(PyObject *func, PyObject *obj, PyObject *type) | ~~~~~~~~~~^~~~ boutcore.cpp: At global scope: boutcore.cpp:24946:45: warning: ‘__pyx_obj_8boutcore_Vector2D* __pyx_f_8boutcore_v2dFromObj(Vector2D)’ defined but not used [-Wunused-function] 24946 | static struct __pyx_obj_8boutcore_Vector2D *__pyx_f_8boutcore_v2dFromObj(Vector2D __pyx_v_i) { | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ boutcore.cpp: In function ‘__pyx_f_12resolve_enum_resolve_cell_loc(_object*)’: boutcore.cpp:49035:10: warning: ‘__pyx_r’ may be used uninitialized in this function [-Wmaybe-uninitialized] 49035 | return __pyx_r; | ^~~~~~~ boutcore.cpp: In function ‘__pyx_pw_8boutcore_45bracket(_object*, _object*, _object*)’: boutcore.cpp:42433:141: warning: ‘__pyx_r’ may be used uninitialized in this function [-Wmaybe-uninitialized] 42433 | __pyx_t_1 = ((PyObject *)__pyx_f_8boutcore_f3dFromObj(bracket((__pyx_v_a->cobj[0]), (__pyx_v_b->cobj[0]), __pyx_v_method_, __pyx_v_outloc_))); if (unlikely(!__pyx_t_1)) __PYX_ERR(0, 2555, __pyx_L1_error) | ^ boutcore.cpp:50546:18: note: ‘__pyx_r’ was declared here 50546 | BRACKET_METHOD __pyx_r; | ^~~~~~~ boutcore.cpp: In function ‘__pyx_f_12resolve_enum_resolve_region(_object*)’: boutcore.cpp:49859:10: warning: ‘__pyx_r’ may be used uninitialized in this function [-Wmaybe-uninitialized] 49859 | return __pyx_r; | ^~~~~~~ mpic++ -Wno-unused-result -Wsign-compare -DNDEBUG -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -fasynchronous-unwind-tables -fstack-clash-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -fasynchronous-unwind-tables -fstack-clash-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -fasynchronous-unwind-tables -fstack-clash-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include -I/usr/include -I/usr/include -I. -I/usr/include/python3.9 -c boutexception_helper.cxx -o build/temp.linux-riscv64-3.9/boutexception_helper.o -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection -DHAS_PRETTY_FUNCTION -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -DSIGHANDLE -DLOGCOLOR -DBOUT_VERSION_STRING=4.3.1 -DBOUT_VERSION_DOUBLE=4.31 -DBACKTRACE -fPIC -DBOUT_HAS_FFTW -DNCDF4 -DHDF5 -DLAPACK -DBOUT_HAS_PVODE -DBOUT_HAS_GETTEXT -DBOUT_LOCALE_PATH=/usr/share/locale -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection -DHAS_PRETTY_FUNCTION -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -DSIGHANDLE -DLOGCOLOR -DBOUT_VERSION_STRING=4.3.1 -DBOUT_VERSION_DOUBLE=4.31 -DBACKTRACE -fPIC -DBOUT_HAS_FFTW -DNCDF4 -DHDF5 -DLAPACK -DBOUT_HAS_PVODE -DBOUT_HAS_GETTEXT -DBOUT_LOCALE_PATH=/usr/share/locale -DBOUT_FLAGS_STRING=-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection -DHAS_PRETTY_FUNCTION -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -DSIGHANDLE -DLOGCOLOR -DBOUT_VERSION_STRING=4.3.1 -DBOUT_VERSION_DOUBLE=4.31 -DBACKTRACE -fPIC -DBOUT_HAS_FFTW -DNCDF4 -DHDF5 -DLAPACK -DBOUT_HAS_PVODE -DBOUT_HAS_GETTEXT -DBOUT_LOCALE_PATH=/usr/share/locale -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection -DHAS_PRETTY_FUNCTION -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -DSIGHANDLE -DLOGCOLOR -DBOUT_VERSION_STRING=4.3.1 -DBOUT_VERSION_DOUBLE=4.31 -DBACKTRACE -fPIC -DBOUT_HAS_FFTW -DNCDF4 -DHDF5 -DLAPACK -DBOUT_HAS_PVODE -DBOUT_HAS_GETTEXT -DBOUT_LOCALE_PATH=/usr/share/locale mpic++ -Wno-unused-result -Wsign-compare -DNDEBUG -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -fasynchronous-unwind-tables -fstack-clash-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -fasynchronous-unwind-tables -fstack-clash-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -fasynchronous-unwind-tables -fstack-clash-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include -I/usr/include -I/usr/include -I. -I/usr/include/python3.9 -c helper.cxx -o build/temp.linux-riscv64-3.9/helper.o -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection -DHAS_PRETTY_FUNCTION -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -DSIGHANDLE -DLOGCOLOR -DBOUT_VERSION_STRING=4.3.1 -DBOUT_VERSION_DOUBLE=4.31 -DBACKTRACE -fPIC -DBOUT_HAS_FFTW -DNCDF4 -DHDF5 -DLAPACK -DBOUT_HAS_PVODE -DBOUT_HAS_GETTEXT -DBOUT_LOCALE_PATH=/usr/share/locale -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection -DHAS_PRETTY_FUNCTION -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -DSIGHANDLE -DLOGCOLOR -DBOUT_VERSION_STRING=4.3.1 -DBOUT_VERSION_DOUBLE=4.31 -DBACKTRACE -fPIC -DBOUT_HAS_FFTW -DNCDF4 -DHDF5 -DLAPACK -DBOUT_HAS_PVODE -DBOUT_HAS_GETTEXT -DBOUT_LOCALE_PATH=/usr/share/locale -DBOUT_FLAGS_STRING=-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection -DHAS_PRETTY_FUNCTION -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -DSIGHANDLE -DLOGCOLOR -DBOUT_VERSION_STRING=4.3.1 -DBOUT_VERSION_DOUBLE=4.31 -DBACKTRACE -fPIC -DBOUT_HAS_FFTW -DNCDF4 -DHDF5 -DLAPACK -DBOUT_HAS_PVODE -DBOUT_HAS_GETTEXT -DBOUT_LOCALE_PATH=/usr/share/locale -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection -DHAS_PRETTY_FUNCTION -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -DSIGHANDLE -DLOGCOLOR -DBOUT_VERSION_STRING=4.3.1 -DBOUT_VERSION_DOUBLE=4.31 -DBACKTRACE -fPIC -DBOUT_HAS_FFTW -DNCDF4 -DHDF5 -DLAPACK -DBOUT_HAS_PVODE -DBOUT_HAS_GETTEXT -DBOUT_LOCALE_PATH=/usr/share/locale mpic++ -pthread -shared -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -g -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -g -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection build/temp.linux-riscv64-3.9/boutcore.o build/temp.linux-riscv64-3.9/boutexception_helper.o build/temp.linux-riscv64-3.9/helper.o -L/builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/lib -L/usr/lib64 -L/usr/lib64 -L/builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/lib -L/usr/lib64 -lm -lbout++ -ldl -lm -lfftw3 -lnetcdf_c++4 -lnetcdf -lhdf5_hl -lhdf5 -lhdf5_hl -lsz -lz -ldl -lm -lblas -llapack -lpvode -lpvpre -o /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/tools/pylib/_boutcore_build/boutcore.cpython-39-riscv64-linux-gnu.so -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld cp boutcore*.so .. make[2]: Leaving directory '/builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/tools/pylib/_boutcore_build' make[1]: Leaving directory '/builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/tools/pylib' ++ pwd + export LD_LIBRARY_PATH=/builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/lib + LD_LIBRARY_PATH=/builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/lib + make -j4 -C manual html make: Entering directory '/builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/manual' cd doxygen && doxygen Doxyfile warning: Tag 'TCL_SUBST' at line 247 of file 'Doxyfile' has become obsolete. To avoid this warning please remove this line from your configuration file or upgrade it using "doxygen -u" warning: Tag 'PERL_PATH' at line 2149 of file 'Doxyfile' has become obsolete. To avoid this warning please remove this line from your configuration file or upgrade it using "doxygen -u" warning: Tag 'MSCGEN_PATH' at line 2171 of file 'Doxyfile' has become obsolete. To avoid this warning please remove this line from your configuration file or upgrade it using "doxygen -u" warning: argument 'a4wide' for option PAPER_TYPE is not a valid enum value Using the default: a4! Doxygen version used: 1.8.18 Notice: Output directory 'bout' does not exist. I have created it for you. Searching for include files... Searching for example files... Searching for images... Searching for dot files... Searching for msc files... Searching for dia files... 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directory /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/solver/impls/imex-bdf2 Searching for files in directory /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/solver/impls/karniadakis Searching for files in directory /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/solver/impls/petsc Searching for files in directory /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/solver/impls/power Searching for files in directory /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/solver/impls/pvode Searching for files in directory /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/solver/impls/rk3-ssp Searching for files in directory /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/solver/impls/rk4 Searching for files in directory /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/solver/impls/rkgeneric Searching for files in directory /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/solver/impls/rkgeneric/impls Searching for files in directory 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Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/boundary_factory.hxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/boundary_factory.hxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/boundary_op.hxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/boundary_op.hxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/boundary_region.hxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/boundary_region.hxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/boundary_standard.hxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/boundary_standard.hxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/bout/array.hxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/bout/array.hxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/bout/assert.hxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/bout/assert.hxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/bout/constants.hxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/bout/constants.hxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/bout/coordinates.hxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/bout/coordinates.hxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/bout/deprecated.hxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/bout/deprecated.hxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/bout/deriv_store.hxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/bout/deriv_store.hxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/bout/expr.hxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/bout/expr.hxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/bout/field_visitor.hxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/bout/field_visitor.hxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/bout/fieldgroup.hxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/bout/fieldgroup.hxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/bout/format.hxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/bout/format.hxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/bout/fv_ops.hxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/bout/fv_ops.hxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/bout/generic_factory.hxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/bout/generic_factory.hxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/bout/globalfield.hxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/bout/globalfield.hxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/bout/griddata.hxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/bout/griddata.hxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/bout/index_derivs.hxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/bout/index_derivs.hxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/bout/index_derivs_interface.hxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/bout/index_derivs_interface.hxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/bout/invert/laplacexy.hxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/bout/invert/laplacexy.hxx... 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Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/derivs.hxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/difops.hxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/difops.hxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/fft.hxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/fft.hxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/field.hxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/field.hxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/field2d.hxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/field2d.hxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/field3d.hxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/field3d.hxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/field_data.hxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/field_data.hxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/field_factory.hxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/field_factory.hxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/fieldperp.hxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/fieldperp.hxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/globals.hxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/globals.hxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/gyro_average.hxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/gyro_average.hxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/initialprofiles.hxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/initialprofiles.hxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/interpolation.hxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/interpolation.hxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/interpolation_factory.hxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/interpolation_factory.hxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/invert_laplace.hxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/invert_laplace.hxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/invert_parderiv.hxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/invert_parderiv.hxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/lapack_routines.hxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/lapack_routines.hxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/mask.hxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/mask.hxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/msg_stack.hxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/msg_stack.hxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/multiostream.hxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/multiostream.hxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/options.hxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/options.hxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/options_netcdf.hxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/options_netcdf.hxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/optionsreader.hxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/optionsreader.hxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/output.hxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/output.hxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/parallel_boundary_op.hxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/parallel_boundary_op.hxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/parallel_boundary_region.hxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/parallel_boundary_region.hxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/pvode/band.h... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/pvode/band.h... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/pvode/cvdiag.h... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/pvode/cvdiag.h... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/pvode/cvode.h... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/pvode/cvode.h... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/pvode/cvspgmr.h... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/pvode/cvspgmr.h... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/pvode/iterativ.h... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/pvode/iterativ.h... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/pvode/llnlmath.h... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/pvode/llnlmath.h... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/pvode/llnltyps.h... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/pvode/llnltyps.h... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/pvode/nvector.h... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/pvode/nvector.h... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/pvode/pvbbdpre.h... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/pvode/pvbbdpre.h... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/pvode/smalldense.h... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/pvode/smalldense.h... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/pvode/spgmr.h... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/pvode/spgmr.h... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/pvode/vector.h... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/pvode/vector.h... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/smoothing.hxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/smoothing.hxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/sourcex.hxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/sourcex.hxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/stencils.hxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/stencils.hxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/unused.hxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/unused.hxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/utils.hxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/utils.hxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/vecops.hxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/vecops.hxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/vector2d.hxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/vector2d.hxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/vector3d.hxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/vector3d.hxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/where.hxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/where.hxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/bout++.cxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/bout++.cxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/field/field.cxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/field/field.cxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/field/field2d.cxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/field/field2d.cxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/field/field3d.cxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/field/field3d.cxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/field/field_data.cxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/field/field_data.cxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/field/field_factory.cxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/field/field_factory.cxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/field/fieldgenerators.cxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/field/fieldgenerators.cxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/field/fieldgenerators.hxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/field/fieldgenerators.hxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/field/fieldgroup.cxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/field/fieldgroup.cxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/field/fieldperp.cxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/field/fieldperp.cxx... Reading /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/field/gen_fieldops.py... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/field/gen_fieldops.py... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/field/generated_fieldops.cxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/field/generated_fieldops.cxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/field/globalfield.cxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/field/globalfield.cxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/field/initialprofiles.cxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/field/initialprofiles.cxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/field/vecops.cxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/field/vecops.cxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/field/vector2d.cxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/field/vector2d.cxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/field/vector3d.cxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/field/vector3d.cxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/field/where.cxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/field/where.cxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/fileio/datafile.cxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/fileio/datafile.cxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/fileio/dataformat.cxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/fileio/dataformat.cxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/fileio/formatfactory.cxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/fileio/formatfactory.cxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/fileio/formatfactory.hxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/fileio/formatfactory.hxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/fileio/impls/emptyformat.hxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/fileio/impls/emptyformat.hxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/fileio/impls/hdf5/h5_format.cxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/fileio/impls/hdf5/h5_format.cxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/fileio/impls/hdf5/h5_format.hxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/fileio/impls/hdf5/h5_format.hxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/fileio/impls/netcdf/nc_format.cxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/fileio/impls/netcdf/nc_format.cxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/fileio/impls/netcdf/nc_format.hxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/fileio/impls/netcdf/nc_format.hxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/fileio/impls/netcdf4/ncxx4.cxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/fileio/impls/netcdf4/ncxx4.cxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/fileio/impls/netcdf4/ncxx4.hxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/fileio/impls/netcdf4/ncxx4.hxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/fileio/impls/pnetcdf/pnetcdf.cxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/fileio/impls/pnetcdf/pnetcdf.cxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/fileio/impls/pnetcdf/pnetcdf.hxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/fileio/impls/pnetcdf/pnetcdf.hxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/invert/fft_fftw.cxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/invert/fft_fftw.cxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/invert/lapack_routines.cxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/invert/lapack_routines.cxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/invert/laplace/impls/cyclic/cyclic_laplace.cxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/invert/laplace/impls/cyclic/cyclic_laplace.cxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/invert/laplace/impls/cyclic/cyclic_laplace.hxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/invert/laplace/impls/cyclic/cyclic_laplace.hxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/invert/laplace/impls/multigrid/multigrid_alg.cxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/invert/laplace/impls/multigrid/multigrid_alg.cxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/invert/laplace/impls/multigrid/multigrid_laplace.cxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/invert/laplace/impls/multigrid/multigrid_laplace.cxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/invert/laplace/impls/multigrid/multigrid_laplace.hxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/invert/laplace/impls/multigrid/multigrid_laplace.hxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/invert/laplace/impls/multigrid/multigrid_solver.cxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/invert/laplace/impls/multigrid/multigrid_solver.cxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/invert/laplace/impls/mumps/mumps_laplace.cxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/invert/laplace/impls/mumps/mumps_laplace.cxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/invert/laplace/impls/mumps/mumps_laplace.hxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/invert/laplace/impls/mumps/mumps_laplace.hxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/invert/laplace/impls/naulin/naulin_laplace.cxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/invert/laplace/impls/naulin/naulin_laplace.cxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/invert/laplace/impls/naulin/naulin_laplace.hxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/invert/laplace/impls/naulin/naulin_laplace.hxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/invert/laplace/impls/pdd/pdd.cxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/invert/laplace/impls/pdd/pdd.cxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/invert/laplace/impls/pdd/pdd.hxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/invert/laplace/impls/pdd/pdd.hxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/invert/laplace/impls/petsc/petsc_laplace.cxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/invert/laplace/impls/petsc/petsc_laplace.cxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/invert/laplace/impls/petsc/petsc_laplace.hxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/invert/laplace/impls/petsc/petsc_laplace.hxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/invert/laplace/impls/serial_band/serial_band.cxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/invert/laplace/impls/serial_band/serial_band.cxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/invert/laplace/impls/serial_band/serial_band.hxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/invert/laplace/impls/serial_band/serial_band.hxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/invert/laplace/impls/serial_tri/serial_tri.cxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/invert/laplace/impls/serial_tri/serial_tri.cxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/invert/laplace/impls/serial_tri/serial_tri.hxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/invert/laplace/impls/serial_tri/serial_tri.hxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/invert/laplace/impls/shoot/shoot_laplace.cxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/invert/laplace/impls/shoot/shoot_laplace.cxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/invert/laplace/impls/shoot/shoot_laplace.hxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/invert/laplace/impls/shoot/shoot_laplace.hxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/invert/laplace/impls/spt/spt.cxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/invert/laplace/impls/spt/spt.cxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/invert/laplace/impls/spt/spt.hxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/invert/laplace/impls/spt/spt.hxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/invert/laplace/invert_laplace.cxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/invert/laplace/invert_laplace.cxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/invert/laplace/laplacefactory.cxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/invert/laplace/laplacefactory.cxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/invert/laplace/laplacefactory.hxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/invert/laplace/laplacefactory.hxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/invert/laplacexy/laplacexy.cxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/invert/laplacexy/laplacexy.cxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/invert/laplacexz/impls/cyclic/laplacexz-cyclic.cxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/invert/laplacexz/impls/cyclic/laplacexz-cyclic.cxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/invert/laplacexz/impls/cyclic/laplacexz-cyclic.hxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/invert/laplacexz/impls/cyclic/laplacexz-cyclic.hxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/invert/laplacexz/impls/petsc/laplacexz-petsc.cxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/invert/laplacexz/impls/petsc/laplacexz-petsc.cxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/invert/laplacexz/impls/petsc/laplacexz-petsc.hxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/invert/laplacexz/impls/petsc/laplacexz-petsc.hxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/invert/laplacexz/laplacexz.cxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/invert/laplacexz/laplacexz.cxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/invert/parderiv/impls/cyclic/cyclic.cxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/invert/parderiv/impls/cyclic/cyclic.cxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/invert/parderiv/impls/cyclic/cyclic.hxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/invert/parderiv/impls/cyclic/cyclic.hxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/invert/parderiv/invert_parderiv.cxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/invert/parderiv/invert_parderiv.cxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/invert/parderiv/parderiv_factory.cxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/invert/parderiv/parderiv_factory.cxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/invert/parderiv/parderiv_factory.hxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/invert/parderiv/parderiv_factory.hxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/mesh/boundary_factory.cxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/mesh/boundary_factory.cxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/mesh/boundary_region.cxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/mesh/boundary_region.cxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/mesh/boundary_standard.cxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/mesh/boundary_standard.cxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/mesh/coordinates.cxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/mesh/coordinates.cxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/mesh/data/gridfromfile.cxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/mesh/data/gridfromfile.cxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/mesh/data/gridfromoptions.cxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/mesh/data/gridfromoptions.cxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/mesh/difops.cxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/mesh/difops.cxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/mesh/fv_ops.cxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/mesh/fv_ops.cxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/mesh/impls/bout/boutmesh.cxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/mesh/impls/bout/boutmesh.cxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/mesh/impls/bout/boutmesh.hxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/mesh/impls/bout/boutmesh.hxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/mesh/index_derivs.cxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/mesh/index_derivs.cxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/mesh/interpolation/bilinear.cxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/mesh/interpolation/bilinear.cxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/mesh/interpolation/hermite_spline.cxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/mesh/interpolation/hermite_spline.cxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/mesh/interpolation/interpolation_factory.cxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/mesh/interpolation/interpolation_factory.cxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/mesh/interpolation/lagrange_4pt.cxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/mesh/interpolation/lagrange_4pt.cxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/mesh/interpolation/monotonic_hermite_spline.cxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/mesh/interpolation/monotonic_hermite_spline.cxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/mesh/interpolation.cxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/mesh/interpolation.cxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/mesh/mesh.cxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/mesh/mesh.cxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/mesh/meshfactory.cxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/mesh/meshfactory.cxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/mesh/meshfactory.hxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/mesh/meshfactory.hxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/mesh/parallel/fci.cxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/mesh/parallel/fci.cxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/mesh/parallel/fci.hxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/mesh/parallel/fci.hxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/mesh/parallel/identity.cxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/mesh/parallel/identity.cxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/mesh/parallel/shiftedmetric.cxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/mesh/parallel/shiftedmetric.cxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/mesh/parallel_boundary_op.cxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/mesh/parallel_boundary_op.cxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/mesh/parallel_boundary_region.cxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/mesh/parallel_boundary_region.cxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/mesh/surfaceiter.cxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/mesh/surfaceiter.cxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/physics/gyro_average.cxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/physics/gyro_average.cxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/physics/physicsmodel.cxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/physics/physicsmodel.cxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/physics/smoothing.cxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/physics/smoothing.cxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/physics/snb.cxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/physics/snb.cxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/physics/sourcex.cxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/physics/sourcex.cxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/solver/impls/arkode/arkode.cxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/solver/impls/arkode/arkode.cxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/solver/impls/arkode/arkode.hxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/solver/impls/arkode/arkode.hxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/solver/impls/cvode/cvode.cxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/solver/impls/cvode/cvode.cxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/solver/impls/cvode/cvode.hxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/solver/impls/cvode/cvode.hxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/solver/impls/euler/euler.cxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/solver/impls/euler/euler.cxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/solver/impls/euler/euler.hxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/solver/impls/euler/euler.hxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/solver/impls/ida/ida.cxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/solver/impls/ida/ida.cxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/solver/impls/ida/ida.hxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/solver/impls/ida/ida.hxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/solver/impls/imex-bdf2/imex-bdf2.cxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/solver/impls/imex-bdf2/imex-bdf2.cxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/solver/impls/imex-bdf2/imex-bdf2.hxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/solver/impls/imex-bdf2/imex-bdf2.hxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/solver/impls/karniadakis/karniadakis.cxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/solver/impls/karniadakis/karniadakis.cxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/solver/impls/karniadakis/karniadakis.hxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/solver/impls/karniadakis/karniadakis.hxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/solver/impls/petsc/petsc.cxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/solver/impls/petsc/petsc.cxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/solver/impls/petsc/petsc.hxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/solver/impls/petsc/petsc.hxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/solver/impls/power/power.cxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/solver/impls/power/power.cxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/solver/impls/power/power.hxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/solver/impls/power/power.hxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/solver/impls/pvode/pvode.cxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/solver/impls/pvode/pvode.cxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/solver/impls/pvode/pvode.hxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/solver/impls/pvode/pvode.hxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/solver/impls/rk3-ssp/rk3-ssp.cxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/solver/impls/rk3-ssp/rk3-ssp.cxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/solver/impls/rk3-ssp/rk3-ssp.hxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/solver/impls/rk3-ssp/rk3-ssp.hxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/solver/impls/rk4/rk4.cxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/solver/impls/rk4/rk4.cxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/solver/impls/rk4/rk4.hxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/solver/impls/rk4/rk4.hxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/solver/impls/rkgeneric/impls/cashkarp/cashkarp.cxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/solver/impls/rkgeneric/impls/cashkarp/cashkarp.cxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/solver/impls/rkgeneric/impls/cashkarp/cashkarp.hxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/solver/impls/rkgeneric/impls/cashkarp/cashkarp.hxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/solver/impls/rkgeneric/impls/rk4simple/rk4simple.cxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/solver/impls/rkgeneric/impls/rk4simple/rk4simple.cxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/solver/impls/rkgeneric/impls/rk4simple/rk4simple.hxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/solver/impls/rkgeneric/impls/rk4simple/rk4simple.hxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/solver/impls/rkgeneric/impls/rkf34/rkf34.cxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/solver/impls/rkgeneric/impls/rkf34/rkf34.cxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/solver/impls/rkgeneric/impls/rkf34/rkf34.hxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/solver/impls/rkgeneric/impls/rkf34/rkf34.hxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/solver/impls/rkgeneric/impls/rkf45/rkf45.cxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/solver/impls/rkgeneric/impls/rkf45/rkf45.cxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/solver/impls/rkgeneric/impls/rkf45/rkf45.hxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/solver/impls/rkgeneric/impls/rkf45/rkf45.hxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/solver/impls/rkgeneric/rkgeneric.cxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/solver/impls/rkgeneric/rkgeneric.cxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/solver/impls/rkgeneric/rkgeneric.hxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/solver/impls/rkgeneric/rkgeneric.hxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/solver/impls/rkgeneric/rkscheme.cxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/solver/impls/rkgeneric/rkscheme.cxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/solver/impls/rkgeneric/rkschemefactory.cxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/solver/impls/rkgeneric/rkschemefactory.cxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/solver/impls/rkgeneric/rkschemefactory.hxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/solver/impls/rkgeneric/rkschemefactory.hxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/solver/impls/slepc/slepc.cxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/solver/impls/slepc/slepc.cxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/solver/impls/slepc/slepc.hxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/solver/impls/slepc/slepc.hxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/solver/impls/snes/snes.cxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/solver/impls/snes/snes.cxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/solver/impls/snes/snes.hxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/solver/impls/snes/snes.hxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/solver/impls/split-rk/split-rk.cxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/solver/impls/split-rk/split-rk.cxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/solver/impls/split-rk/split-rk.hxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/solver/impls/split-rk/split-rk.hxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/solver/solver.cxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/solver/solver.cxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/solver/solverfactory.cxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/solver/solverfactory.cxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/sys/bout_types.cxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/sys/bout_types.cxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/sys/boutcomm.cxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/sys/boutcomm.cxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/sys/boutexception.cxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/sys/boutexception.cxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/sys/derivs.cxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/sys/derivs.cxx... Preprocessing /b/builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/bout/generic_factory.hxx:1: warning: the name 'Base' supplied as the argument in the \file statement is not an input file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/fileio/impls/netcdf/nc_format.cxx:347: warning: no uniquely matching class member found for const vector< int > NcFormat::getSize(const string &var) Possible candidates: 'const std::vector< int > NcFormat::getSize(const char *var) override' at line 77 of file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/fileio/impls/netcdf/nc_format.hxx 'const std::vector< int > NcFormat::getSize(const std::string &var) override' at line 78 of file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/fileio/impls/netcdf/nc_format.hxx /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/fileio/impls/netcdf/nc_format.cxx:558: warning: no uniquely matching class member found for bool NcFormat::read(int *var, const string &name, int lx, int ly, int lz) Possible candidates: 'bool NcFormat::read(int *var, const char *name, int lx=1, int ly=0, int lz=0) override' at line 97 of file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/fileio/impls/netcdf/nc_format.hxx 'bool NcFormat::read(int *var, const std::string &name, int lx=1, int ly=0, int lz=0) override' at line 98 of file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/fileio/impls/netcdf/nc_format.hxx 'bool NcFormat::read(BoutReal *var, const char *name, int lx=1, int ly=0, int lz=0) override' at line 99 of file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/fileio/impls/netcdf/nc_format.hxx 'bool NcFormat::read(BoutReal *var, const std::string &name, int lx=1, int ly=0, int lz=0) override' at line 100 of file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/fileio/impls/netcdf/nc_format.hxx /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/fileio/impls/netcdf/nc_format.cxx:599: warning: no uniquely matching class member found for bool NcFormat::read(BoutReal *var, const string &name, int lx, int ly, int lz) Possible candidates: 'bool NcFormat::read(int *var, const char *name, int lx=1, int ly=0, int lz=0) override' at line 97 of file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/fileio/impls/netcdf/nc_format.hxx 'bool NcFormat::read(int *var, const std::string &name, int lx=1, int ly=0, int lz=0) override' at line 98 of file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/fileio/impls/netcdf/nc_format.hxx 'bool NcFormat::read(BoutReal *var, const char *name, int lx=1, int ly=0, int lz=0) override' at line 99 of file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/fileio/impls/netcdf/nc_format.hxx 'bool NcFormat::read(BoutReal *var, const std::string &name, int lx=1, int ly=0, int lz=0) override' at line 100 of file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/fileio/impls/netcdf/nc_format.hxx /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/fileio/impls/netcdf/nc_format.cxx:677: warning: no uniquely matching class member found for bool NcFormat::write(int *var, const string &name, int lx, int ly, int lz) Possible candidates: 'bool NcFormat::write(int *var, const char *name, int lx=0, int ly=0, int lz=0) override' at line 103 of file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/fileio/impls/netcdf/nc_format.hxx 'bool NcFormat::write(int *var, const std::string &name, int lx=0, int ly=0, int lz=0) override' at line 104 of file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/fileio/impls/netcdf/nc_format.hxx 'bool NcFormat::write(BoutReal *var, const char *name, int lx=0, int ly=0, int lz=0) override' at line 105 of file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/fileio/impls/netcdf/nc_format.hxx 'bool NcFormat::write(BoutReal *var, const std::string &name, int lx=0, int ly=0, int lz=0) override' at line 106 of file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/fileio/impls/netcdf/nc_format.hxx /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/fileio/impls/netcdf/nc_format.cxx:739: warning: no uniquely matching class member found for bool NcFormat::write(BoutReal *var, const string &name, int lx, int ly, int lz) Possible candidates: 'bool NcFormat::write(int *var, const char *name, int lx=0, int ly=0, int lz=0) override' at line 103 of file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/fileio/impls/netcdf/nc_format.hxx 'bool NcFormat::write(int *var, const std::string &name, int lx=0, int ly=0, int lz=0) override' at line 104 of file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/fileio/impls/netcdf/nc_format.hxx 'bool NcFormat::write(BoutReal *var, const char *name, int lx=0, int ly=0, int lz=0) override' at line 105 of file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/fileio/impls/netcdf/nc_format.hxx 'bool NcFormat::write(BoutReal *var, const std::string &name, int lx=0, int ly=0, int lz=0) override' at line 106 of file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/fileio/impls/netcdf/nc_format.hxx /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/fileio/impls/netcdf/nc_format.cxx:841: warning: no uniquely matching class member found for bool NcFormat::read_rec(int *var, const string &name, int lx, int ly, int lz) Possible candidates: 'bool NcFormat::read_rec(int *var, const char *name, int lx=1, int ly=0, int lz=0) override' at line 111 of file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/fileio/impls/netcdf/nc_format.hxx 'bool NcFormat::read_rec(int *var, const std::string &name, int lx=1, int ly=0, int lz=0) override' at line 112 of file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/fileio/impls/netcdf/nc_format.hxx 'bool NcFormat::read_rec(BoutReal *var, const char *name, int lx=1, int ly=0, int lz=0) override' at line 113 of file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/fileio/impls/netcdf/nc_format.hxx 'bool NcFormat::read_rec(BoutReal *var, const std::string &name, int lx=1, int ly=0, int lz=0) override' at line 114 of file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/fileio/impls/netcdf/nc_format.hxx /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/fileio/impls/netcdf/nc_format.cxx:882: warning: no uniquely matching class member found for bool NcFormat::read_rec(BoutReal *var, const string &name, int lx, int ly, int lz) Possible candidates: 'bool NcFormat::read_rec(int *var, const char *name, int lx=1, int ly=0, int lz=0) override' at line 111 of file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/fileio/impls/netcdf/nc_format.hxx 'bool NcFormat::read_rec(int *var, const std::string &name, int lx=1, int ly=0, int lz=0) override' at line 112 of file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/fileio/impls/netcdf/nc_format.hxx 'bool NcFormat::read_rec(BoutReal *var, const char *name, int lx=1, int ly=0, int lz=0) override' at line 113 of file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/fileio/impls/netcdf/nc_format.hxx 'bool NcFormat::read_rec(BoutReal *var, const std::string &name, int lx=1, int ly=0, int lz=0) override' at line 114 of file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/fileio/impls/netcdf/nc_format.hxx /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/fileio/impls/netcdf/nc_format.cxx:964: warning: no uniquely matching class member found for bool NcFormat::write_rec(int *var, const string &name, int lx, int ly, int lz) Possible candidates: 'bool NcFormat::write_rec(int *var, const char *name, int lx=0, int ly=0, int lz=0) override' at line 117 of file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/fileio/impls/netcdf/nc_format.hxx 'bool NcFormat::write_rec(int *var, const std::string &name, int lx=0, int ly=0, int lz=0) override' at line 118 of file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/fileio/impls/netcdf/nc_format.hxx 'bool NcFormat::write_rec(BoutReal *var, const char *name, int lx=0, int ly=0, int lz=0) override' at line 119 of file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/fileio/impls/netcdf/nc_format.hxx 'bool NcFormat::write_rec(BoutReal *var, const std::string &name, int lx=0, int ly=0, int lz=0) override' at line 120 of file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/fileio/impls/netcdf/nc_format.hxx /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/fileio/impls/netcdf/nc_format.cxx:1039: warning: no uniquely matching class member found for bool NcFormat::write_rec(BoutReal *var, const string &name, int lx, int ly, int lz) Possible candidates: 'bool NcFormat::write_rec(int *var, const char *name, int lx=0, int ly=0, int lz=0) override' at line 117 of file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/fileio/impls/netcdf/nc_format.hxx 'bool NcFormat::write_rec(int *var, const std::string &name, int lx=0, int ly=0, int lz=0) override' at line 118 of file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/fileio/impls/netcdf/nc_format.hxx 'bool NcFormat::write_rec(BoutReal *var, const char *name, int lx=0, int ly=0, int lz=0) override' at line 119 of file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/fileio/impls/netcdf/nc_format.hxx 'bool NcFormat::write_rec(BoutReal *var, const std::string &name, int lx=0, int ly=0, int lz=0) override' at line 120 of file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/fileio/impls/netcdf/nc_format.hxx /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/fileio/impls/pnetcdf/pnetcdf.cxx:295: warning: no uniquely matching class member found for bool PncFormat::read(int *var, const string &name, int lx, int ly, int lz) Possible candidates: 'bool PncFormat::read(int *var, const char *name, int lx=1, int ly=0, int lz=0) override' at line 84 of file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/fileio/impls/pnetcdf/pnetcdf.hxx 'bool PncFormat::read(int *var, const std::string &name, int lx=1, int ly=0, int lz=0) override' at line 85 of file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/fileio/impls/pnetcdf/pnetcdf.hxx 'bool PncFormat::read(BoutReal *var, const char *name, int lx=1, int ly=0, int lz=0) override' at line 86 of file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/fileio/impls/pnetcdf/pnetcdf.hxx 'bool PncFormat::read(BoutReal *var, const std::string &name, int lx=1, int ly=0, int lz=0) override' at line 87 of file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/fileio/impls/pnetcdf/pnetcdf.hxx /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/fileio/impls/pnetcdf/pnetcdf.cxx:354: warning: no uniquely matching class member found for bool PncFormat::read(BoutReal *var, const string &name, int lx, int ly, int lz) Possible candidates: 'bool PncFormat::read(int *var, const char *name, int lx=1, int ly=0, int lz=0) override' at line 84 of file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/fileio/impls/pnetcdf/pnetcdf.hxx 'bool PncFormat::read(int *var, const std::string &name, int lx=1, int ly=0, int lz=0) override' at line 85 of file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/fileio/impls/pnetcdf/pnetcdf.hxx 'bool PncFormat::read(BoutReal *var, const char *name, int lx=1, int ly=0, int lz=0) override' at line 86 of file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/fileio/impls/pnetcdf/pnetcdf.hxx 'bool PncFormat::read(BoutReal *var, const std::string &name, int lx=1, int ly=0, int lz=0) override' at line 87 of file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/fileio/impls/pnetcdf/pnetcdf.hxx /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/fileio/impls/pnetcdf/pnetcdf.cxx:402: warning: no uniquely matching class member found for bool PncFormat::write(int *var, const string &name, int lx, int ly, int lz) Possible candidates: 'bool PncFormat::write(int *var, const char *name, int lx=0, int ly=0, int lz=0) override' at line 89 of file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/fileio/impls/pnetcdf/pnetcdf.hxx 'bool PncFormat::write(int *var, const std::string &name, int lx=0, int ly=0, int lz=0) override' at line 90 of file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/fileio/impls/pnetcdf/pnetcdf.hxx 'bool PncFormat::write(BoutReal *var, const char *name, int lx=0, int ly=0, int lz=0) override' at line 91 of file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/fileio/impls/pnetcdf/pnetcdf.hxx 'bool PncFormat::write(BoutReal *var, const std::string &name, int lx=0, int ly=0, int lz=0) override' at line 92 of file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/fileio/impls/pnetcdf/pnetcdf.hxx /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/fileio/impls/pnetcdf/pnetcdf.cxx:488: warning: no uniquely matching class member found for bool PncFormat::write(BoutReal *var, const string &name, int lx, int ly, int lz) Possible candidates: 'bool PncFormat::write(int *var, const char *name, int lx=0, int ly=0, int lz=0) override' at line 89 of file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/fileio/impls/pnetcdf/pnetcdf.hxx 'bool PncFormat::write(int *var, const std::string &name, int lx=0, int ly=0, int lz=0) override' at line 90 of file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/fileio/impls/pnetcdf/pnetcdf.hxx 'bool PncFormat::write(BoutReal *var, const char *name, int lx=0, int ly=0, int lz=0) override' at line 91 of file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/fileio/impls/pnetcdf/pnetcdf.hxx 'bool PncFormat::write(BoutReal *var, const std::string &name, int lx=0, int ly=0, int lz=0) override' at line 92 of file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/fileio/impls/pnetcdf/pnetcdf.hxx /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/fileio/impls/pnetcdf/pnetcdf.cxx:524: warning: no uniquely matching class member found for bool PncFormat::read_rec(int *var, const string &name, int lx, int ly, int lz) Possible candidates: 'bool PncFormat::read_rec(int *var, const char *name, int lx=1, int ly=0, int lz=0) override' at line 96 of file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/fileio/impls/pnetcdf/pnetcdf.hxx 'bool PncFormat::read_rec(int *var, const std::string &name, int lx=1, int ly=0, int lz=0) override' at line 97 of file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/fileio/impls/pnetcdf/pnetcdf.hxx 'bool PncFormat::read_rec(BoutReal *var, const char *name, int lx=1, int ly=0, int lz=0) override' at line 98 of file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/fileio/impls/pnetcdf/pnetcdf.hxx 'bool PncFormat::read_rec(BoutReal *var, const std::string &name, int lx=1, int ly=0, int lz=0) override' at line 99 of file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/fileio/impls/pnetcdf/pnetcdf.hxx /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/fileio/impls/pnetcdf/pnetcdf.cxx:556: warning: no uniquely matching class member found for bool PncFormat::read_rec(BoutReal *var, const string &name, int lx, int ly, int lz) Possible candidates: 'bool PncFormat::read_rec(int *var, const char *name, int lx=1, int ly=0, int lz=0) override' at line 96 of file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/fileio/impls/pnetcdf/pnetcdf.hxx 'bool PncFormat::read_rec(int *var, const std::string &name, int lx=1, int ly=0, int lz=0) override' at line 97 of file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/fileio/impls/pnetcdf/pnetcdf.hxx 'bool PncFormat::read_rec(BoutReal *var, const char *name, int lx=1, int ly=0, int lz=0) override' at line 98 of file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/fileio/impls/pnetcdf/pnetcdf.hxx 'bool PncFormat::read_rec(BoutReal *var, const std::string &name, int lx=1, int ly=0, int lz=0) override' at line 99 of file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/fileio/impls/pnetcdf/pnetcdf.hxx /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/fileio/impls/pnetcdf/pnetcdf.cxx:605: warning: no uniquely matching class member found for bool PncFormat::write_rec(int *var, const string &name, int lx, int ly, int lz) Possible candidates: 'bool PncFormat::write_rec(int *var, const char *name, int lx=0, int ly=0, int lz=0) override' at line 101 of file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/fileio/impls/pnetcdf/pnetcdf.hxx 'bool PncFormat::write_rec(int *var, const std::string &name, int lx=0, int ly=0, int lz=0) override' at line 102 of file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/fileio/impls/pnetcdf/pnetcdf.hxx 'bool PncFormat::write_rec(BoutReal *var, const char *name, int lx=0, int ly=0, int lz=0) override' at line 103 of file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/fileio/impls/pnetcdf/pnetcdf.hxx 'bool PncFormat::write_rec(BoutReal *var, const std::string &name, int lx=0, int ly=0, int lz=0) override' at line 104 of file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/fileio/impls/pnetcdf/pnetcdf.hxx /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/fileio/impls/pnetcdf/pnetcdf.cxx:681: warning: no uniquely matching class member found for bool PncFormat::write_rec(BoutReal *var, const string &name, int lx, int ly, int lz) Possible candidates: 'bool PncFormat::write_rec(int *var, const char *name, int lx=0, int ly=0, int lz=0) override' at line 101 of file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/fileio/impls/pnetcdf/pnetcdf.hxx 'bool PncFormat::write_rec(int *var, const std::string &name, int lx=0, int ly=0, int lz=0) override' at line 102 of file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/fileio/impls/pnetcdf/pnetcdf.hxx 'bool PncFormat::write_rec(BoutReal *var, const char *name, int lx=0, int ly=0, int lz=0) override' at line 103 of file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/fileio/impls/pnetcdf/pnetcdf.hxx 'bool PncFormat::write_rec(BoutReal *var, const std::string &name, int lx=0, int ly=0, int lz=0) override' at line 104 of file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/fileio/impls/pnetcdf/pnetcdf.hxx /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/mesh/boundary_factory.cxx:80: warning: no uniquely matching class member found for BoundaryOpBase * BoundaryFactory::create(const string &name, BoundaryRegionBase *region) Possible candidates: 'BoundaryOpBase * BoundaryFactory::create(const std::string &name, BoundaryRegionBase *region)' at line 70 of file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/boundary_factory.hxx 'BoundaryOpBase * BoundaryFactory::create(const char *name, BoundaryRegionBase *region)' at line 71 of file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/boundary_factory.hxx /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/mesh/boundary_factory.cxx:210: warning: no matching class member found for BoundaryOpBase * BoundaryFactory::createFromOptions(const string &varname, BoundaryRegionBase *region) Possible candidates: 'BoundaryOpBase * BoundaryFactory::createFromOptions(const std::string &varname, BoundaryRegionBase *region)' 'BoundaryOpBase * BoundaryFactory::createFromOptions(const char *varname, BoundaryRegionBase *region)' /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/mesh/boundary_factory.cxx:313: warning: no uniquely matching class member found for void BoundaryFactory::add(BoundaryOp *bop, const string &name) Possible candidates: 'void BoundaryFactory::add(BoundaryOp *bop, const std::string &name)' at line 81 of file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/boundary_factory.hxx 'void BoundaryFactory::add(BoundaryOp *bop, const char *name)' at line 88 of file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/boundary_factory.hxx 'void BoundaryFactory::add(BoundaryOpPar *bop, const std::string &name)' at line 101 of file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/boundary_factory.hxx 'void BoundaryFactory::add(BoundaryOpPar *bop, const char *name)' at line 102 of file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/boundary_factory.hxx /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/mesh/boundary_factory.cxx:326: warning: no uniquely matching class member found for void BoundaryFactory::add(BoundaryOpPar *bop, const string &name) Possible candidates: 'void BoundaryFactory::add(BoundaryOp *bop, const std::string &name)' at line 81 of file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/boundary_factory.hxx 'void BoundaryFactory::add(BoundaryOp *bop, const char *name)' at line 88 of file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/boundary_factory.hxx 'void BoundaryFactory::add(BoundaryOpPar *bop, const std::string &name)' at line 101 of file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/boundary_factory.hxx 'void BoundaryFactory::add(BoundaryOpPar *bop, const char *name)' at line 102 of file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/boundary_factory.hxx /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/mesh/boundary_factory.cxx:339: warning: no matching class member found for void BoundaryFactory::addMod(BoundaryModifier *bmod, const string &name) Possible candidates: 'void BoundaryFactory::addMod(BoundaryModifier *bmod, const std::string &name)' 'void BoundaryFactory::addMod(BoundaryModifier *bmod, const char *name)' /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/mesh/coordinates.cxx:1229: warning: no matching class member found for Field2D Coordinates::DDZ(MAYBE_UNUSED(const Field2D &f), CELL_LOC loc, const std::string &method, const std::string ®ion) Possible candidates: 'Field2D Coordinates::DDZ(const Field2D &f, CELL_LOC outloc=CELL_DEFAULT, const std::string &method="DEFAULT", const std::string ®ion="RGN_NOBNDRY")' 'Field2D Coordinates::DDZ(const Field2D &f, CELL_LOC outloc, const std::string &method, REGION region)' 'Field2D Coordinates::DDZ(const Field2D &f, CELL_LOC outloc, DIFF_METHOD method, REGION region=RGN_NOBNDRY)' /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/mesh/coordinates.cxx:1244: warning: no matching class member found for Field2D Coordinates::Grad_par(const Field2D &var, MAYBE_UNUSED(CELL_LOC outloc), const std::string &method) Possible candidates: 'Field2D Coordinates::Grad_par(const Field2D &var, CELL_LOC outloc=CELL_DEFAULT, const std::string &method="DEFAULT")' 'Field2D Coordinates::Grad_par(const Field2D &f, CELL_LOC outloc, DIFF_METHOD method)' 'Field3D Coordinates::Grad_par(const Field3D &var, CELL_LOC outloc=CELL_DEFAULT, const std::string &method="DEFAULT")' 'Field3D Coordinates::Grad_par(const Field3D &f, CELL_LOC outloc, DIFF_METHOD method)' /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/mesh/coordinates.cxx:1265: warning: no matching class member found for Field2D Coordinates::Vpar_Grad_par(const Field2D &v, const Field2D &f, MAYBE_UNUSED(CELL_LOC outloc), const std::string &method) Possible candidates: 'Field2D Coordinates::Vpar_Grad_par(const Field2D &v, const Field2D &f, CELL_LOC outloc=CELL_DEFAULT, const std::string &method="DEFAULT")' 'Field2D Coordinates::Vpar_Grad_par(const Field2D &v, const Field2D &f, CELL_LOC outloc, DIFF_METHOD method)' 'Field3D Coordinates::Vpar_Grad_par(const Field3D &v, const Field3D &f, CELL_LOC outloc=CELL_DEFAULT, const std::string &method="DEFAULT")' 'Field3D Coordinates::Vpar_Grad_par(const Field3D &v, const Field3D &f, CELL_LOC outloc, DIFF_METHOD method)' /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/mesh/index_derivs.cxx:59: warning: no matching class member found for STAGGER Mesh::getStagger(const CELL_LOC vloc, MAYBE_UNUSED(const CELL_LOC inloc), const CELL_LOC outloc, const CELL_LOC allowedStaggerLoc) const Possible candidates: 'STAGGER Mesh::getStagger(const CELL_LOC inloc, const CELL_LOC outloc, const CELL_LOC allowedloc) const' 'STAGGER Mesh::getStagger(const CELL_LOC vloc, const CELL_LOC inloc, const CELL_LOC outloc, const CELL_LOC allowedloc) const' uilddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/sys/expressionparser.cxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/sys/expressionparser.cxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/sys/msg_stack.cxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/sys/msg_stack.cxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/sys/options/optionparser.hxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/sys/options/optionparser.hxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/sys/options/options_ini.cxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/sys/options/options_ini.cxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/sys/options/options_ini.hxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/sys/options/options_ini.hxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/sys/options/options_netcdf.cxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/sys/options/options_netcdf.cxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/sys/options.cxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/sys/options.cxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/sys/optionsreader.cxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/sys/optionsreader.cxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/sys/output.cxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/sys/output.cxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/sys/petsclib.cxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/sys/petsclib.cxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/sys/range.cxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/sys/range.cxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/sys/slepclib.cxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/sys/slepclib.cxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/sys/timer.cxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/sys/timer.cxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/sys/type_name.cxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/sys/type_name.cxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/sys/utils.cxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/sys/utils.cxx... Building group list... Building directory list... Building namespace list... Building file list... Building class list... Computing nesting relations for classes... Associating documentation with classes... Building example list... Searching for enumerations... Searching for documented typedefs... Searching for members imported via using declarations... Searching for included using directives... Searching for documented variables... Building interface member list... Building member list... Searching for friends... Searching for documented defines... Computing class inheritance relations... Computing class usage relations... Flushing cached template relations that have become invalid... Computing class relations... Add enum values to enums... Searching for member function documentation... Creating members for template instances... Building page list... Search for main page... Computing page relations... Determining the scope of groups... Sorting lists... Determining which enums are documented Computing member relations... Building full member lists recursively... Adding members to member groups. Computing member references... Inheriting documentation... Generating disk names... Adding source references... Adding xrefitems... Sorting member lists... Setting anonymous enum type... Computing dependencies between directories... Generating citations page... Counting members... Counting data structures... Resolving user defined sh: latex: command not found error: Problems running latex. Check your installation or look for typos in _formulas.tex and check _formulas.log! sh: dvips: command not found error: Problems running dvips. Check your installation! references... Finding anchors and sections in the documentation... Transferring function references... Combining using relations... Adding members to index pages... Correcting members for VHDL... Generating style sheet... Generating search indices... Generating images for formulas in HTML... Generating image form_0.png for formula Generating example documentation... Generating file sources... Generating file documentation... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/boundary_factory.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/boundary_op.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/boundary_region.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/boundary_standard.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/bout.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/bout/array.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/bout/assert.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/bout/constants.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/bout/coordinates.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/bout/deprecated.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/bout/deriv_store.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/bout/expr.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/bout/field_visitor.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/bout/fieldgroup.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/bout/format.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/bout/fv_ops.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/bout/generic_factory.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/bout/globalfield.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/bout/griddata.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/bout/index_derivs.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/bout/index_derivs_interface.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/bout/invert/laplacexy.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/bout/invert/laplacexz.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/bout/invertable_operator.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/bout/macro_for_each.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/bout/mesh.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/bout/monitor.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/bout/openmpwrap.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/bout/paralleltransform.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/bout/petsclib.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/bout/physicsmodel.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/bout/region.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/bout/rkscheme.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/bout/rvec.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/bout/scorepwrapper.hxx... Generating docs for file //builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/difops.hxx:299: warning: The following parameter of Div_par_K_Grad_par(BoutReal kY, const Field2D &f, CELL_LOC outloc=CELL_DEFAULT) is not documented: parameter 'outloc' /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/difops.hxx:208: warning: The following parameter of Grad2_par2(const Field2D &f, CELL_LOC outloc=CELL_DEFAULT, const std::string &method="DEFAULT") is not documented: parameter 'method' /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/gyro_average.hxx:52: warning: argument 'flags' of command @param is not found in the argument list of gyroPade0(const Field3D &f, const Field3D &rho, int inner_boundary_flags, int outer_boundary_flags) /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/gyro_average.hxx:61: warning: The following parameters of gyroPade0(const Field3D &f, const Field3D &rho, int inner_boundary_flags, int outer_boundary_flags) are not documented: parameter 'inner_boundary_flags' parameter 'outer_boundary_flags' /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/gyro_average.hxx:84: warning: argument 'flags' of command @param is not found in the argument list of gyroPade1(const Field3D &f, const Field3D &rho, int inner_boundary_flags, int outer_boundary_flags) /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/gyro_average.hxx:91: warning: The following parameters of gyroPade1(const Field3D &f, const Field3D &rho, int inner_boundary_flags, int outer_boundary_flags) are not documented: parameter 'inner_boundary_flags' parameter 'outer_boundary_flags' /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/gyro_average.hxx:120: warning: argument 'flags' of command @param is not found in the argument list of gyroPade2(const Field3D &f, const Field3D &rho, int inner_boundary_flags, int outer_boundary_flags) /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/gyro_average.hxx:131: warning: The following parameters of gyroPade2(const Field3D &f, const Field3D &rho, int inner_boundary_flags, int outer_boundary_flags) are not documented: parameter 'inner_boundary_flags' parameter 'outer_boundary_flags' builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/bout/slepclib.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/bout/snb.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/bout/solver.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/bout/solverfactory.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/bout/surfaceiter.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/bout/sys/expressionparser.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/bout/sys/gettext.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/bout/sys/range.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/bout/sys/timer.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/bout/sys/type_name.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/bout/sys/uncopyable.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/bout/sys/variant.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/bout/template_combinations.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/bout/traits.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/bout_types.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/boutcomm.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/boutexception.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/boutmain.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/cyclic_reduction.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/datafile.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/dataformat.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/dcomplex.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/derivs.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/difops.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/fft.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/field.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/field2d.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/field3d.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/field_data.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/field_factory.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/fieldperp.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/globals.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/gyro_average.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/initialprofiles.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/interpolation.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/interpolation_factory.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/invert_laplace.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/invert_parderiv.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/lapack_routines.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/mask.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/msg_stack.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/multiostream.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/options.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/options_netcdf.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/optionsreader.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/output.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/parallel_boundary_op.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/parallel_boundary_region.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/pvode/band.h... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/pvode/cvdiag.h... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/pvode/cvode.h... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/pvode/cvspgmr.h... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/pvode/iterativ.h... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/pvode/llnlmath.h... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/pvode/llnltyps.h... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/pvode/nvector.h... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/pvode/pvbbdpre.h... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/pvode/smalldense.h... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/pvode/spgmr.h... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/pvode/vector.h... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/smoothing.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/sourcex.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/stencils.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/unused.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/utils.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/vecops.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/vector2d.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/vector3d.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/where.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/bout++.cxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/field/field.cxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/field/field2d.cxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/field/field3d.cxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/field/field_data.cxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/field/field_factory.cxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/field/fieldgenerators.cxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/field/fieldgenerators.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/field/fieldgroup.cxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/field/fieldperp.cxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/field/gen_fieldops.py... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/field/generated_fieldops.cxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/field/globalfield.cxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/field/initialprofiles.cxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/field/vecops.cxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/field/vector2d.cxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/field/vector3d.cxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/field/where.cxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/fileio/datafile.cxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/fileio/dataformat.cxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/fileio/formatfactory.cxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/fileio/formatfactory.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/fileio/impls/emptyformat.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/fileio/impls/hdf5/h5_format.cxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/fileio/impls/hdf5/h5_format.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/fileio/impls/netcdf/nc_format.cxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/fileio/impls/netcdf/nc_format.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/fileio/impls/netcdf4/ncxx4.cxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/fileio/impls/netcdf4/ncxx4.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/fileio/impls/pnetcdf/pnetcdf.cxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/fileio/impls/pnetcdf/pnetcdf.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/invert/fft_fftw.cxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/invert/lapack_routines.cxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/invert/laplace/impls/cyclic/cyclic_laplace.cxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/invert/laplace/impls/cyclic/cyclic_laplace.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/invert/laplace/impls/multigrid/multigrid_alg.cxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/invert/laplace/impls/multigrid/multigrid_laplace.cxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/invert/laplace/impls/multigrid/multigrid_laplace.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/invert/laplace/impls/multigrid/multigrid_solver.cxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/invert/laplace/impls/mumps/mumps_laplace.cxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/invert/laplace/impls/mumps/mumps_laplace.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/invert/laplace/impls/naulin/naulin_laplace.cxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/invert/laplace/impls/naulin/naulin_laplace.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/invert/laplace/impls/pdd/pdd.cxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/invert/laplace/impls/pdd/pdd.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/invert/laplace/impls/petsc/petsc_laplace.cxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/invert/laplace/impls/petsc/petsc_laplace.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/invert/laplace/impls/serial_band/serial_band.cxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3./builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/mesh/difops.cxx:287: warning: The following parameter of Div_par_K_Grad_par(BoutReal kY, const Field2D &f, CELL_LOC outloc=CELL_DEFAULT) is not documented: parameter 'outloc' /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/mesh/difops.cxx:274: warning: The following parameter of Grad2_par2(const Field2D &f, CELL_LOC outloc=CELL_DEFAULT, const std::string &method="DEFAULT") is not documented: parameter 'method' 1/build_mpich/src/invert/laplace/impls/serial_band/serial_band.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/invert/laplace/impls/serial_tri/serial_tri.cxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/invert/laplace/impls/serial_tri/serial_tri.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/invert/laplace/impls/shoot/shoot_laplace.cxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/invert/laplace/impls/shoot/shoot_laplace.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/invert/laplace/impls/spt/spt.cxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/invert/laplace/impls/spt/spt.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/invert/laplace/invert_laplace.cxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/invert/laplace/laplacefactory.cxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/invert/laplace/laplacefactory.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/invert/laplacexy/laplacexy.cxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/invert/laplacexz/impls/cyclic/laplacexz-cyclic.cxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/invert/laplacexz/impls/cyclic/laplacexz-cyclic.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/invert/laplacexz/impls/petsc/laplacexz-petsc.cxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/invert/laplacexz/impls/petsc/laplacexz-petsc.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/invert/laplacexz/laplacexz.cxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/invert/parderiv/impls/cyclic/cyclic.cxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/invert/parderiv/impls/cyclic/cyclic.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/invert/parderiv/invert_parderiv.cxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/invert/parderiv/parderiv_factory.cxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/invert/parderiv/parderiv_factory.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/mesh/boundary_factory.cxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/mesh/boundary_region.cxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/mesh/boundary_standard.cxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/mesh/coordinates.cxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/mesh/data/gridfromfile.cxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/mesh/data/gridfromoptions.cxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/mesh/difops.cxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/mesh/fv_ops.cxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/mesh/impls/bout/boutmesh.cxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/mesh/impls/bout/boutmesh.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/mesh/index_derivs.cxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/mesh/interpolation.cxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/mesh/interpolation/bilinear.cxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/mesh/interpolation/hermite_spline.cxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/mesh/interpolation/interpolation_factory.cxx... Generating docs /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/gyro_average.hxx:52: warning: argument 'flags' of command @param is not found in the argument list of gyroPade0(const Field3D &f, const Field3D &rho, int inner_boundary_flags, int outer_boundary_flags) /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/physics/gyro_average.cxx:78: warning: The following parameters of gyroPade0(const Field3D &f, const Field3D &rho, int inner_boundary_flags, int outer_boundary_flags) are not documented: parameter 'inner_boundary_flags' parameter 'outer_boundary_flags' /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/gyro_average.hxx:84: warning: argument 'flags' of command @param is not found in the argument list of gyroPade1(const Field3D &f, const Field3D &rho, int inner_boundary_flags, int outer_boundary_flags) /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/physics/gyro_average.cxx:119: warning: The following parameters of gyroPade1(const Field3D &f, const Field3D &rho, int inner_boundary_flags, int outer_boundary_flags) are not documented: parameter 'inner_boundary_flags' parameter 'outer_boundary_flags' /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/gyro_average.hxx:120: warning: argument 'flags' of command @param is not found in the argument list of gyroPade2(const Field3D &f, const Field3D &rho, int inner_boundary_flags, int outer_boundary_flags) /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/physics/gyro_average.cxx:149: warning: The following parameters of gyroPade2(const Field3D &f, const Field3D &rho, int inner_boundary_flags, int outer_boundary_flags) are not documented: parameter 'inner_boundary_flags' parameter 'outer_boundary_flags' for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/mesh/interpolation/lagrange_4pt.cxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/mesh/interpolation/monotonic_hermite_spline.cxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/mesh/mesh.cxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/mesh/meshfactory.cxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/mesh/meshfactory.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/mesh/parallel/fci.cxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/mesh/parallel/fci.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/mesh/parallel/identity.cxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/mesh/parallel/shiftedmetric.cxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/mesh/parallel_boundary_op.cxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/mesh/parallel_boundary_region.cxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/mesh/surfaceiter.cxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/physics/gyro_average.cxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/physics/physicsmodel.cxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/physics/smoothing.cxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/physics/snb.cxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/physics/sourcex.cxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/solver/impls/arkode/arkode.cxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/solver/impls/arkode/arkode.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/solver/impls/cvode/cvode.cxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/solver/impls/cvode/cvode.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/solver/impls/euler/euler.cxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/solver/impls/euler/euler.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/solver/impls/ida/ida.cxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/solver/impls/ida/ida.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/solver/impls/imex-bdf2/imex-bdf2.cxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/solver/impls/imex-bdf2/imex-bdf2.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/solver/impls/karniadakis/karniadakis.cxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/solver/impls/karniadakis/karniadakis.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/solver/impls/petsc/petsc.cxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/solver/impls/petsc/petsc.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/solver/impls/power/power.cxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/solver/impls/power/power.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/solver/impls/pvode/pvode.cxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/solver/impls/pvode/pvode.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/solver/impls/rk3-ssp/rk3-ssp.cxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/solver/impls/rk3-ssp/rk3-ssp.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/solver/impls/rk4/rk4.cxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/solver/impls/rk4/rk4.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/solver/impls/rkgeneric/impls/cashkarp/cashkarp.cxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/solver/impls/rkgeneric/impls/cashkarp/cashkarp.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/solver/impls/rkgeneric/impls/rk4simple/rk4simple.cxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/solver/impls/rkgeneric/impls/rk4simple/rk4simple.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/solver/impls/rkgeneric/impls/rkf34/rkf34.cxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/solver/impls/rkgeneric/impls/rkf34/rkf34.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/solver/impls/rkgeneric/impls/rkf45/rkf45.cxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/solver/impls/rkgeneric/impls/rkf45/rkf45.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/solver/impls/rkgeneric/rkgeneric.cxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/solver/impls/rkgeneric/rkgeneric.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/solver/impls/rkgeneric/rkscheme.cxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/solver/impls/rkgeneric/rkschemefactory.cxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/solver/impls/rkgeneric/rkschemefactory.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/solver/impls/slepc/slepc.cxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/solver/impls/slepc/slepc.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/solver/impls/snes/snes.cxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/solver/impls/snes/snes.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/solver/impls/split-rk/split-rk.cxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/solver/impls/split-rk/split-rk.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/solver/solver.cxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/solver/solverfactory.cxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/sys/bout_types.cxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/sys/boutcomm.cxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/sys/boutexception.cxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/sys/derivs.cxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/sys/expressionparser.cxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/sys/msg_stack.cxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/sys/options.cxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/sys/options/optionparser.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/sys/options/options_ini.cxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/sys/options/options_ini.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/sys/options/options_netcdf.cxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/sys/optionsreader.cxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/sys/output.cxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/sys/petsclib.cxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_/builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/bout/array.hxx:384: warning: Unsupported xml/html tag found /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/dataformat.hxx:207: warning: The following parameter of DataFormat::getAttribute(const std::string &varname, const std::string &attrname, BoutReal &value)=0 is not documented: parameter 'value' /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/dataformat.hxx:191: warning: The following parameter of DataFormat::getAttribute(const std::string &varname, const std::string &attrname, int &value)=0 is not documented: parameter 'value' /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/dataformat.hxx:175: warning: The following parameter of DataFormat::getAttribute(const std::string &varname, const std::string &attrname, std::string &text)=0 is not documented: parameter 'text' mpich/src/sys/range.cxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/sys/slepclib.cxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/sys/timer.cxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/sys/type_name.cxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/sys/utils.cxx... Generating page documentation... Generating group documentation... Generating class documentation... Generating docs for compound Add... Generating docs for compound ArkodeSolver... Generating docs for compound Array... Generating docs for compound ArrayData... Generating docs for compound asExpr... Generating docs for compound asExpr< double >... Generating docs for compound asExpr< Field3D >... Generating docs for compound asExpr< float >... Generating docs for compound asExpr< int >... Generating docs for compound Bilinear... Generating docs for compound BinaryExpr... Generating docs for compound BinaryResult... Generating docs for compound BoundaryConstGradient... Generating docs for compound BoundaryConstLaplace... Generating docs for compound BoundaryDirichlet... Generating docs for compound BoundaryDirichlet_2ndOrder... Generating docs for compound BoundaryDirichlet_4thOrder... Generating docs for compound BoundaryDirichlet_O3... Generating docs for compound BoundaryDirichlet_O4... Generating docs for compound BoundaryDivCurl... Generating docs for compound BoundaryFactory... Generating docs for compound BoundaryFree... Generating docs for compound BoundaryFree_O2... Generating docs for compound BoundaryFree_O3... Generating docs for compound BoundaryFromFieldAligned... Generating docs for compound BoundaryModifier... Generating docs for compound BoundaryNeumann... Generating docs for compound BoundaryNeumann2... Generating docs for compound BoundaryNeumann_2ndOrder... Generating docs for compound BoundaryNeumann_4thOrder... Generating docs for compound BoundaryNeumann_NonOrthogonal... Generating docs for compound BoundaryNeumann_O4... Generating docs for compound BoundaryNeumannPar... Generating docs for compound BoundaryOp... Generating docs for compound BoundaryOpBase... Generating docs for compound BoundaryOpPar... Generating docs for compound BoundaryOpPar_dirichlet... Generating docs for compound BoundaryOpPar_dirichlet_interp... Generating docs for compound BoundaryOpPar_dirichlet_O3... Generating docs for compound BoundaryOpPar_neumann... Generating docs for compound BoundaryRegion... Generating docs for compound BoundaryRegionBase... Generating docs for compound BoundaryRegionPar... Generating docs for nested compound BoundaryRegionPar::IndexPoint... Generating docs for nested compound BoundaryRegionPar::Indices... Generating docs for nested compound BoundaryRegionPar::RealPoint... Generating docs for compound BoundaryRegionXIn... Generating docs for compound BoundaryRegionXOut... Generating docs for compound BoundaryRegionYDown... Generating docs for compound BoundaryRegionYUp... Generating docs for compound BoundaryRelax... Generating docs for compound BoundaryRobin... Generating docs for compound BoundaryToFieldAligned... Generating docs for compound BoundaryWidth... Generating docs for compound BoundaryZeroLaplace... Generating docs for compound BoundaryZeroLaplace2... Generating docs for compound BoutComm... Generating docs for compound BoutException... Generating docs for compound BoutIterationFail... Generating docs for compound BoutMask... Generating docs for compound BoutMesh... Generating docs for nested compound BoutMesh::CommHandle... Generating docs for compound BoutMonitor... Generating docs for compound BoutRhsFail... Generating docs for compound CASHKARPScheme... Generating docs for compound ConditionalOutput... Generating docs for compound Coordinates... Generating docs for compound CvodeSolver... Generating docs for compound CyclicReduce... Generating docs for compound Datafile... Generating docs for nested compound Datafile::VarStr... Generating docs for compound DataFormat... Generat/builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/bout/generic_factory.hxx:57: warning: The following parameter of Factory::create(const std::string &name, Args &&... args) is not documented: parameter 'args' /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/field2d.hxx:67: warning: The following parameters of Field2D::Field2D(Mesh *localmesh=nullptr, CELL_LOC location_in=CELL_CENTRE, DirectionTypes directions_in={YDirectionType::Standard, ZDirectionType::Average}) are not documented: parameter 'location_in' parameter 'directions_in' /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/bout/griddata.hxx:217: warning: The following parameter of GridFromOptions::get(Mesh *mesh, BoutReal &rval, const std::string &name, BoutReal def=0.0) is not documented: parameter 'def' /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/bout/griddata.hxx:191: warning: The following parameter of GridFromOptions::get(Mesh *mesh, std::string &sval, const std::string &name, const std::string &def="") is not documented: parameter 'def' /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/fileio/impls/hdf5/h5_format.hxx:131: warning: The following parameter of H5Format::getAttribute(const std::string &varname, const std::string &attrname, BoutReal &value) is not documented: parameter 'value' /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/fileio/impls/hdf5/h5_format.hxx:130: warning: The following parameter of H5Format::getAttribute(const std::string &varname, const std::string &attrname, int &value) is not documented: parameter 'value' /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/fileio/impls/hdf5/h5_format.hxx:129: warning: The following parameter of H5Format::getAttribute(const std::string &varname, const std::string &attrname, std::string &text) is not documented: parameter 'text' /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/invert/laplace/impls/petsc/petsc_laplace.hxx:186: warning: argument 'coef1' from the argument list of LaplacePetsc::Coeffs has multiple @param documentation sections /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/invert/laplace/impls/petsc/petsc_laplace.hxx:186: warning: argument 'coef2' from the argument list of LaplacePetsc::Coeffs has multiple @param documentation sections /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/invert/laplace/impls/petsc/petsc_laplace.hxx:186: warning: argument 'coef3' from the argument list of LaplacePetsc::Coeffs has multiple @param documentation sections /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/invert/laplace/impls/petsc/petsc_laplace.hxx:186: warning: argument 'coef4' from the argument list of LaplacePetsc::Coeffs has multiple @param documentation sections /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/invert/laplace/impls/petsc/petsc_laplace.hxx:186: warning: argument 'coef5' from the argument list of LaplacePetsc::Coeffs has multiple @param documentation sections /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/invert/laplace/impls/petsc/petsc_laplace.hxx:185: warning: argument 'MatA' from the argument list of LaplacePetsc::Element has multiple @param documentation sections /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/invert_laplace.hxx:212: warning: The following parameters of Laplacian::create(Options *opt=nullptr, const CELL_LOC loc=CELL_CENTRE, Mesh *mesh_in=nullptr) are not documented: parameter 'loc' parameter 'mesh_in' /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/invert_laplace.hxx:255: warning: argument 'avec' from the argument list of Laplacian::tridagMatrix has multiple @param documentation sections /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/invert_laplace.hxx:255: warning: argument 'bvec' from the argument list of Laplacian::tridagMatrix has multiple @param documentation sections /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/invert_laplace.hxx:255: warning: argument 'cvec' from the argument list of Laplacian::tridagMatrix has multiple @param documentation sections ing docs for compound DeferredFunction... Generating docs for compound DerivativeStore... Generating docs for compound DerivativeType... Generating docs for compound DirectionTypes... Generating docs for compound Divide... Generating docs for compound DummyOutput... Generating docs for compound EmptyFormat... Generating docs for compound enumWrapper... Generating docs for compound EulerSolver... Generating docs for compound ExpressionParser... Generating docs for nested compound ExpressionParser::LexInfo... Generating docs for compound exprTraits... Generating docs for compound exprTraits< double >... Generating docs for compound exprTraits< float >... Generating docs for compound exprTraits< int >... Generating docs for compound Factory... Generating docs for compound FCIMap... Generating docs for compound FCITransform... Generating docs for compound fcmplx... Generating docs for compound Field... Generating docs for compound Field2D... Generating docs for compound Field2DExpr... Generating docs for compound Field3D... Generating docs for compound Field3DExpr... Generating docs for compound FieldAbs... Generating docs for compound FieldATan... Generating docs for compound FieldBallooning... Generating docs for compound FieldBinary... Generating docs for compound FieldCos... Generating docs for compound FieldCosh... Generating docs for compound FieldData... Generating docs for compound FieldErf... Generating docs for compound FieldFactory... Generating docs for compound FieldFunction... Generating docs for compound FieldGaussian... Generating docs for compound FieldGenerator... Generating docs for compound FieldGenOneArg... Generating docs for compound FieldGenTwoArg... Generating docs for compound FieldGroup... Generating docs for compound FieldHeaviside... Generating docs for compound FieldMax... Generating docs for compound FieldMin... Generating docs for compound FieldMixmode... Generating docs for compound FieldNull... Generating docs for compound FieldPerp... Generating docs for compound FieldRound... Generating docs for compound FieldSin... Generating docs for compound FieldSinh... Generating docs for compound FieldSqrt... Generating docs for compound FieldTanh... Generating docs for compound FieldTanhHat... Generating docs for compound FieldValue... Generating docs for compound FieldValuePtr... Generating docs for compound FieldVisitor... Generating docs for compound FormatFactory... Generating docs for compound GlobalField... Generating docs for compound GlobalField2D... Generating docs for compound GlobalField3D... Generating docs for compound GridDataSource... Generating docs for compound GridFile... Generating docs for compound GridFromOptions... Generating docs for compound H5Format... Generating docs for compound HermiteSpline... Generating docs for compound IdaSolver... Generating docs for compound IMEXBDF2... Generating docs for compound Interpolation... Generating docs for compound InterpolationFactory... Generating docs for compound InvertPar... Generating docs for compound InvertParCR... Generating docs for compound KarniadakisSolver... Generating docs for compound Lagrange4pt... Generating docs for compound LaplaceCyclic... Generating docs for compound LaplaceFactory... Generating docs for compound LaplaceMultigrid... Generating docs for compound LaplaceMumps... Generating docs for compound LaplaceNaulin... Generating docs for compound LaplacePDD... Generating docs for nested compound LaplacePDD::PDD_data... Generating docs for compound LaplacePetsc... Generating docs for compound LaplaceSerialBand... Generating docs for compound LaplaceSerialTri... Generating docs for compound LaplaceShoot... Generating docs for compound LaplaceSPT... Generating docs for nested compound LaplaceSPT::SPT_data... Generating docs for compound LaplaceXY... Generating docs for compound LaplaceXZ... Generating docs for compound LaplaceXZcyclic... Generating docs for compound LaplaceXZpetsc... Generating docs for nested compound LaplaceXZpetsc::YSlice... Generating docs for compound Laplacian... Generating docs for compound /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/bout/mesh.hxx:730: warning: argument 'v' of command @param is not found in the argument list of Mesh::indexVDDX(const T &vel, const T &f, CELL_LOC outloc=CELL_DEFAULT, const std::string &method="DEFAULT", REGION region=RGN_NOBNDRY) const /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/bout/mesh.hxx:748: warning: The following parameter of Mesh::indexVDDX(const T &vel, const T &f, CELL_LOC outloc=CELL_DEFAULT, const std::string &method="DEFAULT", REGION region=RGN_NOBNDRY) const is not documented: parameter 'vel' /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/fileio/impls/netcdf/nc_format.hxx:135: warning: The following parameter of NcFormat::getAttribute(const std::string &varname, const std::string &attrname, BoutReal &value) is not documented: parameter 'value' /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/fileio/impls/netcdf/nc_format.hxx:134: warning: The following parameter of NcFormat::getAttribute(const std::string &varname, const std::string &attrname, int &value) is not documented: parameter 'value' /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/fileio/impls/netcdf/nc_format.hxx:133: warning: The following parameter of NcFormat::getAttribute(const std::string &varname, const std::string &attrname, std::string &text) is not documented: parameter 'text' /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/fileio/impls/netcdf4/ncxx4.hxx:136: warning: The following parameter of Ncxx4::getAttribute(const std::string &varname, const std::string &attrname, BoutReal &value) is not documented: parameter 'value' /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/fileio/impls/netcdf4/ncxx4.hxx:135: warning: The following parameter of Ncxx4::getAttribute(const std::string &varname, const std::string &attrname, int &value) is not documented: parameter 'value' /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/fileio/impls/netcdf4/ncxx4.hxx:134: warning: The following parameter of Ncxx4::getAttribute(const std::string &varname, const std::string &attrname, std::string &text) is not documented: parameter 'text' /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/options.hxx:160: warning: argument 'parent' of command @param is not found in the argument list of Options::Options(Options *parent_instance, std::string full_name) /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/options.hxx:160: warning: argument 'sectionName' of command @param is not found in the argument list of Options::Options(Options *parent_instance, std::string full_name) /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/options.hxx:164: warning: The following parameters of Options::Options(Options *parent_instance, std::string full_name) are not documented: parameter 'parent_instance' parameter 'full_name' /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/bout/paralleltransform.hxx:265: warning: The following parameter of ShiftedMetric::shiftZ(const Field3D &f, const Field2D &zangle, const std::string ®ion="RGN_NOX") const is not documented: parameter 'region' /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/bout/paralleltransform.hxx:284: warning: The following parameter of ShiftedMetric::shiftZ(const Field3D &f, const Tensor< dcomplex > &phs, const YDirectionType y_direction_out, const std::string ®ion="RGN_NOX") const is not documented: parameter 'region' /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/bout/index_derivs_interface.hxx:276: warning: argument 'v' of command @param is not found in the argument list of bout::derivatives::index::VDDX(const T &vel, const T &f, CELL_LOC outloc=CELL_DEFAULT, const std::string &method="DEFAULT", const std::string ®ion="RGN_NOBNDRY") /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/bout/index_derivs_interface.hxx:292: warning: The following parameter of bout::derivatives::index::VDDX(const T &vel, const T &f, CELL_LOC outloc=CELL_DEFAULT, const std::string &method="DEFAULT", const std::string ®ion="RGN_NOBNDRY") is not documented: parameter 'vel' LegacyModel... Generating docs for compound Literal... Generating docs for compound LoadVarOp... Generating docs for compound Matrix... Generating docs for compound Mesh... Generating docs for compound MeshFactory... Generating docs for compound metaData... Generating docs for compound Monitor... Generating docs for compound MonotonicHermiteSpline... Generating docs for compound MsgStack... Generating docs for compound MsgStackItem... Generating docs for compound Multigrid1DP... Generating docs for compound Multigrid2DPf1D... Generating docs for compound MultigridAlg... Generating docs for compound MultigridSerial... Generating docs for compound multiostream... Generating docs for compound multioutbuf... Generating docs for compound multioutbuf_init... Generating docs for compound Multiply... Generating docs for compound NcFormat... Generating docs for compound Ncxx4... Generating docs for compound OptionINI... Generating docs for compound OptionParser... Generating docs for compound Options... Generating docs for nested compound Options::AttributeType... Generating docs for nested compound Options::OptionValue... Generating docs for compound OptionsReader... Generating docs for compound Output... Generating docs for compound ParallelTransform... Generating docs for compound ParallelTransformIdentity... Generating docs for compound ParDerivFactory... Generating docs for compound ParseException... Generating docs for compound PetscLib... Generating docs for compound PetscSolver... Generating docs for compound PhysicsModel... Generating docs for nested compound PhysicsModel::PhysicsModelMonitor... Generating docs for compound PncFormat... Generating docs for compound Power... Generating docs for compound PowerSolver... Generating docs for compound produceCombinations... Generating docs for compound PromoteType... Generating docs for compound PvodeSolver... Generating docs for compound RangeIterator... Generating docs for compound Region... Generating docs for compound RegionStats... Generating docs for compound RegisterInFactory... Generating docs for compound RegisterInFactory< Solver, DerivedType >... Generating docs for compound registerMethod... Generating docs for compound RK3SSP... Generating docs for compound RK4SIMPLEScheme... Generating docs for compound RK4Solver... Generating docs for compound RKF34Scheme... Generating docs for compound RKF45Scheme... Generating docs for compound RKGenericSolver... Generating docs for compound RKScheme... Generating docs for compound RKSchemeFactory... Generating docs for compound RunMetrics... Generating docs for compound SaveDerivsOp... Generating docs for compound SaveVarOp... Generating docs for compound Set... Generating docs for compound ShiftedMetric... Generating docs for nested compound ShiftedMetric::ParallelSlicePhase... Generating docs for compound SlepcLib... Generating docs for compound SlepcSolver... Generating docs for compound snes_info... Generating docs for compound SNESSolver... Generating docs for compound Solver... Generating docs for nested compound Solver::VarStr... Generating docs for compound SolverFactory... Generating docs for compound SpecificInd... Generating docs for compound SplitFluxDerivativeType... Generating docs for compound SplitRK... Generating docs for compound stencil... Generating docs for compound Subtract... Generating docs for compound SurfaceIter... Generating docs for compound Tensor... Generating docs for compound Timer... Generating docs for nested compound Timer::timer_info... Generating docs for compound TypeContainer... Generating docs for compound Uncopyable... Generating docs for compound Vector2D... Generating docs for compound Vector3D... Generating namespace index... Generating docs for namespace bout Generating docs for compound bout::HeatFluxSNB... Generating docs for namespace bout::derivatives Generating docs for namespace bout::derivatives::index Generating docs for namespace bout::experimental Generating docs for compound bout::experimental::CommandLineArgs... Generating docs for compound bout::experimental::OptionsN/builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/bout/sys/variant.hxx:81: warning: Found unknown command '\v' /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/bout/sys/variant.hxx:118: warning: Found unknown command '\v' /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/bout/array.hxx:384: warning: Unsupported xml/html tag found etCDF... Generating docs for namespace bout::fft Generating docs for namespace bout::globals Generating docs for namespace bout::inversion Generating docs for compound bout::inversion::InvertableOperator... Generating docs for namespace bout::utils Generating docs for compound bout::utils::_Unique_if... Generating docs for compound bout::utils::_Unique_if< T[]>... Generating docs for compound bout::utils::_Unique_if< T[N]>... Generating docs for compound bout::utils::function_traits... Generating docs for compound bout::utils::function_traits< R(*)(Args...)>... Generating docs for nested compound bout::utils::function_traits< R(*)(Args...)>::arg... Generating docs for namespace bout::utils::details Generating docs for compound bout::utils::details::CompareTypes... Generating docs for compound bout::utils::details::CompareTypes< T, T >... Generating docs for compound bout::utils::details::IsEqual... Generating docs for compound bout::utils::details::StaticCastOrThrow... Generating docs for compound bout::utils::details::ToString... Generating docs for namespace FV Generating docs for compound FV::Fromm... Generating docs for compound FV::MC... Generating docs for compound FV::MinMod... Generating docs for compound FV::Stencil1D... Generating docs for compound FV::Upwind... Generating docs for namespace gen_fieldops Generating docs for compound gen_fieldops::Field... Generating docs for namespace pvode Generating docs for compound pvode::bandmat_type... Generating docs for compound pvode::CVodeMemRec... Generating docs for compound pvode::machenv_type... Generating docs for compound pvode::nvec_type... Generating docs for compound pvode::pvbbddata_type... Generating docs for compound pvode::SpgmrMemRec... Generating docs for namespace SI Generating graph info page... Generating directory documentation... Generating index page... Generating page index... Generating module index... Generating namespace index... Generating namespace member index... Generating annotated compound index... Generating alphabetical compound index... Generating hierarchical class index... Generating member index... Generating file index... Generating file member index... Generating example index... finalizing index lists... writing tag file... Generating XML output... Generating XML output for class bout::utils::_Unique_if Generating XML output for class bout::utils::_Unique_if< T[]> Generating XML output for class bout::utils::_Unique_if< T[N]> Generating XML output for class Add Generating XML output for class bout::utils::function_traits< R(*)(Args...)>::arg Generating XML output for class ArkodeSolver Generating XML output for class Array Generating XML output for class ArrayData Generating XML output for class asExpr Generating XML output for class asExpr< double > Generating XML output for class asExpr< Field3D > Generating XML output for class asExpr< float > Generating XML output for class asExpr< int > Generating XML output for class Options::AttributeType Generating XML output for class pvode::bandmat_type Generating XML output for class Bilinear Generating XML output for class BinaryExpr Generating XML output for class BinaryResult Generating XML output for class BoundaryConstGradient Generating XML output for class BoundaryConstLaplace Generating XML output for class BoundaryDirichlet Generating XML output for class BoundaryDirichlet_2ndOrder Generating XML output for class BoundaryDirichlet_4thOrder Generating XML output for class BoundaryDirichlet_O3 Generating XML output for class BoundaryDirichlet_O4 Generating XML output for class BoundaryDivCurl Generating XML output for class BoundaryFactory Generating XML output for class BoundaryFree Generating XML output for class BoundaryFree_O2 Generating XML output for class BoundaryFree_O3 Generating XML output for class BoundaryFromFieldAligned Generating XML output for class BoundaryModifier Generating XML output for class BoundaryNeumann Generating XML output for class BoundaryNeumann2 Generating XML output for class BoundaryNeumann_2ndOrder Generating XML output for class BoundaryNeuma/builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/dataformat.hxx:175: warning: The following parameter of DataFormat::getAttribute(const std::string &varname, const std::string &attrname, std::string &text)=0 is not documented: parameter 'text' /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/dataformat.hxx:191: warning: The following parameter of DataFormat::getAttribute(const std::string &varname, const std::string &attrname, int &value)=0 is not documented: parameter 'value' /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/dataformat.hxx:207: warning: The following parameter of DataFormat::getAttribute(const std::string &varname, const std::string &attrname, BoutReal &value)=0 is not documented: parameter 'value' /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/bout/generic_factory.hxx:57: warning: The following parameter of Factory::create(const std::string &name, Args &&... args) is not documented: parameter 'args' /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/field2d.hxx:67: warning: The following parameters of Field2D::Field2D(Mesh *localmesh=nullptr, CELL_LOC location_in=CELL_CENTRE, DirectionTypes directions_in={YDirectionType::Standard, ZDirectionType::Average}) are not documented: parameter 'location_in' parameter 'directions_in' nn_4thOrder Generating XML output for class BoundaryNeumann_NonOrthogonal Generating XML output for class BoundaryNeumann_O4 Generating XML output for class BoundaryNeumannPar Generating XML output for class BoundaryOp Generating XML output for class BoundaryOpBase Generating XML output for class BoundaryOpPar Generating XML output for class BoundaryOpPar_dirichlet Generating XML output for class BoundaryOpPar_dirichlet_interp Generating XML output for class BoundaryOpPar_dirichlet_O3 Generating XML output for class BoundaryOpPar_neumann Generating XML output for class BoundaryRegion Generating XML output for class BoundaryRegionBase Generating XML output for class BoundaryRegionPar Generating XML output for class BoundaryRegionXIn Generating XML output for class BoundaryRegionXOut Generating XML output for class BoundaryRegionYDown Generating XML output for class BoundaryRegionYUp Generating XML output for class BoundaryRelax Generating XML output for class BoundaryRobin Generating XML output for class BoundaryToFieldAligned Generating XML output for class BoundaryWidth Generating XML output for class BoundaryZeroLaplace Generating XML output for class BoundaryZeroLaplace2 Generating XML output for class BoutComm Generating XML output for class BoutException Generating XML output for class BoutIterationFail Generating XML output for class BoutMask Generating XML output for class BoutMesh Generating XML output for class BoutMonitor Generating XML output for class BoutRhsFail Generating XML output for class CASHKARPScheme Generating XML output for class bout::experimental::CommandLineArgs Generating XML output for class BoutMesh::CommHandle Generating XML output for class bout::utils::details::CompareTypes Generating XML output for class bout::utils::details::CompareTypes< T, T > Generating XML output for class ConditionalOutput Generating XML output for class Coordinates Generating XML output for class pvode::CVodeMemRec Generating XML output for class CvodeSolver Generating XML output for class CyclicReduce Generating XML output for class Datafile Generating XML output for class DataFormat Generating XML output for class DeferredFunction Generating XML output for class DerivativeStore Generating XML output for class DerivativeType Generating XML output for class DirectionTypes Generating XML output for class Divide Generating XML output for class DummyOutput Generating XML output for class EmptyFormat Generating XML output for class enumWrapper Generating XML output for class EulerSolver Generating XML output for class ExpressionParser Generating XML output for class exprTraits Generating XML output for class exprTraits< double > Generating XML output for class exprTraits< float > Generating XML output for class exprTraits< int > Generating XML output for class Factory Generating XML output for class FCIMap Generating XML output for class FCITransform Generating XML output for class fcmplx Generating XML output for class Field Generating XML output for class gen_fieldops::Field Generating XML output for class Field2D Generating XML output for class Field2DExpr Generating XML output for class Field3D Generating XML output for class Field3DExpr Generating XML output for class FieldAbs Generating XML output for class FieldATan Generating XML output for class FieldBallooning Generating XML output for class FieldBinary Generating XML output for class FieldCos Generating XML output for class FieldCosh Generating XML output for class FieldData Generating XML output for class FieldErf Generating XML output for class FieldFactory Generating XML output for class FieldFunction Generating XML output for class FieldGaussian Generating XML output for class FieldGenerator Generating XML output for class FieldGenOneArg Generating XML output for class FieldGenTwoArg Generating XML output for class FieldGroup Generating XML output for class FieldHeaviside Generating XML output for class FieldMax Generating XML output for class FieldMin Generating XML output for class FieldMixmode Generating XML output for class FieldNull Generating XML o/builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/bout/griddata.hxx:191: warning: The following parameter of GridFromOptions::get(Mesh *mesh, std::string &sval, const std::string &name, const std::string &def="") is not documented: parameter 'def' /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/bout/griddata.hxx:217: warning: The following parameter of GridFromOptions::get(Mesh *mesh, BoutReal &rval, const std::string &name, BoutReal def=0.0) is not documented: parameter 'def' /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/fileio/impls/hdf5/h5_format.hxx:129: warning: The following parameter of H5Format::getAttribute(const std::string &varname, const std::string &attrname, std::string &text) is not documented: parameter 'text' /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/fileio/impls/hdf5/h5_format.hxx:130: warning: The following parameter of H5Format::getAttribute(const std::string &varname, const std::string &attrname, int &value) is not documented: parameter 'value' /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/fileio/impls/hdf5/h5_format.hxx:131: warning: The following parameter of H5Format::getAttribute(const std::string &varname, const std::string &attrname, BoutReal &value) is not documented: parameter 'value' /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/invert/laplace/impls/petsc/petsc_laplace.hxx:185: warning: argument 'MatA' from the argument list of LaplacePetsc::Element has multiple @param documentation sections /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/invert/laplace/impls/petsc/petsc_laplace.hxx:186: warning: argument 'coef1' from the argument list of LaplacePetsc::Coeffs has multiple @param documentation sections /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/invert/laplace/impls/petsc/petsc_laplace.hxx:186: warning: argument 'coef2' from the argument list of LaplacePetsc::Coeffs has multiple @param documentation sections /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/invert/laplace/impls/petsc/petsc_laplace.hxx:186: warning: argument 'coef3' from the argument list of LaplacePetsc::Coeffs has multiple @param documentation sections /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/invert/laplace/impls/petsc/petsc_laplace.hxx:186: warning: argument 'coef4' from the argument list of LaplacePetsc::Coeffs has multiple @param documentation sections /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/invert/laplace/impls/petsc/petsc_laplace.hxx:186: warning: argument 'coef5' from the argument list of LaplacePetsc::Coeffs has multiple @param documentation sections /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/invert_laplace.hxx:212: warning: The following parameters of Laplacian::create(Options *opt=nullptr, const CELL_LOC loc=CELL_CENTRE, Mesh *mesh_in=nullptr) are not documented: parameter 'loc' parameter 'mesh_in' /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/invert_laplace.hxx:255: warning: argument 'avec' from the argument list of Laplacian::tridagMatrix has multiple @param documentation sections /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/invert_laplace.hxx:255: warning: argument 'bvec' from the argument list of Laplacian::tridagMatrix has multiple @param documentation sections /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/invert_laplace.hxx:255: warning: argument 'cvec' from the argument list of Laplacian::tridagMatrix has multiple @param documentation sections /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/bout/mesh.hxx:730: warning: argument 'v' of command @param is not found in the argument list of Mesh::indexVDDX(const T &vel, const T &f, CELL_LOC outloc=CELL_DEFAULT, const std::string &method="DEFAULT", REGION region=RGN_NOBNDRY) const /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/bout/mesh.hxx:748: warning: The following parameter of Mesh::indexVDDX(const T &vel, const T &f, CELL_LOC outloc=CELL_DEFAULT, const std::string &method="DEFAULT", REGION region=RGN_NOBNDRY) const is not documented: parameter 'vel' /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/fileio/impls/netcdf/nc_format.hxx:133: warning: The following parameter of NcFormat::getAttribute(const std::string &varname, const std::string &attrname, std::string &text) is not documented: parameter 'text' /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/fileio/impls/netcdf/nc_format.hxx:134: warning: The following parameter of NcFormat::getAttribute(const std::string &varname, const std::string &attrname, int &value) is not documented: parameter 'value' /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/fileio/impls/netcdf/nc_format.hxx:135: warning: The following parameter of NcFormat::getAttribute(const std::string &varname, const std::string &attrname, BoutReal &value) is not documented: parameter 'value' /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/fileio/impls/netcdf4/ncxx4.hxx:134: warning: The following parameter of Ncxx4::getAttribute(const std::string &varname, const std::string &attrname, std::string &text) is not documented: parameter 'text' /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/fileio/impls/netcdf4/ncxx4.hxx:135: warning: The following parameter of Ncxx4::getAttribute(const std::string &varname, const std::string &attrname, int &value) is not documented: parameter 'value' /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/fileio/impls/netcdf4/ncxx4.hxx:136: warning: The following parameter of Ncxx4::getAttribute(const std::string &varname, const std::string &attrname, BoutReal &value) is not documented: parameter 'value' /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/options.hxx:160: warning: argument 'parent' of command @param is not found in the argument list of Options::Options(Options *parent_instance, std::string full_name) /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/options.hxx:160: warning: argument 'sectionName' of command @param is not found in the argument list of Options::Options(Options *parent_instance, std::string full_name) /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/options.hxx:164: warning: The following parameters of Options::Options(Options *parent_instance, std::string full_name) are not documented: parameter 'parent_instance' parameter 'full_name' utput for class FieldPerp Generating XML output for class FieldRound Generating XML output for class FieldSin Generating XML output for class FieldSinh Generating XML output for class FieldSqrt Generating XML output for class FieldTanh Generating XML output for class FieldTanhHat Generating XML output for class FieldValue Generating XML output for class FieldValuePtr Generating XML output for class FieldVisitor Generating XML output for class FormatFactory Generating XML output for class FV::Fromm Generating XML output for class bout::utils::function_traits Generating XML output for class bout::utils::function_traits< R(*)(Args...)> Generating XML output for class GlobalField Generating XML output for class GlobalField2D Generating XML output for class GlobalField3D Generating XML output for class GridDataSource Generating XML output for class GridFile Generating XML output for class GridFromOptions Generating XML output for class H5Format Generating XML output for class bout::HeatFluxSNB Generating XML output for class HermiteSpline Generating XML output for class IdaSolver Generating XML output for class IMEXBDF2 Generating XML output for class BoundaryRegionPar::IndexPoint Generating XML output for class BoundaryRegionPar::Indices Generating XML output for class Interpolation Generating XML output for class InterpolationFactory Generating XML output for class bout::inversion::InvertableOperator Generating XML output for class InvertPar Generating XML output for class InvertParCR Generating XML output for class bout::utils::details::IsEqual Generating XML output for class KarniadakisSolver Generating XML output for class Lagrange4pt Generating XML output for class LaplaceCyclic Generating XML output for class LaplaceFactory Generating XML output for class LaplaceMultigrid Generating XML output for class LaplaceMumps Generating XML output for class LaplaceNaulin Generating XML output for class LaplacePDD Generating XML output for class LaplacePetsc Generating XML output for class LaplaceSerialBand Generating XML output for class LaplaceSerialTri Generating XML output for class LaplaceShoot Generating XML output for class LaplaceSPT Generating XML output for class LaplaceXY Generating XML output for class LaplaceXZ Generating XML output for class LaplaceXZcyclic Generating XML output for class LaplaceXZpetsc Generating XML output for class Laplacian Generating XML output for class LegacyModel Generating XML output for class ExpressionParser::LexInfo Generating XML output for class Literal Generating XML output for class LoadVarOp Generating XML output for class pvode::machenv_type Generating XML output for class Matrix Generating XML output for class FV::MC Generating XML output for class Mesh Generating XML output for class MeshFactory Generating XML output for class metaData Generating XML output for class FV::MinMod Generating XML output for class Monitor Generating XML output for class MonotonicHermiteSpline Generating XML output for class MsgStack Generating XML output for class MsgStackItem Generating XML output for class Multigrid1DP Generating XML output for class Multigrid2DPf1D Generating XML output for class MultigridAlg Generating XML output for class MultigridSerial Generating XML output for class multiostream Generating XML output for class multioutbuf Generating XML output for class multioutbuf_init Generating XML output for class Multiply Generating XML output for class NcFormat Generating XML output for class Ncxx4 Generating XML output for class pvode::nvec_type Generating XML output for class OptionINI Generating XML output for class OptionParser Generating XML output for class Options Generating XML output for class bout::experimental::OptionsNetCDF Generating XML output for class OptionsReader Generating XML output for class Options::OptionValue Generating XML output for class Output Generating XML output for class ShiftedMetric::ParallelSlicePhase Generating XML output for class ParallelTransform Generating XML output for class ParallelTransformIdentity Generating XML output for class ParDerivFactor/builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/bout/paralleltransform.hxx:265: warning: The following parameter of ShiftedMetric::shiftZ(const Field3D &f, const Field2D &zangle, const std::string ®ion="RGN_NOX") const is not documented: parameter 'region' /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/bout/paralleltransform.hxx:284: warning: The following parameter of ShiftedMetric::shiftZ(const Field3D &f, const Tensor< dcomplex > &phs, const YDirectionType y_direction_out, const std::string ®ion="RGN_NOX") const is not documented: parameter 'region' /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/bout/index_derivs_interface.hxx:276: warning: argument 'v' of command @param is not found in the argument list of bout::derivatives::index::VDDX(const T &vel, const T &f, CELL_LOC outloc=CELL_DEFAULT, const std::string &method="DEFAULT", const std::string ®ion="RGN_NOBNDRY") /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/bout/index_derivs_interface.hxx:292: warning: The following parameter of bout::derivatives::index::VDDX(const T &vel, const T &f, CELL_LOC outloc=CELL_DEFAULT, const std::string &method="DEFAULT", const std::string ®ion="RGN_NOBNDRY") is not documented: parameter 'vel' y Generating XML output for class ParseException Generating XML output for class LaplacePDD::PDD_data Generating XML output for class PetscLib Generating XML output for class PetscSolver Generating XML output for class PhysicsModel Generating XML output for class PhysicsModel::PhysicsModelMonitor Generating XML output for class PncFormat Generating XML output for class Power Generating XML output for class PowerSolver Generating XML output for class produceCombinations Generating XML output for class PromoteType Generating XML output for class pvode::pvbbddata_type Generating XML output for class PvodeSolver Generating XML output for class RangeIterator Generating XML output for class BoundaryRegionPar::RealPoint Generating XML output for class Region Generating XML output for class RegionStats Generating XML output for class RegisterInFactory Generating XML output for class RegisterInFactory< Solver, DerivedType > Generating XML output for class registerMethod Generating XML output for class RK3SSP Generating XML output for class RK4SIMPLEScheme Generating XML output for class RK4Solver Generating XML output for class RKF34Scheme Generating XML output for class RKF45Scheme Generating XML output for class RKGenericSolver Generating XML output for class RKScheme Generating XML output for class RKSchemeFactory Generating XML output for class RunMetrics Generating XML output for class SaveDerivsOp Generating XML output for class SaveVarOp Generating XML output for class Set Generating XML output for class ShiftedMetric Generating XML output for class SlepcLib Generating XML output for class SlepcSolver Generating XML output for class snes_info Generating XML output for class SNESSolver Generating XML output for class Solver Generating XML output for class SolverFactory Generating XML output for class SpecificInd Generating XML output for class pvode::SpgmrMemRec Generating XML output for class SplitFluxDerivativeType Generating XML output for class SplitRK Generating XML output for class LaplaceSPT::SPT_data Generating XML output for class bout::utils::details::StaticCastOrThrow Generating XML output for class stencil Generating XML output for class FV::Stencil1D Generating XML output for class Subtract Generating XML output for class SurfaceIter Generating XML output for class Tensor Generating XML output for class Timer Generating XML output for class Timer::timer_info Generating XML output for class bout::utils::details::ToString Generating XML output for class TypeContainer Generating XML output for class Uncopyable Generating XML output for class FV::Upwind Generating XML output for class Datafile::VarStr Generating XML output for class Solver::VarStr Generating XML output for class Vector2D Generating XML output for class Vector3D Generating XML output for class LaplaceXZpetsc::YSlice Generating XML output for namespace @106 Generating XML output for namespace @107 Generating XML output for namespace @175 Generating XML output for namespace @176 Generating XML output for namespace @177 Generating XML output for namespace @189 Generating XML output for namespace @205 Generating XML output for namespace @207 Generating XML output for namespace @209 Generating XML output for namespace @211 Generating XML output for namespace @213 Generating XML output for namespace @215 Generating XML output for namespace @217 Generating XML output for namespace @219 Generating XML output for namespace @221 Generating XML output for namespace @223 Generating XML output for namespace @225 Generating XML output for namespace @235 Generating XML output for namespace @240 Generating XML output for namespace @242 Generating XML output for namespace @244 Generating XML output for namespace @247 Generating XML output for namespace @251 Generating XML output for namespace @256 Generating XML output for namespace @4 Generating XML output for namespace bout Generating XML output for namespace bout::derivatives Generating XML output for namespace bout::derivatives::index Generating XML output for namespace bout::experimental Generating XML output f/builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/bout/sys/variant.hxx:81: warning: Found unknown command '\v' /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/bout/sys/variant.hxx:118: warning: Found unknown command '\v' /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/difops.hxx:208: warning: The following parameter of Grad2_par2(const Field2D &f, CELL_LOC outloc=CELL_DEFAULT, const std::string &method="DEFAULT") is not documented: parameter 'method' /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/difops.hxx:299: warning: The following parameter of Div_par_K_Grad_par(BoutReal kY, const Field2D &f, CELL_LOC outloc=CELL_DEFAULT) is not documented: parameter 'outloc' /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/gyro_average.hxx:52: warning: argument 'flags' of command @param is not found in the argument list of gyroPade0(const Field3D &f, const Field3D &rho, int inner_boundary_flags, int outer_boundary_flags) /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/gyro_average.hxx:61: warning: The following parameters of gyroPade0(const Field3D &f, const Field3D &rho, int inner_boundary_flags, int outer_boundary_flags) are not documented: parameter 'inner_boundary_flags' parameter 'outer_boundary_flags' /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/gyro_average.hxx:84: warning: argument 'flags' of command @param is not found in the argument list of gyroPade1(const Field3D &f, const Field3D &rho, int inner_boundary_flags, int outer_boundary_flags) /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/gyro_average.hxx:91: warning: The following parameters of gyroPade1(const Field3D &f, const Field3D &rho, int inner_boundary_flags, int outer_boundary_flags) are not documented: parameter 'inner_boundary_flags' parameter 'outer_boundary_flags' /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/gyro_average.hxx:120: warning: argument 'flags' of command @param is not found in the argument list of gyroPade2(const Field3D &f, const Field3D &rho, int inner_boundary_flags, int outer_boundary_flags) /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/gyro_average.hxx:131: warning: The following parameters of gyroPade2(const Field3D &f, const Field3D &rho, int inner_boundary_flags, int outer_boundary_flags) are not documented: parameter 'inner_boundary_flags' parameter 'outer_boundary_flags' or namespace bout::fft Generating XML output for namespace bout::globals Generating XML output for namespace bout::inversion Generating XML output for namespace bout::utils Generating XML output for namespace bout::utils::details Generating XML output for namespace FV Generating XML output for namespace gen_fieldops Generating XML output for namespace netCDF Generating XML output for namespace pvode Generating XML output for namespace SI Generating XML output for namespace std Generating XML output for file boundary_factory.hxx Generating XML output for file boundary_op.hxx Generating XML output for file boundary_region.hxx Generating XML output for file boundary_standard.hxx Generating XML output for file bout.hxx Generating XML output for file array.hxx Generating XML output for file assert.hxx Generating XML output for file constants.hxx Generating XML output for file coordinates.hxx Generating XML output for file deprecated.hxx Generating XML output for file deriv_store.hxx Generating XML output for file expr.hxx Generating XML output for file field_visitor.hxx Generating XML output for file fieldgroup.hxx Generating XML output for file format.hxx Generating XML output for file fv_ops.hxx Generating XML output for file generic_factory.hxx Generating XML output for file globalfield.hxx Generating XML output for file griddata.hxx Generating XML output for file index_derivs.hxx Generating XML output for file index_derivs_interface.hxx Generating XML output for file laplacexy.hxx Generating XML output for file laplacexz.hxx Generating XML output for file invertable_operator.hxx Generating XML output for file macro_for_each.hxx Generating XML output for file mesh.hxx Generating XML output for file monitor.hxx Generating XML output for file openmpwrap.hxx Generating XML output for file paralleltransform.hxx Generating XML output for file petsclib.hxx Generating XML output for file physicsmodel.hxx Generating XML output for file region.hxx Generating XML output for file rkscheme.hxx Generating XML output for file rvec.hxx Generating XML output for file scorepwrapper.hxx Generating XML output for file slepclib.hxx Generating XML output for file snb.hxx Generating XML output for file solver.hxx Generating XML output for file solverfactory.hxx Generating XML output for file surfaceiter.hxx Generating XML output for file expressionparser.hxx Generating XML output for file gettext.hxx Generating XML output for file range.hxx Generating XML output for file timer.hxx Generating XML output for file type_name.hxx Generating XML output for file uncopyable.hxx Generating XML output for file variant.hxx Generating XML output for file template_combinations.hxx Generating XML output for file traits.hxx Generating XML output for file bout_types.hxx Generating XML output for file boutcomm.hxx Generating XML output for file boutexception.hxx Generating XML output for file boutmain.hxx Generating XML output for file cyclic_reduction.hxx Generating XML output for file datafile.hxx Generating XML output for file dataformat.hxx Generating XML output for file dcomplex.hxx Generating XML output for file derivs.hxx Generating XML output for file difops.hxx Generating XML output for file fft.hxx Generating XML output for file field.hxx Generating XML output for file field2d.hxx Generating XML output for file field3d.hxx Generating XML output for file field_data.hxx Generating XML output for file field_factory.hxx Generating XML output for file fieldperp.hxx Generating XML output for file globals.hxx Generating XML output for file gyro_average.hxx Generating XML output for file initialprofiles.hxx Generating XML output for file interpolation.hxx Generating XML output for file interpolation_factory.hxx Generating XML output for file invert_laplace.hxx Generating XML output for file invert_parderiv.hxx Generating XML output for file lapack_routines.hxx Generating XML output for file mask.hxx Generating XML output for file msg_stack.hxx Generating XML output for file multiostream.hxx Generating XML output for file options.hxx Generating XML output for file options_netcdf.hxx Generating XML output for file optionsreader.hxx Generating XML output for file output.hxx Generating XML output for file parallel_boundary_op.hxx Generating XML output for file parallel_boundary_region.hxx Generating XML output for file band.h Generating XML output for file cvdiag.h Generating XML output for file cvode.h Generating XML output for file cvspgmr.h Generating XML output for file iterativ.h Generating XML output for file llnlmath.h Generating XML output for file llnltyps.h Generating XML output for file nvector.h Generating XML output for file pvbbdpre.h Generating XML output for file smalldense.h Generating XML output for file spgmr.h Generating XML output for file vector.h Generating XML output for file smoothing.hxx Generating XML output for file sourcex.hxx Generating XML output for file stencils.hxx Generating XML output for file unused.hxx Generating XML output for file utils.hxx Generating XML output for file vecops.hxx Generating XML output for file vector2d.hxx Generating XML output for file vector3d.hxx Generating XML output for file where.hxx Generating XML output for file bout++.cxx Generating XML output for file field.cxx Generating XML output for file field2d.cxx Generating XML output for file field3d.cxx Generating XML output for file field_data.cxx Generating XML output for file field_factory.cxx Generating XML output for file fieldgenerators.cxx Generating XML output for file fieldgenerators.hxx Generating XML output for file fieldgroup.cxx Generating XML output for file fieldperp.cxx Generating XML output for file gen_fieldops.py Generating XML output for file generated_fieldops.cxx Generating XML output for file globalfield.cxx Generating XML output for file initialprofiles.cxx Generating XML output for file vecops.cxx Generating XML output for file vector2d.cxx Generating XML output for file vector3d.cxx Generating XML output for file where.cxx Generating XML output for file datafile.cxx Generating XML output for file dataformat.cxx Generating XML output for file formatfactory.cxx Generating XML output for file formatfactory.hxx Generating XML output for file emptyformat.hxx Generating XML output for file h5_format.cxx Generating XML output for file h5_format.hxx Generating XML output for file nc_format.cxx Generating XML output for file nc_format.hxx Generating XML output for file ncxx4.cxx Generating XML output for file ncxx4.hxx Generating XML output for file pnetcdf.cxx Generating XML output for file pnetcdf.hxx Generating XML output for file fft_fftw.cxx Generating XML output for file lapack_routines.cxx Generating XML output for file cyclic_laplace.cxx Generating XML output for file cyclic_laplace.hxx Generating XML output for file multigrid_alg.cxx Generating XML output for file multigrid_laplace.cxx Generating XML output for file multigrid_laplace.hxx Generating XML output for file multigrid_solver.cxx Generating XML output for file mumps_laplace.cxx Generating XML output for file mumps_laplace.hxx Generating XML output for file naulin_laplace.cxx Generating XML output for file naulin_laplace.hxx Generating XML output for file pdd.cxx Generating XML output for file pdd.hxx Generating XML output for file petsc_laplace.cxx Generating XML output for file petsc_laplace.hxx Generating XML output for file serial_band.cxx Generating XML output for file serial_band.hxx Generating XML output for file serial_tri.cxx Generating XML output for file serial_tri.hxx Generating XML output for file shoot_laplace.cxx Generating XML output for file shoot_laplace.hxx Generating XML output for file spt.cxx Generating XML output for file spt.hxx Generating XML output for file invert_laplace.cxx Generating XML output for file laplacefactory.cxx Generating XML output for file laplacefactory.hxx Generating XML output for file laplacexy.cxx Generating XML output for file laplacexz-cyclic.cxx Generating XML output for file laplacexz-cyclic.hxx Generating XML output for file laplacexz-petsc.cxx Generating XML output for file laplacexz-petsc.hxx Generating XML output for file laplacexz/builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/mesh/difops.cxx:274: warning: The following parameter of Grad2_par2(const Field2D &f, CELL_LOC outloc=CELL_DEFAULT, const std::string &method="DEFAULT") is not documented: parameter 'method' /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/mesh/difops.cxx:287: warning: The following parameter of Div_par_K_Grad_par(BoutReal kY, const Field2D &f, CELL_LOC outloc=CELL_DEFAULT) is not documented: parameter 'outloc' /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/gyro_average.hxx:52: warning: argument 'flags' of command @param is not found in the argument list of gyroPade0(const Field3D &f, const Field3D &rho, int inner_boundary_flags, int outer_boundary_flags) /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/physics/gyro_average.cxx:78: warning: The following parameters of gyroPade0(const Field3D &f, const Field3D &rho, int inner_boundary_flags, int outer_boundary_flags) are not documented: parameter 'inner_boundary_flags' parameter 'outer_boundary_flags' /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/gyro_average.hxx:84: warning: argument 'flags' of command @param is not found in the argument list of gyroPade1(const Field3D &f, const Field3D &rho, int inner_boundary_flags, int outer_boundary_flags) /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/physics/gyro_average.cxx:119: warning: The following parameters of gyroPade1(const Field3D &f, const Field3D &rho, int inner_boundary_flags, int outer_boundary_flags) are not documented: parameter 'inner_boundary_flags' parameter 'outer_boundary_flags' /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/gyro_average.hxx:120: warning: argument 'flags' of command @param is not found in the argument list of gyroPade2(const Field3D &f, const Field3D &rho, int inner_boundary_flags, int outer_boundary_flags) /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/physics/gyro_average.cxx:149: warning: The following parameters of gyroPade2(const Field3D &f, const Field3D &rho, int inner_boundary_flags, int outer_boundary_flags) are not documented: parameter 'inner_boundary_flags' parameter 'outer_boundary_flags' .cxx Generating XML output for file cyclic.cxx Generating XML output for file cyclic.hxx Generating XML output for file invert_parderiv.cxx Generating XML output for file parderiv_factory.cxx Generating XML output for file parderiv_factory.hxx Generating XML output for file boundary_factory.cxx Generating XML output for file boundary_region.cxx Generating XML output for file boundary_standard.cxx Generating XML output for file coordinates.cxx Generating XML output for file gridfromfile.cxx Generating XML output for file gridfromoptions.cxx Generating XML output for file difops.cxx Generating XML output for file fv_ops.cxx Generating XML output for file boutmesh.cxx Generating XML output for file boutmesh.hxx Generating XML output for file index_derivs.cxx Generating XML output for file interpolation.cxx Generating XML output for file bilinear.cxx Generating XML output for file hermite_spline.cxx Generating XML output for file interpolation_factory.cxx Generating XML output for file lagrange_4pt.cxx Generating XML output for file monotonic_hermite_spline.cxx Generating XML output for file mesh.cxx Generating XML output for file meshfactory.cxx Generating XML output for file meshfactory.hxx Generating XML output for file fci.cxx Generating XML output for file fci.hxx Generating XML output for file identity.cxx Generating XML output for file shiftedmetric.cxx Generating XML output for file parallel_boundary_op.cxx Generating XML output for file parallel_boundary_region.cxx Generating XML output for file surfaceiter.cxx Generating XML output for file gyro_average.cxx Generating XML output for file physicsmodel.cxx Generating XML output for file smoothing.cxx Generating XML output for file snb.cxx Generating XML output for file sourcex.cxx Generating XML output for file arkode.cxx Generating XML output for file arkode.hxx Generating XML output for file cvode.cxx Generating XML output for file cvode.hxx Generating XML output for file euler.cxx Generating XML output for file euler.hxx Generating XML output for file ida.cxx Generating XML output for file ida.hxx Generating XML output for file imex-bdf2.cxx Generating XML output for file imex-bdf2.hxx Generating XML output for file karniadakis.cxx Generating XML output for file karniadakis.hxx Generating XML output for file petsc.cxx Generating XML output for file petsc.hxx Generating XML output for file power.cxx Generating XML output for file power.hxx Generating XML output for file pvode.cxx Generating XML output for file pvode.hxx Generating XML output for file rk3-ssp.cxx Generating XML output for file rk3-ssp.hxx Generating XML output for file rk4.cxx Generating XML output for file rk4.hxx Generating XML output for file cashkarp.cxx Generating XML output for file cashkarp.hxx Generating XML output for file rk4simple.cxx Generating XML output for file rk4simple.hxx Generating XML output for file rkf34.cxx Generating XML output for file rkf34.hxx Generating XML output for file rkf45.cxx Generating XML output for file rkf45.hxx Generating XML output for file rkgeneric.cxx Generating XML output for file rkgeneric.hxx Generating XML output for file rkscheme.cxx Generating XML output for file rkschemefactory.cxx Generating XML output for file rkschemefactory.hxx Generating XML output for file slepc.cxx Generating XML output for file slepc.hxx Generating XML output for file snes.cxx Generating XML output for file snes.hxx Generating XML output for file split-rk.cxx Generating XML output for file split-rk.hxx Generating XML output for file solver.cxx Generating XML output for file solverfactory.cxx Generating XML output for file bout_types.cxx Generating XML output for file boutcomm.cxx Generating XML output for file boutexception.cxx Generating XML output for file derivs.cxx Generating XML output for file expressionparser.cxx Generating XML output for file msg_stack.cxx Generating XML output for file options.cxx Generating XML output for file optionparser.hxx Generating XML output for file options_ini.cxx Generating XML output for file options_ini.hxx Generating XML output for file options_netcdf.cxx Generating XML output for file optionsreader.cxx Generating XML output for file output.cxx Generating XML output for file petsclib.cxx Generating XML output for file range.cxx Generating XML output for file slepclib.cxx Generating XML output for file timer.cxx Generating XML output for file type_name.cxx Generating XML output for file utils.cxx Generate XML output for dir /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/solver/impls/arkode/ Generate XML output for dir /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/bout/ Generate XML output for dir /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/mesh/impls/bout/ Generate XML output for dir /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/solver/impls/rkgeneric/impls/cashkarp/ Generate XML output for dir /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/solver/impls/cvode/ Generate XML output for dir /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/invert/laplace/impls/cyclic/ Generate XML output for dir /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/invert/parderiv/impls/cyclic/ Generate XML output for dir /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/invert/laplacexz/impls/cyclic/ Generate XML output for dir /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/mesh/data/ Generate XML output for dir /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/solver/impls/euler/ Generate XML output for dir /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/field/ Generate XML output for dir /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/fileio/ Generate XML output for dir /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/fileio/impls/hdf5/ Generate XML output for dir /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/solver/impls/ida/ Generate XML output for dir /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/solver/impls/imex-bdf2/ Generate XML output for dir /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/invert/parderiv/impls/ Generate XML output for dir /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/fileio/impls/ Generate XML output for dir /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/invert/laplace/impls/ Generate XML output for dir /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/mesh/impls/ Generate XML output for dir /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/solver/impls/ Generate XML output for dir /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/solver/impls/rkgeneric/impls/ Generate XML output for dir /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/invert/laplacexz/impls/ Generate XML output for dir /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/ Generate XML output for dir /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/mesh/interpolation/ Generate XML output for dir /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/bout/invert/ Generate XML output for dir /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/invert/ Generate XML output for dir /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/solver/impls/karniadakis/ Generate XML output for dir /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/invert/laplace/ Generate XML output for dir /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/invert/laplacexy/ Generate XML output for dir /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/invert/laplacexz/ Generate XML output for dir /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/mesh/ Generate XML output for dir /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/invert/laplace/impls/multigrid/ Generate XML output for dir /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/invert/laplace/impls/mumps/ Generate XML output for dir /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/invert/laplace/impls/naulin/ Generate XML output for dir /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/fileio/impls/netcdf/ Generate XML output for dir /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/fileio/impls/netcdf4/ Generate XML output for dir /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/sys/options/ Generate XML output for dir /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/mesh/parallel/ Generate XML output for dir /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/invert/parderiv/ Generate XML output for dir /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/invert/laplace/impls/pdd/ Generate XML output for dir /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/invert/laplace/impls/petsc/ Generate XML output for dir /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/solver/impls/petsc/ Generate XML output for dir /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/invert/laplacexz/impls/petsc/ Generate XML output for dir /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/physics/ Generate XML output for dir /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/fileio/impls/pnetcdf/ Generate XML output for dir /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/solver/impls/power/ Generate XML output for dir /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/solver/impls/pvode/ Generate XML output for dir /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/pvode/ Generate XML output for dir /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/solver/impls/rk3-ssp/ Generate XML output for dir /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/solver/impls/rk4/ Generate XML output for dir /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/solver/impls/rkgeneric/impls/rk4simple/ Generate XML output for dir /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/solver/impls/rkgeneric/impls/rkf34/ Generate XML output for dir /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/solver/impls/rkgeneric/impls/rkf45/ Generate XML output for dir /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/solver/impls/rkgeneric/ Generate XML output for dir /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/invert/laplace/impls/serial_band/ Generate XML output for dir /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/invert/laplace/impls/serial_tri/ Generate XML output for dir /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/invert/laplace/impls/shoot/ Generate XML output for dir /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/solver/impls/slepc/ Generate XML output for dir /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/solver/impls/snes/ Generate XML output for dir /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/solver/ Generate XML output for dir /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/solver/impls/split-rk/ Generate XML output for dir /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/invert/laplace/impls/spt/ Generate XML output for dir /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/ Generate XML output for dir /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/src/sys/ Generate XML output for dir /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/include/bout/sys/ Generating XML output for the main page Running plantuml with JAVA... lookup cache used 17691/65536 hits=275745 misses=18151 finished... PYTHONPATH=../tools/pylib:$PYTHONPATH sphinx-build-3 -b html sphinx/ html/ Running Sphinx v3.1.2 breathe module not installed recommonmark module not installed making output directory... done WARNING: html_static_path entry '_static' does not exist building [mo]: targets for 0 po files that are out of date building [html]: targets for 40 source files that are out of date updating environment: [new config] 40 added, 0 changed, 0 removed reading sources... [ 2%] _apidoc/boutdata /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/tools/pylib/boutdata/data.py:191: SyntaxWarning: "is" with a literal. Did you mean "=="? if sectionname is "root": /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/tools/pylib/boutdata/data.py:206: SyntaxWarning: "is not" with a literal. Did you mean "!="? if nested_sectionname is not "": /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/tools/pylib/boutdata/data.py:217: SyntaxWarning: "is not" with a literal. Did you mean "!="? if nested_sectionname is not "": reading sources... [ 5%] _apidoc/boututils /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/tools/pylib/boututils/options.py:94: SyntaxWarning: "is not" with a literal. Did you mean "!="? if len(line) > 0 and line[0] is not '#': No mlab available reading sources... [ 7%] _apidoc/zoidberg /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/tools/pylib/zoidberg/poloidal_grid.py:32: UserWarning: Couldn't import matplotlib, plotting not available. warnings.warn("Couldn't import matplotlib, plotting not available.") /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/tools/pylib/zoidberg/rzline.py:18: UserWarning: Couldn't import matplotlib, plotting not available. warnings.warn("Couldn't import matplotlib, plotting not available.") /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/tools/pylib/zoidberg/plot.py:12: UserWarning: Couldn't import matplotlib, plotting not available. warnings.warn("Couldn't import matplotlib, plotting not available.") reading sources... [ 10%] api_reference reading sources... [ 12%] developer_docs/code_layout reading sources... [ 15%] developer_docs/contributing reading sources... [ 17%] developer_docs/data_types reading sources... [ 20%] developer_docs/file_io reading sources... [ 22%] developer_docs/git_basics reading sources... 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[100%] user_docs/variable_init WARNING: missing attribute mentioned in :members: or __all__: module boutdata, attribute gen_surface WARNING: missing attribute mentioned in :members: or __all__: module boutdata, attribute pol_slice WARNING: autodoc: failed to import module 'cbdtoeqdsk' from module 'boutdata'; the following exception was raised: No module named 'bunch' /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/tools/pylib/boutdata/collect.py:docstring of boutdata.collect:1: WARNING: duplicate object description of boutdata.collect, other instance in _apidoc/boutdata, use :noindex: for one of them WARNING: autodoc: failed to import module 'griddata' from module 'boutdata'; the following exception was raised: No module named 'matplotlib' WARNING: autodoc: failed to import module 'mayavi2' from module 'boutdata'; the following exception was raised: No module named 'enthought' WARNING: autodoc: failed to import module 'mms' from module 'boutdata'; the following exception was raised: No module named 'sympy' /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/tools/pylib/boutdata/__init__.py:docstring of boutdata:1: WARNING: duplicate object description of boutdata, other instance in _apidoc/boutdata, use :noindex: for one of them /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/tools/pylib/boutdata/__init__.py:docstring of boutdata.attributes:1: WARNING: duplicate object description of boutdata.attributes, other instance in _apidoc/boutdata, use :noindex: for one of them /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/tools/pylib/boutdata/__init__.py:docstring of boutdata.collect:1: WARNING: duplicate object description of boutdata.collect, other instance in _apidoc/boutdata, use :noindex: for one of them /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/tools/pylib/boutdata/restart.py:docstring of boutdata.restart.normal:55: WARNING: Footnote [1] is not referenced. WARNING: missing attribute mentioned in :members: or __all__: module boututils, attribute calculus WARNING: missing attribute mentioned in :members: or __all__: module boututils, attribute closest_line WARNING: missing attribute mentioned in :members: or __all__: module boututils, attribute fft_deriv WARNING: missing attribute mentioned in :members: or __all__: module boututils, attribute fft_integrate WARNING: missing attribute mentioned in :members: or __all__: module boututils, attribute int_func WARNING: missing attribute mentioned in :members: or __all__: module boututils, attribute linear_regression WARNING: missing attribute mentioned in :members: or __all__: module boututils, attribute mode_structure WARNING: missing attribute mentioned in :members: or __all__: module boututils, attribute run_wrapper WARNING: missing attribute mentioned in :members: or __all__: module boututils, attribute shell WARNING: missing attribute mentioned in :members: or __all__: module boututils, attribute showdata WARNING: autodoc: failed to import module 'analyse_equil_2' from module 'boututils'; the following exception was raised: No module named 'past' WARNING: autodoc: failed to import module 'anim' from module 'boututils'; the following exception was raised: No module named 'tvtk' WARNING: autodoc: failed to import module 'boutgrid' from module 'boututils'; the following exception was raised: No module named 'tvtk' WARNING: autodoc: failed to import module 'contour' from module 'boututils'; the following exception was raised: No module named 'past' WARNING: autodoc: failed to import module 'crosslines' from module 'boututils'; the following exception was raised: No module named 'past' WARNING: autodoc: failed to import module 'efit_analyzer' from module 'boututils'; the following exception was raised: No module named 'past' WARNING: autodoc: failed to import module 'fft_deriv' from module 'boututils'; the following exception was raised: No module named 'past' WARNING: autodoc: failed to import module 'fft_integrate' from module 'boututils'; the following exception was raised: No module named 'past' WARNING: autodoc: failed to import module 'int_func' from module 'boututils'; the following exception was raised: No module named 'past' WARNING: autodoc: failed to import module 'mode_structure' from module 'boututils'; the following exception was raised: No module named 'past' WARNING: autodoc: failed to import module 'moment_xyzt' from module 'boututils'; the following exception was raised: No module named 'past' WARNING: autodoc: failed to import module 'plotdata' from module 'boututils'; the following exception was raised: No module named 'matplotlib' WARNING: autodoc: failed to import module 'plotpolslice' from module 'boututils'; the following exception was raised: No module named 'past' WARNING: autodoc: failed to import module 'radial_grid' from module 'boututils'; the following exception was raised: No module named 'past' WARNING: autodoc: failed to import module 'read_geqdsk' from module 'boututils'; the following exception was raised: No module named 'bunch' WARNING: autodoc: failed to import module 'showdata' from module 'boututils'; the following exception was raised: No module named 'matplotlib' WARNING: autodoc: failed to import module 'surface_average' from module 'boututils'; the following exception was raised: No module named 'past' WARNING: autodoc: failed to import module 'volume_integral' from module 'boututils'; the following exception was raised: No module named 'past' WARNING: missing attribute mentioned in :members: or __all__: module boututils, attribute fft_deriv WARNING: missing attribute mentioned in :members: or __all__: module boututils, attribute fft_integrate WARNING: missing attribute mentioned in :members: or __all__: module boututils, attribute int_func WARNING: missing attribute mentioned in :members: or __all__: module boututils, attribute mode_structure WARNING: missing attribute mentioned in :members: or __all__: module boututils, attribute shell WARNING: missing attribute mentioned in :members: or __all__: module boututils, attribute showdata /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/tools/pylib/boututils/__init__.py:docstring of boututils:1: WARNING: duplicate object description of boututils, other instance in _apidoc/boututils, use :noindex: for one of them /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/tools/pylib/zoidberg/field.py:docstring of zoidberg.field.MagneticField.attributes:1: WARNING: duplicate object description of zoidberg.field.MagneticField.attributes, other instance in _apidoc/zoidberg, use :noindex: for one of them /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/tools/pylib/zoidberg/field.py:docstring of zoidberg.field.MagneticField.boundary:1: WARNING: duplicate object description of zoidberg.field.MagneticField.boundary, other instance in _apidoc/zoidberg, use :noindex: for one of them /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/tools/pylib/zoidberg/__init__.py:docstring of zoidberg:1: WARNING: duplicate object description of zoidberg, other instance in _apidoc/zoidberg, use :noindex: for one of them /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/tools/pylib/zoidberg/__init__.py:docstring of zoidberg.make_maps:1: WARNING: duplicate object description of zoidberg.make_maps, other instance in _apidoc/zoidberg, use :noindex: for one of them /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/tools/pylib/zoidberg/__init__.py:docstring of zoidberg.write_maps:1: WARNING: duplicate object description of zoidberg.write_maps, other instance in _apidoc/zoidberg, use :noindex: for one of them /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/manual/sphinx/api_reference.rst:4: WARNING: toctree glob pattern '_breathe_autogen/*' didn't match any documents /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/manual/sphinx/developer_docs/data_types.rst:75: WARNING: Definition list ends without a blank line; unexpected unindent. /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/manual/sphinx/user_docs/installing.rst:93: WARNING: Block quote ends without a blank line; unexpected unindent. /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/manual/sphinx/user_docs/nonlocal.rst:119: WARNING: malformed hyperlink target. WARNING: missing attribute mentioned in :members: or __all__: module boututils, attribute fft_deriv WARNING: missing attribute mentioned in :members: or __all__: module boututils, attribute fft_integrate WARNING: missing attribute mentioned in :members: or __all__: module boututils, attribute int_func WARNING: missing attribute mentioned in :members: or __all__: module boututils, attribute mode_structure WARNING: missing attribute mentioned in :members: or __all__: module boututils, attribute shell WARNING: missing attribute mentioned in :members: or __all__: module boututils, attribute showdata /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/tools/pylib/boututils/__init__.py:docstring of boututils:1: WARNING: duplicate object description of boututils, other instance in _apidoc/boututils, use :noindex: for one of them /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/tools/pylib/boutdata/__init__.py:docstring of boutdata:1: WARNING: duplicate object description of boutdata, other instance in _apidoc/boutdata, use :noindex: for one of them /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/tools/pylib/boutdata/__init__.py:docstring of boutdata.attributes:1: WARNING: duplicate object description of boutdata.attributes, other instance in _apidoc/boutdata, use :noindex: for one of them /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/tools/pylib/boutdata/__init__.py:docstring of boutdata.collect:1: WARNING: duplicate object description of boutdata.collect, other instance in _apidoc/boutdata, use :noindex: for one of them docstring of boutcore.Laplace:2: WARNING: Block quote ends without a blank line; unexpected unindent. docstring of boutcore.Laplace:5: WARNING: Unexpected section title. Parameters ---------- docstring of boutcore.Laplace:10: WARNING: Unexpected section title. Returns ------- docstring of boutcore.create3D:3: WARNING: Unexpected indentation. docstring of boutcore:1: WARNING: duplicate object description of boutcore, other instance in user_docs/python_boutcore, use :noindex: for one of them docstring of boutcore:1: WARNING: duplicate object description of boutcore, other instance in user_docs/python_boutcore, use :noindex: for one of them docstring of boutcore.Coordinates:1: WARNING: duplicate object description of boutcore.Coordinates, other instance in user_docs/python_boutcore, use :noindex: for one of them docstring of boutcore.D2DX2:1: WARNING: duplicate object description of boutcore.D2DX2, other instance in user_docs/python_boutcore, use :noindex: for one of them docstring of boutcore.D2DY2:1: WARNING: duplicate object description of boutcore.D2DY2, other instance in user_docs/python_boutcore, use :noindex: for one of them docstring of boutcore.D2DZ2:1: WARNING: duplicate object description of boutcore.D2DZ2, other instance in user_docs/python_boutcore, use :noindex: for one of them docstring of boutcore.DDX:1: WARNING: duplicate object description of boutcore.DDX, other instance in user_docs/python_boutcore, use :noindex: for one of them docstring of boutcore.DDY:1: WARNING: duplicate object description of boutcore.DDY, other instance in user_docs/python_boutcore, use :noindex: for one of them docstring of boutcore.DDZ:1: WARNING: duplicate object description of boutcore.DDZ, other instance in user_docs/python_boutcore, use :noindex: for one of them docstring of boutcore.Div_par:1: WARNING: duplicate object description of boutcore.Div_par, other instance in user_docs/python_boutcore, use :noindex: for one of them docstring of boutcore.FDDX:1: WARNING: duplicate object description of boutcore.FDDX, other instance in user_docs/python_boutcore, use :noindex: for one of them docstring of boutcore.FDDY:1: WARNING: duplicate object description of boutcore.FDDY, other instance in user_docs/python_boutcore, use :noindex: for one of them docstring of boutcore.FDDZ:1: WARNING: duplicate object description of boutcore.FDDZ, other instance in user_docs/python_boutcore, use :noindex: for one of them docstring of boutcore.Field2D:1: WARNING: duplicate object description of boutcore.Field2D, other instance in user_docs/python_boutcore, use :noindex: for one of them docstring of boutcore.Field2D.applyBoundary:1: WARNING: duplicate object description of boutcore.Field2D.applyBoundary, other instance in user_docs/python_boutcore, use :noindex: for one of them docstring of boutcore.Field2D.ddt:1: WARNING: duplicate object description of boutcore.Field2D.ddt, other instance in user_docs/python_boutcore, use :noindex: for one of them docstring of boutcore.Field2D.fromBoutOutputs:1: WARNING: duplicate object description of boutcore.Field2D.fromBoutOutputs, other instance in user_docs/python_boutcore, use :noindex: for one of them docstring of boutcore.Field2D.fromCollect:1: WARNING: duplicate object description of boutcore.Field2D.fromCollect, other instance in user_docs/python_boutcore, use :noindex: for one of them docstring of boutcore.Field2D.fromMesh:1: WARNING: duplicate object description of boutcore.Field2D.fromMesh, other instance in user_docs/python_boutcore, use :noindex: for one of them docstring of boutcore.Field2D.get:1: WARNING: duplicate object description of boutcore.Field2D.get, other instance in user_docs/python_boutcore, use :noindex: for one of them docstring of boutcore.Field2D.getAll:1: WARNING: duplicate object description of boutcore.Field2D.getAll, other instance in user_docs/python_boutcore, use :noindex: for one of them docstring of boutcore.Field2D.getLocation:1: WARNING: duplicate object description of boutcore.Field2D.getLocation, other instance in user_docs/python_boutcore, use :noindex: for one of them docstring of boutcore.Field2D.isAllocated:1: WARNING: duplicate object description of boutcore.Field2D.isAllocated, other instance in user_docs/python_boutcore, use :noindex: for one of them docstring of boutcore.Field2D.set:1: WARNING: duplicate object description of boutcore.Field2D.set, other instance in user_docs/python_boutcore, use :noindex: for one of them docstring of boutcore.Field2D.setAll:1: WARNING: duplicate object description of boutcore.Field2D.setAll, other instance in user_docs/python_boutcore, use :noindex: for one of them docstring of boutcore.Field2D.setLocation:1: WARNING: duplicate object description of boutcore.Field2D.setLocation, other instance in user_docs/python_boutcore, use :noindex: for one of them docstring of boutcore.Field3D:1: WARNING: duplicate object description of boutcore.Field3D, other instance in user_docs/python_boutcore, use :noindex: for one of them docstring of boutcore.Field3D.applyBoundary:1: WARNING: duplicate object description of boutcore.Field3D.applyBoundary, other instance in user_docs/python_boutcore, use :noindex: for one of them docstring of boutcore.Field3D.ddt:1: WARNING: duplicate object description of boutcore.Field3D.ddt, other instance in user_docs/python_boutcore, use :noindex: for one of them docstring of boutcore.Field3D.fromBoutOutputs:1: WARNING: duplicate object description of boutcore.Field3D.fromBoutOutputs, other instance in user_docs/python_boutcore, use :noindex: for one of them docstring of boutcore.Field3D.fromCollect:1: WARNING: duplicate object description of boutcore.Field3D.fromCollect, other instance in user_docs/python_boutcore, use :noindex: for one of them docstring of boutcore.Field3D.fromMesh:1: WARNING: duplicate object description of boutcore.Field3D.fromMesh, other instance in user_docs/python_boutcore, use :noindex: for one of them docstring of boutcore.Field3D.get:1: WARNING: duplicate object description of boutcore.Field3D.get, other instance in user_docs/python_boutcore, use :noindex: for one of them docstring of boutcore.Field3D.getAll:1: WARNING: duplicate object description of boutcore.Field3D.getAll, other instance in user_docs/python_boutcore, use :noindex: for one of them docstring of boutcore.Field3D.getLocation:1: WARNING: duplicate object description of boutcore.Field3D.getLocation, other instance in user_docs/python_boutcore, use :noindex: for one of them docstring of boutcore.Field3D.isAllocated:1: WARNING: duplicate object description of boutcore.Field3D.isAllocated, other instance in user_docs/python_boutcore, use :noindex: for one of them docstring of boutcore.Field3D.set:1: WARNING: duplicate object description of boutcore.Field3D.set, other instance in user_docs/python_boutcore, use :noindex: for one of them docstring of boutcore.Field3D.setAll:1: WARNING: duplicate object description of boutcore.Field3D.setAll, other instance in user_docs/python_boutcore, use :noindex: for one of them docstring of boutcore.Field3D.setLocation:1: WARNING: duplicate object description of boutcore.Field3D.setLocation, other instance in user_docs/python_boutcore, use :noindex: for one of them docstring of boutcore.Grad_par:1: WARNING: duplicate object description of boutcore.Grad_par, other instance in user_docs/python_boutcore, use :noindex: for one of them docstring of boutcore.Grad_perp:1: WARNING: duplicate object description of boutcore.Grad_perp, other instance in user_docs/python_boutcore, use :noindex: for one of them docstring of boutcore.Grad_perp_dot_Grad_perp:1: WARNING: duplicate object description of boutcore.Grad_perp_dot_Grad_perp, other instance in user_docs/python_boutcore, use :noindex: for one of them docstring of boutcore.Laplace:1: WARNING: duplicate object description of boutcore.Laplace, other instance in user_docs/python_boutcore, use :noindex: for one of them docstring of boutcore.Laplace:2: WARNING: Block quote ends without a blank line; unexpected unindent. docstring of boutcore.Laplace:5: WARNING: Unexpected section title. Parameters ---------- docstring of boutcore.Laplace:10: WARNING: Unexpected section title. Returns ------- docstring of boutcore.Laplacian:1: WARNING: duplicate object description of boutcore.Laplacian, other instance in user_docs/python_boutcore, use :noindex: for one of them docstring of boutcore.Laplacian.setCoefA:1: WARNING: duplicate object description of boutcore.Laplacian.setCoefA, other instance in user_docs/python_boutcore, use :noindex: for one of them docstring of boutcore.Laplacian.setCoefC:1: WARNING: duplicate object description of boutcore.Laplacian.setCoefC, other instance in user_docs/python_boutcore, use :noindex: for one of them docstring of boutcore.Laplacian.setCoefC1:1: WARNING: duplicate object description of boutcore.Laplacian.setCoefC1, other instance in user_docs/python_boutcore, use :noindex: for one of them docstring of boutcore.Laplacian.setCoefC2:1: WARNING: duplicate object description of boutcore.Laplacian.setCoefC2, other instance in user_docs/python_boutcore, use :noindex: for one of them docstring of boutcore.Laplacian.setCoefD:1: WARNING: duplicate object description of boutcore.Laplacian.setCoefD, other instance in user_docs/python_boutcore, use :noindex: for one of them docstring of boutcore.Laplacian.setCoefEx:1: WARNING: duplicate object description of boutcore.Laplacian.setCoefEx, other instance in user_docs/python_boutcore, use :noindex: for one of them docstring of boutcore.Laplacian.setCoefEz:1: WARNING: duplicate object description of boutcore.Laplacian.setCoefEz, other instance in user_docs/python_boutcore, use :noindex: for one of them docstring of boutcore.Laplacian.setCoefs:1: WARNING: duplicate object description of boutcore.Laplacian.setCoefs, other instance in user_docs/python_boutcore, use :noindex: for one of them docstring of boutcore.Laplacian.solve:1: WARNING: duplicate object description of boutcore.Laplacian.solve, other instance in user_docs/python_boutcore, use :noindex: for one of them docstring of boutcore.Mesh:1: WARNING: duplicate object description of boutcore.Mesh, other instance in user_docs/python_boutcore, use :noindex: for one of them docstring of boutcore.Mesh.__init__:4: WARNING: Unexpected section title. Parameter --------- docstring of boutcore.Mesh.communicate:1: WARNING: duplicate object description of boutcore.Mesh.communicate, other instance in user_docs/python_boutcore, use :noindex: for one of them docstring of boutcore.Mesh.coordinates:1: WARNING: duplicate object description of boutcore.Mesh.coordinates, other instance in user_docs/python_boutcore, use :noindex: for one of them docstring of boutcore.Mesh.getGlobal:1: WARNING: duplicate object description of boutcore.Mesh.getGlobal, other instance in user_docs/python_boutcore, use :noindex: for one of them docstring of boutcore.Mesh.normalise:1: WARNING: duplicate object description of boutcore.Mesh.normalise, other instance in user_docs/python_boutcore, use :noindex: for one of them docstring of boutcore.Options:1: WARNING: duplicate object description of boutcore.Options, other instance in user_docs/python_boutcore, use :noindex: for one of them docstring of boutcore.Options.fromFile:1: WARNING: duplicate object description of boutcore.Options.fromFile, other instance in user_docs/python_boutcore, use :noindex: for one of them docstring of boutcore.Options.get:1: WARNING: duplicate object description of boutcore.Options.get, other instance in user_docs/python_boutcore, use :noindex: for one of them docstring of boutcore.Options.set:1: WARNING: duplicate object description of boutcore.Options.set, other instance in user_docs/python_boutcore, use :noindex: for one of them docstring of boutcore.PhysicsModel:1: WARNING: duplicate object description of boutcore.PhysicsModel, other instance in user_docs/python_boutcore, use :noindex: for one of them docstring of boutcore.PhysicsModel.init:1: WARNING: duplicate object description of boutcore.PhysicsModel.init, other instance in user_docs/python_boutcore, use :noindex: for one of them docstring of boutcore.PhysicsModel.solve:1: WARNING: duplicate object description of boutcore.PhysicsModel.solve, other instance in user_docs/python_boutcore, use :noindex: for one of them docstring of boutcore.PhysicsModel.solve_for:1: WARNING: duplicate object description of boutcore.PhysicsModel.solve_for, other instance in user_docs/python_boutcore, use :noindex: for one of them docstring of boutcore.PhysicsModelBase:1: WARNING: duplicate object description of boutcore.PhysicsModelBase, other instance in user_docs/python_boutcore, use :noindex: for one of them docstring of boutcore.PhysicsModelBase.setInit:1: WARNING: duplicate object description of boutcore.PhysicsModelBase.setInit, other instance in user_docs/python_boutcore, use :noindex: for one of them docstring of boutcore.PhysicsModelBase.setRhs:1: WARNING: duplicate object description of boutcore.PhysicsModelBase.setRhs, other instance in user_docs/python_boutcore, use :noindex: for one of them docstring of boutcore.PythonModelCallback:1: WARNING: duplicate object description of boutcore.PythonModelCallback, other instance in user_docs/python_boutcore, use :noindex: for one of them docstring of boutcore.VDDX:1: WARNING: duplicate object description of boutcore.VDDX, other instance in user_docs/python_boutcore, use :noindex: for one of them docstring of boutcore.VDDY:1: WARNING: duplicate object description of boutcore.VDDY, other instance in user_docs/python_boutcore, use :noindex: for one of them looking for now-outdated files... docstring of boutcore.VDDZ:1: WARNING: duplicate object description of boutcore.VDDZ, other instance in user_docs/python_boutcore, use :noindex: for one of them docstring of boutcore.Vector2D:1: WARNING: duplicate object description of boutcore.Vector2D, other instance in user_docs/python_boutcore, use :noindex: for one of them docstring of boutcore.Vector2D.x:1: WARNING: duplicate object description of boutcore.Vector2D.x, other instance in user_docs/python_boutcore, use :noindex: for one of them docstring of boutcore.Vector2D.y:1: WARNING: duplicate object description of boutcore.Vector2D.y, other instance in user_docs/python_boutcore, use :noindex: for one of them docstring of boutcore.Vector2D.z:1: WARNING: duplicate object description of boutcore.Vector2D.z, other instance in user_docs/python_boutcore, use :noindex: for one of them docstring of boutcore.Vector3D:1: WARNING: duplicate object description of boutcore.Vector3D, other instance in user_docs/python_boutcore, use :noindex: for one of them docstring of boutcore.Vector3D.x:1: WARNING: duplicate object description of boutcore.Vector3D.x, other instance in user_docs/python_boutcore, use :noindex: for one of them docstring of boutcore.Vector3D.y:1: WARNING: duplicate object description of boutcore.Vector3D.y, other instance in user_docs/python_boutcore, use :noindex: for one of them docstring of boutcore.Vector3D.z:1: WARNING: duplicate object description of boutcore.Vector3D.z, other instance in user_docs/python_boutcore, use :noindex: for one of them docstring of boutcore.Vpar_Grad_par:1: WARNING: duplicate object description of boutcore.Vpar_Grad_par, other instance in user_docs/python_boutcore, use :noindex: for one of them docstring of boutcore.abs:1: WARNING: duplicate object description of boutcore.abs, other instance in user_docs/python_boutcore, use :noindex: for one of them docstring of boutcore.bracket:1: WARNING: duplicate object description of boutcore.bracket, other instance in user_docs/python_boutcore, use :noindex: for one of them docstring of boutcore.checkInit:1: WARNING: duplicate object description of boutcore.checkInit, other instance in user_docs/python_boutcore, use :noindex: for one of them docstring of boutcore.cos:1: WARNING: duplicate object description of boutcore.cos, other instance in user_docs/python_boutcore, use :noindex: for one of them docstring of boutcore.create3D:1: WARNING: duplicate object description of boutcore.create3D, other instance in user_docs/python_boutcore, use :noindex: for one of them docstring of boutcore.create3D:3: WARNING: Unexpected indentation. docstring of boutcore.exp:1: WARNING: duplicate object description of boutcore.exp, other instance in user_docs/python_boutcore, use :noindex: for one of them docstring of boutcore.finalise:1: WARNING: duplicate object description of boutcore.finalise, other instance in user_docs/python_boutcore, use :noindex: for one of them docstring of boutcore.init:1: WARNING: duplicate object description of boutcore.init, other instance in user_docs/python_boutcore, use :noindex: for one of them docstring of boutcore.interp_to:1: WARNING: duplicate object description of boutcore.interp_to, other instance in user_docs/python_boutcore, use :noindex: for one of them docstring of boutcore.log:1: WARNING: duplicate object description of boutcore.log, other instance in user_docs/python_boutcore, use :noindex: for one of them docstring of boutcore.max:1: WARNING: duplicate object description of boutcore.max, other instance in user_docs/python_boutcore, use :noindex: for one of them docstring of boutcore.min:1: WARNING: duplicate object description of boutcore.min, other instance in user_docs/python_boutcore, use :noindex: for one of them docstring of boutcore.pow:1: WARNING: duplicate object description of boutcore.pow, other instance in user_docs/python_boutcore, use :noindex: for one of them docstring of boutcore.setOption:1: WARNING: duplicate object description of boutcore.setOption, other instance in user_docs/python_boutcore, use :noindex: for one of them docstring of boutcore.sin:1: WARNING: duplicate object description of boutcore.sin, other instance in user_docs/python_boutcore, use :noindex: for one of them docstring of boutcore.sqrt:1: WARNING: duplicate object description of boutcore.sqrt, other instance in user_docs/python_boutcore, use :noindex: for one of them none found pickling environment... done checking consistency... /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/manual/sphinx/user_docs/invertable_operator.rst: WARNING: document isn't included in any toctree done preparing documents... done writing output... [ 2%] _apidoc/boutdata writing output... [ 5%] _apidoc/boututils writing output... [ 7%] _apidoc/zoidberg writing output... [ 10%] api_reference writing output... [ 12%] developer_docs/code_layout writing output... [ 15%] developer_docs/contributing writing output... [ 17%] developer_docs/data_types writing output... [ 20%] developer_docs/file_io writing output... [ 22%] developer_docs/git_basics writing output... [ 25%] developer_docs/mesh writing output... [ 27%] developer_docs/natural_language writing output... [ 30%] developer_docs/performance_profiling writing output... [ 32%] index writing output... [ 35%] user_docs/BOUT_Gradperp_op writing output... [ 37%] user_docs/advanced_install writing output... [ 40%] user_docs/algebraic_operators writing output... [ 42%] user_docs/boundary_options writing output... [ 45%] user_docs/bout_functions_for_physics writing output... [ 47%] user_docs/bout_options writing output... [ 50%] user_docs/coordinates writing output... [ 52%] user_docs/differential_operators writing output... [ 55%] user_docs/eigenvalue_solver writing output... [ 57%] user_docs/input_grids writing output... [ 60%] user_docs/installing writing output... [ 62%] user_docs/introduction writing output... [ 65%] user_docs/invertable_operator writing output... [ 67%] user_docs/laplacian writing output... [ 70%] user_docs/makefiles writing output... [ 72%] user_docs/nonlocal writing output... [ 75%] user_docs/output_and_post writing output... [ 77%] user_docs/parallel-transforms writing output... [ 80%] user_docs/physics_models writing output... [ 82%] user_docs/preconditioning writing output... [ 85%] user_docs/python writing output... [ 87%] user_docs/python_boutcore writing output... [ 90%] user_docs/running_bout writing output... [ 92%] user_docs/staggered_grids writing output... [ 95%] user_docs/testing writing output... [ 97%] user_docs/time_integration writing output... [100%] user_docs/variable_init /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/tools/pylib/boutdata/restart.py:docstring of boutdata.restart.normal:14: WARNING: Unparseable C++ cross-reference: 'random-quick-start' Error in cross-reference. If shorthand ref: Invalid C++ declaration: Expected end of definition. [error at 6] random-quick-start ------^ If full function ref: Error when parsing function declaration. If the function has no return type: Error in declarator or parameters-and-qualifiers Invalid C++ declaration: Expecting "(" in parameters-and-qualifiers. [error at 6] random-quick-start ------^ If the function has a return type: Error in declarator or parameters-and-qualifiers If pointer to member declarator: Invalid C++ declaration: Expected identifier in nested name. [error at 6] random-quick-start ------^ If declarator-id: Invalid C++ declaration: Expected identifier in nested name. [error at 6] random-quick-start ------^ /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/manual/sphinx/developer_docs/code_layout.rst:81: WARNING: unknown document: ../_breathe_autogen/file/bout_09_09_8cxx /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/manual/sphinx/developer_docs/code_layout.rst:87: WARNING: unknown document: ../_breathe_autogen/file/field2d_8cxx /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/manual/sphinx/developer_docs/code_layout.rst:93: WARNING: unknown document: ../_breathe_autogen/file/field3d_8cxx /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/manual/sphinx/developer_docs/code_layout.rst:100: WARNING: unknown document: ../_breathe_autogen/file/field__data_8cxx /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/manual/sphinx/developer_docs/code_layout.rst:105: WARNING: unknown document: ../_breathe_autogen/file/fieldperp_8cxx /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/manual/sphinx/developer_docs/code_layout.rst:112: WARNING: unknown document: ../_breathe_autogen/file/initialprofiles_8cxx /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/manual/sphinx/developer_docs/code_layout.rst:117: WARNING: unknown document: ../_breathe_autogen/file/vecops_8cxx /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/manual/sphinx/developer_docs/code_layout.rst:117: WARNING: unknown document: ../_breathe_autogen/file/difops_8cxx /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/manual/sphinx/developer_docs/code_layout.rst:124: WARNING: unknown document: ../_breathe_autogen/file/vector2d_8cxx /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/manual/sphinx/developer_docs/code_layout.rst:129: WARNING: unknown document: ../_breathe_autogen/file/vector3d_8cxx /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/manual/sphinx/developer_docs/code_layout.rst:133: WARNING: unknown document: ../_breathe_autogen/file/where_8cxx /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/manual/sphinx/developer_docs/code_layout.rst:139: WARNING: unknown document: ../_breathe_autogen/file/datafile_8cxx /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/manual/sphinx/developer_docs/code_layout.rst:145: WARNING: unknown document: ../_breathe_autogen/file/formatfactory_8cxx /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/manual/sphinx/developer_docs/code_layout.rst:147: WARNING: unknown document: ../_breathe_autogen/file/formatfactory_8hxx /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/manual/sphinx/developer_docs/code_layout.rst:151: WARNING: unknown document: ../_breathe_autogen/file/emptyformat_8hxx /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/manual/sphinx/developer_docs/code_layout.rst:155: WARNING: unknown document: ../_breathe_autogen/file/h5__format_8cxx /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/manual/sphinx/developer_docs/code_layout.rst:158: WARNING: unknown document: ../_breathe_autogen/file/h5__format_8hxx /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/manual/sphinx/developer_docs/code_layout.rst:162: WARNING: unknown document: 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../_breathe_autogen/file/gyro__average_8cxx /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/manual/sphinx/developer_docs/code_layout.rst:296: WARNING: unknown document: ../_breathe_autogen/file/smoothing_8cxx /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/manual/sphinx/developer_docs/code_layout.rst:299: WARNING: unknown document: ../_breathe_autogen/file/sourcex_8cxx /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/manual/sphinx/developer_docs/code_layout.rst:305: WARNING: unknown document: ../_breathe_autogen/file/solver_8cxx /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/manual/sphinx/developer_docs/code_layout.rst:308: WARNING: unknown document: ../_breathe_autogen/file/solverfactory_8cxx /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/manual/sphinx/developer_docs/code_layout.rst:311: WARNING: unknown document: ../_breathe_autogen/file/solverfactory_8hxx /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/manual/sphinx/developer_docs/code_layout.rst:317: WARNING: unknown document: ../_breathe_autogen/file/cvode_8cxx /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/manual/sphinx/developer_docs/code_layout.rst:321: WARNING: unknown document: ../_breathe_autogen/file/cvode_8hxx /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/manual/sphinx/developer_docs/code_layout.rst:325: WARNING: unknown document: ../_breathe_autogen/file/ida_8cxx /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/manual/sphinx/developer_docs/code_layout.rst:329: WARNING: unknown document: ../_breathe_autogen/file/ida_8hxx /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/manual/sphinx/developer_docs/code_layout.rst:333: WARNING: unknown document: ../_breathe_autogen/file/petsc_8cxx /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/manual/sphinx/developer_docs/code_layout.rst:336: WARNING: unknown document: ../_breathe_autogen/file/petsc_8hxx /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/manual/sphinx/developer_docs/code_layout.rst:340: WARNING: unknown document: ../_breathe_autogen/file/pvode_8cxx /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/manual/sphinx/developer_docs/code_layout.rst:344: WARNING: unknown document: ../_breathe_autogen/file/pvode_8hxx /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/manual/sphinx/developer_docs/code_layout.rst:348: WARNING: unknown document: ../_breathe_autogen/file/boutcomm_8cxx /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/manual/sphinx/developer_docs/code_layout.rst:350: WARNING: unknown document: ../_breathe_autogen/file/boutexception_8cxx /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/manual/sphinx/developer_docs/code_layout.rst:353: WARNING: unknown document: ../_breathe_autogen/file/derivs_8cxx generating indices... /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/manual/sphinx/developer_docs/code_layout.rst:353: WARNING: unknown document: ../_breathe_autogen/file/difops_8cxx /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/manual/sphinx/developer_docs/code_layout.rst:353: WARNING: undefined label: sec-derivatives (if the link has no caption the label must precede a section header) /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/manual/sphinx/developer_docs/code_layout.rst:359: WARNING: unknown document: ../_breathe_autogen/file/msg__stack_8cxx /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/manual/sphinx/developer_docs/code_layout.rst:366: WARNING: unknown document: ../_breathe_autogen/file/options_8cxx /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/manual/sphinx/developer_docs/code_layout.rst:370: WARNING: unknown document: ../_breathe_autogen/file/optionsreader_8cxx /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/manual/sphinx/developer_docs/code_layout.rst:372: WARNING: unknown document: ../_breathe_autogen/file/output_8cxx /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/manual/sphinx/developer_docs/code_layout.rst:374: WARNING: unknown document: ../_breathe_autogen/file/range_8cxx /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/manual/sphinx/developer_docs/code_layout.rst:378: WARNING: unknown document: ../_breathe_autogen/file/stencils_8cxx /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/manual/sphinx/developer_docs/code_layout.rst:382: WARNING: unknown document: ../_breathe_autogen/file/timer_8cxx /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/manual/sphinx/developer_docs/code_layout.rst:386: WARNING: unknown document: ../_breathe_autogen/file/utils_8cxx /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/manual/sphinx/developer_docs/code_layout.rst:392: WARNING: unknown document: ../_breathe_autogen/file/optionparser_8hxx /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/manual/sphinx/developer_docs/code_layout.rst:394: WARNING: unknown document: ../_breathe_autogen/file/options__ini_8cxx /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/manual/sphinx/developer_docs/code_layout.rst:396: WARNING: unknown document: ../_breathe_autogen/file/options__ini_8hxx /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/manual/sphinx/developer_docs/data_types.rst:385: WARNING: Unparseable C++ cross-reference: 'mesh:maxregionblocksize' Error in cross-reference. If shorthand ref: Invalid C++ declaration: Expected end of definition. [error at 4] mesh:maxregionblocksize ----^ If full function ref: Error when parsing function declaration. If the function has no return type: Error in declarator or parameters-and-qualifiers Invalid C++ declaration: Expecting "(" in parameters-and-qualifiers. [error at 4] mesh:maxregionblocksize ----^ If the function has a return type: Error in declarator or parameters-and-qualifiers If pointer to member declarator: Invalid C++ declaration: Expected identifier in nested name. [error at 4] mesh:maxregionblocksize ----^ If declarator-id: Invalid C++ declaration: Expected identifier in nested name. [error at 4] mesh:maxregionblocksize ----^ /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/manual/sphinx/developer_docs/data_types.rst:385: WARNING: Unparseable C++ cross-reference: 'BOUT.inp' Error in cross-reference. If shorthand ref: Invalid C++ declaration: Expected end of definition. [error at 4] BOUT.inp ----^ If full function ref: Error when parsing function declaration. If the function has no return type: Error in declarator or parameters-and-qualifiers Invalid C++ declaration: Expecting "(" in parameters-and-qualifiers. [error at 4] BOUT.inp ----^ If the function has a return type: Error in declarator or parameters-and-qualifiers If pointer to member declarator: Invalid C++ declaration: Expected identifier in nested name. [error at 4] BOUT.inp ----^ If declarator-id: Invalid C++ declaration: Expected identifier in nested name. [error at 4] BOUT.inp ----^ /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/manual/sphinx/developer_docs/file_io.rst:4: WARNING: unknown document: ../_breathe_autogen/file/griddata_8hxx /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/manual/sphinx/developer_docs/file_io.rst:4: WARNING: unknown document: ../_breathe_autogen/file/datafile_8hxx /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/manual/sphinx/developer_docs/file_io.rst:4: WARNING: unknown document: ../_breathe_autogen/file/datafile_8cxx /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/manual/sphinx/developer_docs/file_io.rst:13: WARNING: unknown document: ../_breathe_autogen/file/dataformat_8hxx /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/manual/sphinx/developer_docs/file_io.rst:268: WARNING: Unparseable C++ cross-reference: 'restart.redistribute' Error in cross-reference. If shorthand ref: Invalid C++ declaration: Expected end of definition. [error at 7] restart.redistribute -------^ If full function ref: Error when parsing function declaration. If the function has no return type: Error in declarator or parameters-and-qualifiers Invalid C++ declaration: Expecting "(" in parameters-and-qualifiers. [error at 7] restart.redistribute -------^ If the function has a return type: Error in declarator or parameters-and-qualifiers If pointer to member declarator: Invalid C++ declaration: Expected identifier in nested name. [error at 7] restart.redistribute -------^ If declarator-id: Invalid C++ declaration: Expected identifier in nested name. [error at 7] restart.redistribute -------^ /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/manual/sphinx/developer_docs/mesh.rst:31: WARNING: unknown document: ../_breathe_autogen/file/bout_09_09_8cxx /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/manual/sphinx/user_docs/algebraic_operators.rst:8: WARNING: unknown document: ../_breathe_autogen/file/field2d_8hxx /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/manual/sphinx/user_docs/algebraic_operators.rst:8: WARNING: unknown document: ../_breathe_autogen/file/field3d_8hxx /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/manual/sphinx/user_docs/algebraic_operators.rst:8: WARNING: unknown document: ../_breathe_autogen/file/fieldperp_8hxx /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/manual/sphinx/user_docs/differential_operators.rst:182: WARNING: Unparseable C++ cross-reference: 'return\n0.5*(f.p - f.m);' Error in cross-reference. If shorthand ref: Invalid C++ declaration: Expected identifier in nested name, got keyword: return [error at 6] return 0.5*(f.p - f.m); ------^ If full function ref: Error when parsing function declaration. If the function has no return type: Error in declarator or parameters-and-qualifiers Invalid C++ declaration: Expected identifier in nested name, got keyword: return [error at 6] return 0.5*(f.p - f.m); ------^ If the function has a return type: Invalid C++ declaration: Expected identifier in nested name, got keyword: return [error at 6] return 0.5*(f.p - f.m); ------^ /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/manual/sphinx/user_docs/differential_operators.rst:192: WARNING: Unparseable C++ cross-reference: '"C2"' Error in cross-reference. If shorthand ref: Invalid C++ declaration: Expected identifier in nested name. [error at 0] "C2" ^ If full function ref: Error when parsing function declaration. If the function has no return type: Error in declarator or parameters-and-qualifiers Invalid C++ declaration: Expected identifier in nested name. [error at 0] "C2" ^ If the function has a return type: Invalid C++ declaration: Expected identifier in nested name. [error at 0] "C2" ^ /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/manual/sphinx/user_docs/differential_operators.rst:196: WARNING: Unparseable C++ cross-reference: '1' Error in cross-reference. If shorthand ref: Invalid C++ declaration: Expected identifier in nested name. [error at 0] 1 ^ If full function ref: Error when parsing function declaration. If the function has no return type: Error in declarator or parameters-and-qualifiers Invalid C++ declaration: Expected identifier in nested name. [error at 0] 1 ^ If the function has a return type: Invalid C++ declaration: Expected identifier in nested name. [error at 0] 1 ^ /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/manual/sphinx/user_docs/differential_operators.rst:221: WARNING: Unparseable C++ cross-reference: 'REGISTER_DERIVATIVE(DDX_C2)()' Error in cross-reference. If shorthand ref: Invalid C++ declaration: Expected end of definition. [error at 19] REGISTER_DERIVATIVE(DDX_C2)() -------------------^ If full function ref: Error when parsing function declaration. If the function has no return type: Invalid C++ declaration: Expected end of definition or ;. [error at 27] REGISTER_DERIVATIVE(DDX_C2)() ---------------------------^ If the function has a return type: Error in declarator If declarator-id with parameters-and-qualifiers: Invalid C++ declaration: Expected identifier in nested name. [error at 19] REGISTER_DERIVATIVE(DDX_C2)() -------------------^ If parenthesis in noptr-declarator: Error in declarator or parameters-and-qualifiers If pointer to member declarator: Invalid C++ declaration: Expected '::' in pointer to member (function). [error at 26] REGISTER_DERIVATIVE(DDX_C2)() --------------------------^ If declarator-id: Invalid C++ declaration: Expecting "(" in parameters-and-qualifiers. [error at 26] REGISTER_DERIVATIVE(DDX_C2)() --------------------------^ /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/manual/sphinx/user_docs/differential_operators.rst:238: WARNING: Unparseable C++ cross-reference: '"C2"' Error in cross-reference. If shorthand ref: Invalid C++ declaration: Expected identifier in nested name. [error at 0] "C2" ^ If full function ref: Error when parsing function declaration. If the function has no return type: Error in declarator or parameters-and-qualifiers Invalid C++ declaration: Expected identifier in nested name. [error at 0] "C2" ^ If the function has a return type: Invalid C++ declaration: Expected identifier in nested name. [error at 0] "C2" ^ /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/manual/sphinx/user_docs/differential_operators.rst:278: WARNING: Could not lex literal_block as "cpp". Highlighting skipped. /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/manual/sphinx/user_docs/installing.rst:190: WARNING: Unparseable C++ cross-reference: 'export LC_CTYPE=C.utf8' Error in cross-reference. If shorthand ref: Invalid C++ declaration: Expected identifier in nested name, got keyword: export [error at 6] export LC_CTYPE=C.utf8 ------^ If full function ref: Error when parsing function declaration. If the function has no return type: Error in declarator or parameters-and-qualifiers Invalid C++ declaration: Expected identifier in nested name, got keyword: export [error at 6] export LC_CTYPE=C.utf8 ------^ If the function has a return type: Invalid C++ declaration: Expected identifier in nested name, got keyword: export [error at 6] export LC_CTYPE=C.utf8 ------^ /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/manual/sphinx/user_docs/installing.rst:358: WARNING: undefined label: sec-install-bout (if the link has no caption the label must precede a section header) /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/manual/sphinx/user_docs/invertable_operator.rst:30: WARNING: Unparseable C++ cross-reference: 'examples/invertable_operator' Error in cross-reference. If shorthand ref: Invalid C++ declaration: Expected end of definition. [error at 8] examples/invertable_operator --------^ If full function ref: Error when parsing function declaration. If the function has no return type: Error in declarator or parameters-and-qualifiers Invalid C++ declaration: Expecting "(" in parameters-and-qualifiers. [error at 8] examples/invertable_operator --------^ If the function has a return type: Error in declarator or parameters-and-qualifiers If pointer to member declarator: Invalid C++ declaration: Expected identifier in nested name. [error at 8] examples/invertable_operator --------^ If declarator-id: Invalid C++ declaration: Expected identifier in nested name. [error at 8] examples/invertable_operator --------^ /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/manual/sphinx/user_docs/invertable_operator.rst:98: WARNING: Unparseable C++ cross-reference: '-invertable' Error in cross-reference. If shorthand ref: Invalid C++ declaration: Expected identifier in nested name. [error at 0] -invertable ^ If full function ref: Error when parsing function declaration. If the function has no return type: Error in declarator or parameters-and-qualifiers Invalid C++ declaration: Expected identifier in nested name. [error at 0] -invertable ^ If the function has a return type: Invalid C++ declaration: Expected identifier in nested name. [error at 0] -invertable ^ /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/manual/sphinx/user_docs/invertable_operator.rst:98: WARNING: Unparseable C++ cross-reference: '-ksp_type' Error in cross-reference. If shorthand ref: Invalid C++ declaration: Expected identifier in nested name. [error at 0] -ksp_type ^ If full function ref: Error when parsing function declaration. If the function has no return type: Error in declarator or parameters-and-qualifiers Invalid C++ declaration: Expected identifier in nested name. [error at 0] -ksp_type ^ If the function has a return type: Invalid C++ declaration: Expected identifier in nested name. [error at 0] -ksp_type ^ /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/manual/sphinx/user_docs/invertable_operator.rst:98: WARNING: Unparseable C++ cross-reference: '-invertable_ksp_type' Error in cross-reference. If shorthand ref: Invalid C++ declaration: Expected identifier in nested name. [error at 0] -invertable_ksp_type ^ If full function ref: Error when parsing function declaration. If the function has no return type: Error in declarator or parameters-and-qualifiers Invalid C++ declaration: Expected identifier in nested name. [error at 0] -invertable_ksp_type ^ If the function has a return type: Invalid C++ declaration: Expected identifier in nested name. [error at 0] -invertable_ksp_type ^ /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/manual/sphinx/user_docs/laplacian.rst:186: WARNING: unknown document: ../_breathe_autogen/file/invert__laplace_8cxx /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/manual/sphinx/user_docs/nonlocal.rst:117: WARNING: undefined label: tab-snb-options /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/manual/sphinx/user_docs/output_and_post.rst:587: WARNING: Could not lex literal_block as "mathematica". Highlighting skipped. docstring of boutcore.Options.get:3: WARNING: Unparseable C++ cross-reference: 'mesh:ddx:first' Error in cross-reference. If shorthand ref: Invalid C++ declaration: Expected end of definition. [error at 4] mesh:ddx:first ----^ If full function ref: Error when parsing function declaration. If the function has no return type: Error in declarator or parameters-and-qualifiers Invalid C++ declaration: Expecting "(" in parameters-and-qualifiers. [error at 4] mesh:ddx:first ----^ If the function has a return type: Error in declarator or parameters-and-qualifiers If pointer to member declarator: Invalid C++ declaration: Expected identifier in nested name. [error at 4] mesh:ddx:first ----^ If declarator-id: Invalid C++ declaration: Expected identifier in nested name. [error at 4] mesh:ddx:first ----^ docstring of boutcore.Options.set:3: WARNING: Unparseable C++ cross-reference: 'mesh:ddx:first' Error in cross-reference. If shorthand ref: Invalid C++ declaration: Expected end of definition. [error at 4] mesh:ddx:first ----^ If full function ref: Error when parsing function declaration. If the function has no return type: Error in declarator or parameters-and-qualifiers Invalid C++ declaration: Expecting "(" in parameters-and-qualifiers. [error at 4] mesh:ddx:first ----^ If the function has a return type: Error in declarator or parameters-and-qualifiers If pointer to member declarator: Invalid C++ declaration: Expected identifier in nested name. [error at 4] mesh:ddx:first ----^ If declarator-id: Invalid C++ declaration: Expected identifier in nested name. [error at 4] mesh:ddx:first ----^ docstring of boutcore.setOption:1: WARNING: Unparseable C++ cross-reference: 'Options.set' Error in cross-reference. If shorthand ref: Invalid C++ declaration: Expected end of definition. [error at 7] Options.set -------^ If full function ref: Error when parsing function declaration. If the function has no return type: Error in declarator or parameters-and-qualifiers Invalid C++ declaration: Expecting "(" in parameters-and-qualifiers. [error at 7] Options.set -------^ If the function has a return type: Error in declarator or parameters-and-qualifiers If pointer to member declarator: Invalid C++ declaration: Expected identifier in nested name. [error at 7] Options.set -------^ If declarator-id: Invalid C++ declaration: Expected identifier in nested name. [error at 7] Options.set -------^ docstring of boutcore.setOption:5: WARNING: Unparseable C++ cross-reference: 'mesh:ddx:first' Error in cross-reference. If shorthand ref: Invalid C++ declaration: Expected end of definition. [error at 4] mesh:ddx:first ----^ If full function ref: Error when parsing function declaration. If the function has no return type: Error in declarator or parameters-and-qualifiers Invalid C++ declaration: Expecting "(" in parameters-and-qualifiers. [error at 4] mesh:ddx:first ----^ If the function has a return type: Error in declarator or parameters-and-qualifiers If pointer to member declarator: Invalid C++ declaration: Expected identifier in nested name. [error at 4] mesh:ddx:first ----^ If declarator-id: Invalid C++ declaration: Expected identifier in nested name. [error at 4] mesh:ddx:first ----^ docstring of boutcore.Options.get:3: WARNING: Unparseable C++ cross-reference: 'mesh:ddx:first' Error in cross-reference. If shorthand ref: Invalid C++ declaration: Expected end of definition. [error at 4] mesh:ddx:first ----^ If full function ref: Error when parsing function declaration. If the function has no return type: Error in declarator or parameters-and-qualifiers Invalid C++ declaration: Expecting "(" in parameters-and-qualifiers. [error at 4] mesh:ddx:first ----^ If the function has a return type: Error in declarator or parameters-and-qualifiers If pointer to member declarator: Invalid C++ declaration: Expected identifier in nested name. [error at 4] mesh:ddx:first ----^ If declarator-id: Invalid C++ declaration: Expected identifier in nested name. [error at 4] mesh:ddx:first ----^ docstring of boutcore.Options.set:3: WARNING: Unparseable C++ cross-reference: 'mesh:ddx:first' Error in cross-reference. If shorthand ref: Invalid C++ declaration: Expected end of definition. [error at 4] mesh:ddx:first ----^ If full function ref: Error when parsing function declaration. If the function has no return type: Error in declarator or parameters-and-qualifiers Invalid C++ declaration: Expecting "(" in parameters-and-qualifiers. [error at 4] mesh:ddx:first ----^ If the function has a return type: Error in declarator or parameters-and-qualifiers If pointer to member declarator: Invalid C++ declaration: Expected identifier in nested name. [error at 4] mesh:ddx:first ----^ If declarator-id: Invalid C++ declaration: Expected identifier in nested name. [error at 4] mesh:ddx:first ----^ docstring of boutcore.setOption:1: WARNING: Unparseable C++ cross-reference: 'Options.set' Error in cross-reference. If shorthand ref: Invalid C++ declaration: Expected end of definition. [error at 7] Options.set -------^ If full function ref: Error when parsing function declaration. If the function has no return type: Error in declarator or parameters-and-qualifiers Invalid C++ declaration: Expecting "(" in parameters-and-qualifiers. [error at 7] Options.set -------^ If the function has a return type: Error in declarator or parameters-and-qualifiers If pointer to member declarator: Invalid C++ declaration: Expected identifier in nested name. [error at 7] Options.set -------^ If declarator-id: Invalid C++ declaration: Expected identifier in nested name. [error at 7] Options.set -------^ docstring of boutcore.setOption:5: WARNING: Unparseable C++ cross-reference: 'mesh:ddx:first' Error in cross-reference. If shorthand ref: Invalid C++ declaration: Expected end of definition. [error at 4] mesh:ddx:first ----^ If full function ref: Error when parsing function declaration. If the function has no return type: Error in declarator or parameters-and-qualifiers Invalid C++ declaration: Expecting "(" in parameters-and-qualifiers. [error at 4] mesh:ddx:first ----^ If the function has a return type: Error in declarator or parameters-and-qualifiers If pointer to member declarator: Invalid C++ declaration: Expected identifier in nested name. [error at 4] mesh:ddx:first ----^ If declarator-id: Invalid C++ declaration: Expected identifier in nested name. [error at 4] mesh:ddx:first ----^ /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/manual/sphinx/user_docs/time_integration.rst:916: WARNING: unknown document: ../_breathe_autogen/file/bout_09_09_8cxx genindex py-modindexdone writing additional pages... searchdone copying images... [ 4%] figs/layout1.png copying images... [ 8%] figs/layout2.png copying images... [ 13%] figs/memory.png copying images... [ 17%] user_docs/../figs/fluid_norm_mc.png copying images... [ 21%] figs/diffStencils.png copying images... [ 26%] figs/topology_cross_section.png copying images... [ 30%] figs/topology_schematic.png copying images... [ 34%] figs/boutmesh-comms.png copying images... [ 39%] figs/grid_gen.png copying images... [ 43%] user_docs/../figs/zoidberg/elliptic_grid.png copying images... [ 47%] user_docs/../figs/zoidberg/poincare.png copying images... [ 52%] figs/5PointStencilMesh.png copying images... [ 56%] figs/5PointStencilMeshWithStencil.png copying images... [ 60%] figs/5PointStencilMatrix.png copying images... [ 65%] figs/5PointStencilGlobalIndices.png copying images... [ 69%] figs/par_laplace.png copying images... [ 73%] figs/snb-sinusoidal.png copying images... [ 78%] figs/snb-step.png copying images... [ 82%] figs/interchange_inst_test.png copying images... [ 86%] figs/sod_result.png copying images... [ 91%] figs/folder_tree.png copying images... [ 95%] figs/stagLocations.png copying images... [100%] figs/init_balloon.png copying static files... ... done copying extra files... done dumping search index in English (code: en)... done dumping object inventory... done build succeeded, 293 warnings. The HTML pages are in html. Documentation available in file:///builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/manual/html/index.html make: Leaving directory '/builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/manual' + '[' mpich = mpich ']' + . /etc/profile.d/modules.sh ++ '[' -n /bin/sh ']' ++ shell=sh ++ '[' -f /usr/share/Modules/init/sh ']' ++ . /usr/share/Modules/init/sh +++ unset _mlshdbg +++ '[' 0 = 1 ']' +++ export 'MODULES_RUN_QUARANTINE=LD_LIBRARY_PATH LD_PRELOAD' +++ MODULES_RUN_QUARANTINE='LD_LIBRARY_PATH LD_PRELOAD' +++ unset _mlre _mlIFS +++ '[' -n x ']' +++ _mlIFS=' ' +++ IFS=' ' +++ for _mlv in ${MODULES_RUN_QUARANTINE:-} +++ '[' LD_LIBRARY_PATH = LD_LIBRARY_PATH -a LD_LIBRARY_PATH = LD_LIBRARY_PATH ']' ++++ eval 'echo ${LD_LIBRARY_PATH+x}' +++++ echo x +++ '[' -n x ']' ++++ eval 'echo ${LD_LIBRARY_PATH}' +++++ echo /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/lib +++ _mlre='LD_LIBRARY_PATH_modquar='\''/builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/lib'\'' ' +++ _mlrv=MODULES_RUNENV_LD_LIBRARY_PATH ++++ eval 'echo ${MODULES_RUNENV_LD_LIBRARY_PATH:-}' +++++ echo +++ _mlre='LD_LIBRARY_PATH_modquar='\''/builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/lib'\'' LD_LIBRARY_PATH='\'''\'' ' +++ for _mlv in ${MODULES_RUN_QUARANTINE:-} +++ '[' LD_PRELOAD = LD_PRELOAD -a LD_PRELOAD = LD_PRELOAD ']' ++++ eval 'echo ${LD_PRELOAD+x}' +++++ echo +++ '[' -n '' ']' +++ _mlrv=MODULES_RUNENV_LD_PRELOAD ++++ eval 'echo ${MODULES_RUNENV_LD_PRELOAD:-}' +++++ echo +++ _mlre='LD_LIBRARY_PATH_modquar='\''/builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/lib'\'' LD_LIBRARY_PATH='\'''\'' LD_PRELOAD='\'''\'' ' +++ '[' -n 'LD_LIBRARY_PATH_modquar='\''/builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/lib'\'' LD_LIBRARY_PATH='\'''\'' LD_PRELOAD='\'''\'' ' ']' +++ _mlre='eval LD_LIBRARY_PATH_modquar='\''/builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/lib'\'' LD_LIBRARY_PATH='\'''\'' LD_PRELOAD='\'''\'' ' ++++ eval 'LD_LIBRARY_PATH_modquar='\''/builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/lib'\''' 'LD_LIBRARY_PATH='\'''\''' 'LD_PRELOAD='\'''\''' /usr/bin/tclsh /usr/share/Modules/libexec/modulecmd.tcl sh autoinit +++++ LD_LIBRARY_PATH_modquar=/builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/lib +++++ LD_LIBRARY_PATH= +++++ LD_PRELOAD= +++++ /usr/bin/tclsh /usr/share/Modules/libexec/modulecmd.tcl sh autoinit +++ _mlcode='module() { unset _mlshdbg; if [ "${MODULES_SILENT_SHELL_DEBUG:-0}" = '\''1'\'' ]; then case "$-" in *v*x*) set +vx; _mlshdbg='\''vx'\'' ;; *v*) set +v; _mlshdbg='\''v'\'' ;; *x*) set +x; _mlshdbg='\''x'\'' ;; *) _mlshdbg='\'''\'' ;; esac; fi; unset _mlre _mlIFS; if [ -n "${IFS+x}" ]; then _mlIFS=$IFS; fi; IFS='\'' '\''; for _mlv in ${MODULES_RUN_QUARANTINE:-}; do if [ "${_mlv}" = "${_mlv##*[!A-Za-z0-9_]}" -a "${_mlv}" = "${_mlv#[0-9]}" ]; then if [ -n "`eval '\''echo ${'\''$_mlv'\''+x}'\''`" ]; then _mlre="${_mlre:-}${_mlv}_modquar='\''`eval '\''echo ${'\''$_mlv'\''}'\''`'\'' "; fi; _mlrv="MODULES_RUNENV_${_mlv}"; _mlre="${_mlre:-}${_mlv}='\''`eval '\''echo ${'\''$_mlrv'\'':-}'\''`'\'' "; fi; done; if [ -n "${_mlre:-}" ]; then eval `eval ${_mlre} /usr/bin/tclsh /usr/share/Modules/libexec/modulecmd.tcl sh '\''"$@"'\''`; else eval `/usr/bin/tclsh /usr/share/Modules/libexec/modulecmd.tcl sh "$@"`; fi; _mlstatus=$?; if [ -n "${_mlIFS+x}" ]; then IFS=$_mlIFS; else unset IFS; fi; unset _mlre _mlv _mlrv _mlIFS; if [ -n "${_mlshdbg:-}" ]; then set -$_mlshdbg; fi; unset _mlshdbg; return $_mlstatus; }; ml() { module ml "$@"; }; MODULES_CMD=/usr/share/Modules/libexec/modulecmd.tcl; export MODULES_CMD; MODULESHOME=/usr/share/Modules; export MODULESHOME; test 0;' +++ _mlret=0 +++ '[' -n x ']' +++ IFS=' ' +++ unset _mlIFS +++ unset _mlre _mlv _mlrv +++ '[' 0 -eq 0 ']' +++ eval 'module() { unset _mlshdbg; if [ "${MODULES_SILENT_SHELL_DEBUG:-0}" = '\''1'\'' ]; then case "$-" in *v*x*) set +vx; _mlshdbg='\''vx'\'' ;; *v*) set +v; _mlshdbg='\''v'\'' ;; *x*) set +x; _mlshdbg='\''x'\'' ;; *) _mlshdbg='\'''\'' ;; esac; fi; unset _mlre _mlIFS; if [ -n "${IFS+x}" ]; then _mlIFS=$IFS; fi; IFS='\'' '\''; for _mlv in ${MODULES_RUN_QUARANTINE:-}; do if [ "${_mlv}" = "${_mlv##*[!A-Za-z0-9_]}" -a "${_mlv}" = "${_mlv#[0-9]}" ]; then if [ -n "`eval '\''echo ${'\''$_mlv'\''+x}'\''`" ]; then _mlre="${_mlre:-}${_mlv}_modquar='\''`eval '\''echo ${'\''$_mlv'\''}'\''`'\'' "; fi; _mlrv="MODULES_RUNENV_${_mlv}"; _mlre="${_mlre:-}${_mlv}='\''`eval '\''echo ${'\''$_mlrv'\'':-}'\''`'\'' "; fi; done; if [ -n "${_mlre:-}" ]; then eval `eval ${_mlre} /usr/bin/tclsh /usr/share/Modules/libexec/modulecmd.tcl sh '\''"$@"'\''`; else eval `/usr/bin/tclsh /usr/share/Modules/libexec/modulecmd.tcl sh "$@"`; fi; _mlstatus=$?; if [ -n "${_mlIFS+x}" ]; then IFS=$_mlIFS; else unset IFS; fi; unset _mlre _mlv _mlrv _mlIFS; if [ -n "${_mlshdbg:-}" ]; then set -$_mlshdbg; fi; unset _mlshdbg; return $_mlstatus; }; ml() { module ml "$@"; }; MODULES_CMD=/usr/share/Modules/libexec/modulecmd.tcl; export MODULES_CMD; MODULESHOME=/usr/share/Modules; export MODULESHOME; test 0;' ++++ MODULES_CMD=/usr/share/Modules/libexec/modulecmd.tcl ++++ export MODULES_CMD ++++ MODULESHOME=/usr/share/Modules ++++ export MODULESHOME ++++ test 0 +++ '[' 0 = 1 ']' +++ '[' /bin/sh '!=' '' ']' +++ '[' -t 2 ']' +++ export -f module ++++ type -t ml +++ '[' function = function ']' +++ export -f ml +++ '[' /bin/sh '!=' '' ']' +++ export -f switchml +++ case ":$PATH:" in +++ '[' '!' -n x ']' +++ case ":`manpath 2>/dev/null`:" in ++++ manpath +++ unset _mlcode _mlret +++ '[' -n '' ']' + module unload mpi/mpich-riscv64 + unset _mlshdbg + '[' 0 = 1 ']' + unset _mlre _mlIFS + '[' -n x ']' + _mlIFS=' ' + IFS=' ' + for _mlv in ${MODULES_RUN_QUARANTINE:-} + '[' LD_LIBRARY_PATH = LD_LIBRARY_PATH -a LD_LIBRARY_PATH = LD_LIBRARY_PATH ']' ++ eval 'echo ${LD_LIBRARY_PATH+x}' +++ echo x + '[' -n x ']' ++ eval 'echo ${LD_LIBRARY_PATH}' +++ echo /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/lib + _mlre='LD_LIBRARY_PATH_modquar='\''/builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/lib'\'' ' + _mlrv=MODULES_RUNENV_LD_LIBRARY_PATH ++ eval 'echo ${MODULES_RUNENV_LD_LIBRARY_PATH:-}' +++ echo + _mlre='LD_LIBRARY_PATH_modquar='\''/builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/lib'\'' LD_LIBRARY_PATH='\'''\'' ' + for _mlv in ${MODULES_RUN_QUARANTINE:-} + '[' LD_PRELOAD = LD_PRELOAD -a LD_PRELOAD = LD_PRELOAD ']' ++ eval 'echo ${LD_PRELOAD+x}' +++ echo + '[' -n '' ']' + _mlrv=MODULES_RUNENV_LD_PRELOAD ++ eval 'echo ${MODULES_RUNENV_LD_PRELOAD:-}' +++ echo + _mlre='LD_LIBRARY_PATH_modquar='\''/builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/lib'\'' LD_LIBRARY_PATH='\'''\'' LD_PRELOAD='\'''\'' ' + '[' -n 'LD_LIBRARY_PATH_modquar='\''/builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/lib'\'' LD_LIBRARY_PATH='\'''\'' LD_PRELOAD='\'''\'' ' ']' ++ eval 'LD_LIBRARY_PATH_modquar='\''/builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/lib'\''' 'LD_LIBRARY_PATH='\'''\''' 'LD_PRELOAD='\'''\''' /usr/bin/tclsh /usr/share/Modules/libexec/modulecmd.tcl sh '"$@"' +++ LD_LIBRARY_PATH_modquar=/builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/lib +++ LD_LIBRARY_PATH= +++ LD_PRELOAD= +++ /usr/bin/tclsh /usr/share/Modules/libexec/modulecmd.tcl sh unload mpi/mpich-riscv64 + eval 'LD_LIBRARY_PATH=/builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/lib;' export 'LD_LIBRARY_PATH; unset' 'MPI_COMPILER; MANPATH=;' export 'MANPATH; unset' 'MPI_INCLUDE; unset' 'MPI_MAN; unset' 'MPI_PYTHON_SITEARCH; unset' '_LMFILES_; unset' 'LOADEDMODULES; unset' 'MODULES_LMCONFLICT; PKG_CONFIG_PATH=:/usr/lib64/pkgconfig:/usr/share/pkgconfig;' export 'PKG_CONFIG_PATH; MANPATH_modshare=:1;' export 'MANPATH_modshare; unset' 'MPI_PYTHON3_SITEARCH; unset' 'MODULES_LMCONFLICT_modshare; PKG_CONFIG_PATH_modshare=:1:/usr/lib64/pkgconfig:1:/usr/share/pkgconfig:1;' export 'PKG_CONFIG_PATH_modshare; unset' 'MPI_FORTRAN_MOD_DIR; unset' 'MPI_HOME; LD_LIBRARY_PATH_modshare=/builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/lib:1;' export 'LD_LIBRARY_PATH_modshare; unset' 'MPI_SYSCONFIG; unset' 'MPI_SUFFIX; unset' 'MPI_PYTHON2_SITEARCH; unset' '_LMFILES__modshare; unset' 'LOADEDMODULES_modshare; unset' 'MPI_LIB; PATH=/usr/share/Modules/bin:/usr/bin:/bin:/usr/sbin:/sbin:/usr/local/sbin;' export 'PATH; unset' 'MPI_BIN; PATH_modshare=/bin:1:/usr/sbin:1:/usr/bin:1:/usr/local/sbin:1:/usr/share/Modules/bin:1:/sbin:1;' export 'PATH_modshare; test' '0;' ++ LD_LIBRARY_PATH=/builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/lib ++ export LD_LIBRARY_PATH ++ unset MPI_COMPILER ++ MANPATH= ~/build/BUILD/BOUT++-v4.3.1 ~/build/BUILD/BOUT++-v4.3.1/build_openmpi ~/build/BUILD/BOUT++-v4.3.1 ++ export MANPATH ++ unset MPI_INCLUDE ++ unset MPI_MAN ++ unset MPI_PYTHON_SITEARCH ++ unset _LMFILES_ ++ unset LOADEDMODULES ++ unset MODULES_LMCONFLICT ++ PKG_CONFIG_PATH=:/usr/lib64/pkgconfig:/usr/share/pkgconfig ++ export PKG_CONFIG_PATH ++ MANPATH_modshare=:1 ++ export MANPATH_modshare ++ unset MPI_PYTHON3_SITEARCH ++ unset MODULES_LMCONFLICT_modshare ++ PKG_CONFIG_PATH_modshare=:1:/usr/lib64/pkgconfig:1:/usr/share/pkgconfig:1 ++ export PKG_CONFIG_PATH_modshare ++ unset MPI_FORTRAN_MOD_DIR ++ unset MPI_HOME ++ LD_LIBRARY_PATH_modshare=/builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/lib:1 ++ export LD_LIBRARY_PATH_modshare ++ unset MPI_SYSCONFIG ++ unset MPI_SUFFIX ++ unset MPI_PYTHON2_SITEARCH ++ unset _LMFILES__modshare ++ unset LOADEDMODULES_modshare ++ unset MPI_LIB ++ PATH=/usr/share/Modules/bin:/usr/bin:/bin:/usr/sbin:/sbin:/usr/local/sbin ++ export PATH ++ unset MPI_BIN ++ PATH_modshare=/bin:1:/usr/sbin:1:/usr/bin:1:/usr/local/sbin:1:/usr/share/Modules/bin:1:/sbin:1 ++ export PATH_modshare ++ test 0 + _mlstatus=0 + '[' -n x ']' + IFS=' ' + unset _mlre _mlv _mlrv _mlIFS + '[' -n '' ']' + unset _mlshdbg + return 0 + popd + for mpi in mpich openmpi + pushd build_openmpi + '[' openmpi = mpich ']' + '[' openmpi = openmpi ']' + . /etc/profile.d/modules.sh ++ '[' -n /bin/sh ']' ++ shell=sh ++ '[' -f /usr/share/Modules/init/sh ']' ++ . /usr/share/Modules/init/sh +++ unset _mlshdbg +++ '[' 0 = 1 ']' +++ export 'MODULES_RUN_QUARANTINE=LD_LIBRARY_PATH LD_PRELOAD' +++ MODULES_RUN_QUARANTINE='LD_LIBRARY_PATH LD_PRELOAD' +++ unset _mlre _mlIFS +++ '[' -n x ']' +++ _mlIFS=' ' +++ IFS=' ' +++ for _mlv in ${MODULES_RUN_QUARANTINE:-} +++ '[' LD_LIBRARY_PATH = LD_LIBRARY_PATH -a LD_LIBRARY_PATH = LD_LIBRARY_PATH ']' ++++ eval 'echo ${LD_LIBRARY_PATH+x}' +++++ echo x +++ '[' -n x ']' ++++ eval 'echo ${LD_LIBRARY_PATH}' +++++ echo /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/lib +++ _mlre='LD_LIBRARY_PATH_modquar='\''/builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/lib'\'' ' +++ _mlrv=MODULES_RUNENV_LD_LIBRARY_PATH ++++ eval 'echo ${MODULES_RUNENV_LD_LIBRARY_PATH:-}' +++++ echo +++ _mlre='LD_LIBRARY_PATH_modquar='\''/builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/lib'\'' LD_LIBRARY_PATH='\'''\'' ' +++ for _mlv in ${MODULES_RUN_QUARANTINE:-} +++ '[' LD_PRELOAD = LD_PRELOAD -a LD_PRELOAD = LD_PRELOAD ']' ++++ eval 'echo ${LD_PRELOAD+x}' +++++ echo +++ '[' -n '' ']' +++ _mlrv=MODULES_RUNENV_LD_PRELOAD ++++ eval 'echo ${MODULES_RUNENV_LD_PRELOAD:-}' +++++ echo +++ _mlre='LD_LIBRARY_PATH_modquar='\''/builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/lib'\'' LD_LIBRARY_PATH='\'''\'' LD_PRELOAD='\'''\'' ' +++ '[' -n 'LD_LIBRARY_PATH_modquar='\''/builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/lib'\'' LD_LIBRARY_PATH='\'''\'' LD_PRELOAD='\'''\'' ' ']' +++ _mlre='eval LD_LIBRARY_PATH_modquar='\''/builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/lib'\'' LD_LIBRARY_PATH='\'''\'' LD_PRELOAD='\'''\'' ' ++++ eval 'LD_LIBRARY_PATH_modquar='\''/builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/lib'\''' 'LD_LIBRARY_PATH='\'''\''' 'LD_PRELOAD='\'''\''' /usr/bin/tclsh /usr/share/Modules/libexec/modulecmd.tcl sh autoinit +++++ LD_LIBRARY_PATH_modquar=/builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/lib +++++ LD_LIBRARY_PATH= +++++ LD_PRELOAD= +++++ /usr/bin/tclsh /usr/share/Modules/libexec/modulecmd.tcl sh autoinit +++ _mlcode='module() { unset _mlshdbg; if [ "${MODULES_SILENT_SHELL_DEBUG:-0}" = '\''1'\'' ]; then case "$-" in *v*x*) set +vx; _mlshdbg='\''vx'\'' ;; *v*) set +v; _mlshdbg='\''v'\'' ;; *x*) set +x; _mlshdbg='\''x'\'' ;; *) _mlshdbg='\'''\'' ;; esac; fi; unset _mlre _mlIFS; if [ -n "${IFS+x}" ]; then _mlIFS=$IFS; fi; IFS='\'' '\''; for _mlv in ${MODULES_RUN_QUARANTINE:-}; do if [ "${_mlv}" = "${_mlv##*[!A-Za-z0-9_]}" -a "${_mlv}" = "${_mlv#[0-9]}" ]; then if [ -n "`eval '\''echo ${'\''$_mlv'\''+x}'\''`" ]; then _mlre="${_mlre:-}${_mlv}_modquar='\''`eval '\''echo ${'\''$_mlv'\''}'\''`'\'' "; fi; _mlrv="MODULES_RUNENV_${_mlv}"; _mlre="${_mlre:-}${_mlv}='\''`eval '\''echo ${'\''$_mlrv'\'':-}'\''`'\'' "; fi; done; if [ -n "${_mlre:-}" ]; then eval `eval ${_mlre} /usr/bin/tclsh /usr/share/Modules/libexec/modulecmd.tcl sh '\''"$@"'\''`; else eval `/usr/bin/tclsh /usr/share/Modules/libexec/modulecmd.tcl sh "$@"`; fi; _mlstatus=$?; if [ -n "${_mlIFS+x}" ]; then IFS=$_mlIFS; else unset IFS; fi; unset _mlre _mlv _mlrv _mlIFS; if [ -n "${_mlshdbg:-}" ]; then set -$_mlshdbg; fi; unset _mlshdbg; return $_mlstatus; }; ml() { module ml "$@"; }; MODULES_CMD=/usr/share/Modules/libexec/modulecmd.tcl; export MODULES_CMD; MODULESHOME=/usr/share/Modules; export MODULESHOME; LOADEDMODULES=; export LOADEDMODULES; test 0;' +++ _mlret=0 +++ '[' -n x ']' +++ IFS=' ' +++ unset _mlIFS +++ unset _mlre _mlv _mlrv +++ '[' 0 -eq 0 ']' +++ eval 'module() { unset _mlshdbg; if [ "${MODULES_SILENT_SHELL_DEBUG:-0}" = '\''1'\'' ]; then case "$-" in *v*x*) set +vx; _mlshdbg='\''vx'\'' ;; *v*) set +v; _mlshdbg='\''v'\'' ;; *x*) set +x; _mlshdbg='\''x'\'' ;; *) _mlshdbg='\'''\'' ;; esac; fi; unset _mlre _mlIFS; if [ -n "${IFS+x}" ]; then _mlIFS=$IFS; fi; IFS='\'' '\''; for _mlv in ${MODULES_RUN_QUARANTINE:-}; do if [ "${_mlv}" = "${_mlv##*[!A-Za-z0-9_]}" -a "${_mlv}" = "${_mlv#[0-9]}" ]; then if [ -n "`eval '\''echo ${'\''$_mlv'\''+x}'\''`" ]; then _mlre="${_mlre:-}${_mlv}_modquar='\''`eval '\''echo ${'\''$_mlv'\''}'\''`'\'' "; fi; _mlrv="MODULES_RUNENV_${_mlv}"; _mlre="${_mlre:-}${_mlv}='\''`eval '\''echo ${'\''$_mlrv'\'':-}'\''`'\'' "; fi; done; if [ -n "${_mlre:-}" ]; then eval `eval ${_mlre} /usr/bin/tclsh /usr/share/Modules/libexec/modulecmd.tcl sh '\''"$@"'\''`; else eval `/usr/bin/tclsh /usr/share/Modules/libexec/modulecmd.tcl sh "$@"`; fi; _mlstatus=$?; if [ -n "${_mlIFS+x}" ]; then IFS=$_mlIFS; else unset IFS; fi; unset _mlre _mlv _mlrv _mlIFS; if [ -n "${_mlshdbg:-}" ]; then set -$_mlshdbg; fi; unset _mlshdbg; return $_mlstatus; }; ml() { module ml "$@"; }; MODULES_CMD=/usr/share/Modules/libexec/modulecmd.tcl; export MODULES_CMD; MODULESHOME=/usr/share/Modules; export MODULESHOME; LOADEDMODULES=; export LOADEDMODULES; test 0;' ++++ MODULES_CMD=/usr/share/Modules/libexec/modulecmd.tcl ++++ export MODULES_CMD ++++ MODULESHOME=/usr/share/Modules ++++ export MODULESHOME ++++ LOADEDMODULES= ++++ export LOADEDMODULES ++++ test 0 +++ '[' 0 = 1 ']' +++ '[' /bin/sh '!=' '' ']' +++ '[' -t 2 ']' +++ export -f module ++++ type -t ml +++ '[' function = function ']' +++ export -f ml +++ '[' /bin/sh '!=' '' ']' +++ export -f switchml +++ case ":$PATH:" in +++ '[' '!' -n x ']' +++ case ":`manpath 2>/dev/null`:" in ++++ manpath +++ unset _mlcode _mlret +++ '[' -n '' ']' + module load mpi/openmpi-riscv64 + unset _mlshdbg + '[' 0 = 1 ']' + unset _mlre _mlIFS + '[' -n x ']' + _mlIFS=' ' + IFS=' ' + for _mlv in ${MODULES_RUN_QUARANTINE:-} + '[' LD_LIBRARY_PATH = LD_LIBRARY_PATH -a LD_LIBRARY_PATH = LD_LIBRARY_PATH ']' ++ eval 'echo ${LD_LIBRARY_PATH+x}' +++ echo x + '[' -n x ']' ++ eval 'echo ${LD_LIBRARY_PATH}' +++ echo /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/lib + _mlre='LD_LIBRARY_PATH_modquar='\''/builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/lib'\'' ' + _mlrv=MODULES_RUNENV_LD_LIBRARY_PATH ++ eval 'echo ${MODULES_RUNENV_LD_LIBRARY_PATH:-}' +++ echo + _mlre='LD_LIBRARY_PATH_modquar='\''/builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/lib'\'' LD_LIBRARY_PATH='\'''\'' ' + for _mlv in ${MODULES_RUN_QUARANTINE:-} + '[' LD_PRELOAD = LD_PRELOAD -a LD_PRELOAD = LD_PRELOAD ']' ++ eval 'echo ${LD_PRELOAD+x}' +++ echo + '[' -n '' ']' + _mlrv=MODULES_RUNENV_LD_PRELOAD ++ eval 'echo ${MODULES_RUNENV_LD_PRELOAD:-}' +++ echo + _mlre='LD_LIBRARY_PATH_modquar='\''/builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/lib'\'' LD_LIBRARY_PATH='\'''\'' LD_PRELOAD='\'''\'' ' + '[' -n 'LD_LIBRARY_PATH_modquar='\''/builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/lib'\'' LD_LIBRARY_PATH='\'''\'' LD_PRELOAD='\'''\'' ' ']' ++ eval 'LD_LIBRARY_PATH_modquar='\''/builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/lib'\''' 'LD_LIBRARY_PATH='\'''\''' 'LD_PRELOAD='\'''\''' /usr/bin/tclsh /usr/share/Modules/libexec/modulecmd.tcl sh '"$@"' +++ LD_LIBRARY_PATH_modquar=/builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/lib +++ LD_LIBRARY_PATH= +++ LD_PRELOAD= +++ /usr/bin/tclsh /usr/share/Modules/libexec/modulecmd.tcl sh load mpi/openmpi-riscv64 + eval 'MPI_COMPILER=openmpi-riscv64;' export 'MPI_COMPILER; LD_LIBRARY_PATH=/usr/lib64/openmpi/lib:/builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/lib;' export 'LD_LIBRARY_PATH; MPI_MAN=/usr/share/man/openmpi-riscv64;' export 'MPI_MAN; MANPATH=/usr/share/man/openmpi-riscv64:;' export 'MANPATH; MPI_INCLUDE=/usr/include/openmpi-riscv64;' export 'MPI_INCLUDE; _LMFILES_=/usr/share/modulefiles/mpi/openmpi-riscv64;' export '_LMFILES_; LOADEDMODULES=mpi/openmpi-riscv64;' export 'LOADEDMODULES; MODULES_LMCONFLICT=mpi/openmpi-riscv64\&mpi;' export 'MODULES_LMCONFLICT; PKG_CONFIG_PATH=/usr/lib64/openmpi/lib/pkgconfig::/usr/lib64/pkgconfig:/usr/share/pkgconfig;' export 'PKG_CONFIG_PATH; MANPATH_modshare=:2:/usr/share/man/openmpi-riscv64:1;' export 'MANPATH_modshare; MPI_PYTHON3_SITEARCH=/usr/lib64/python3.9/site-packages/openmpi;' export 'MPI_PYTHON3_SITEARCH; MODULES_LMCONFLICT_modshare=mpi/openmpi-riscv64\&mpi:1;' export 'MODULES_LMCONFLICT_modshare; PKG_CONFIG_PATH_modshare=:1:/usr/lib64/pkgconfig:1:/usr/lib64/openmpi/lib/pkgconfig:1:/usr/share/pkgconfig:1;' export 'PKG_CONFIG_PATH_modshare; MPI_HOME=/usr/lib64/openmpi;' export 'MPI_HOME; MPI_FORTRAN_MOD_DIR=/usr/lib64/gfortran/modules/openmpi;' export 'MPI_FORTRAN_MOD_DIR; MPI_SUFFIX=_openmpi;' export 'MPI_SUFFIX; LD_LIBRARY_PATH_modshare=/usr/lib64/openmpi/lib:1:/builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/lib:1;' export 'LD_LIBRARY_PATH_modshare; MPI_SYSCONFIG=/etc/openmpi-riscv64;' export 'MPI_SYSCONFIG; _LMFILES__modshare=/usr/share/modulefiles/mpi/openmpi-riscv64:1;' export '_LMFILES__modshare; LOADEDMODULES_modshare=mpi/openmpi-riscv64:1;' export 'LOADEDMODULES_modshare; MPI_LIB=/usr/lib64/openmpi/lib;' export 'MPI_LIB; PATH=/usr/lib64/openmpi/bin:/usr/share/Modules/bin:/usr/bin:/bin:/usr/sbin:/sbin:/usr/local/sbin;' export 'PATH; MPI_BIN=/usr/lib64/openmpi/bin;' export 'MPI_BIN; PATH_modshare=/usr/lib64/openmpi/bin:1:/bin:1:/usr/sbin:1:/usr/bin:1:/usr/local/sbin:1:/usr/share/Modules/bin:1:/sbin:1;' export 'PATH_modshare; test' '0;' ++ MPI_COMPILER=openmpi-riscv64 ++ export MPI_COMPILER ++ LD_LIBRARY_PATH=/usr/lib64/openmpi/lib:/builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/lib ++ export LD_LIBRARY_PATH ++ MPI_MAN=/usr/share/man/openmpi-riscv64 ++ export MPI_MAN ++ MANPATH=/usr/share/man/openmpi-riscv64: ++ export MANPATH ++ MPI_INCLUDE=/usr/include/openmpi-riscv64 ++ export MPI_INCLUDE ++ _LMFILES_=/usr/share/modulefiles/mpi/openmpi-riscv64 ++ export _LMFILES_ ++ LOADEDMODULES=mpi/openmpi-riscv64 ++ export LOADEDMODULES ++ MODULES_LMCONFLICT='mpi/openmpi-riscv64&mpi' ++ export MODULES_LMCONFLICT ++ PKG_CONFIG_PATH=/usr/lib64/openmpi/lib/pkgconfig::/usr/lib64/pkgconfig:/usr/share/pkgconfig ++ export PKG_CONFIG_PATH ++ MANPATH_modshare=:2:/usr/share/man/openmpi-riscv64:1 ++ export MANPATH_modshare ++ MPI_PYTHON3_SITEARCH=/usr/lib64/python3.9/site-packages/openmpi ++ export MPI_PYTHON3_SITEARCH ++ MODULES_LMCONFLICT_modshare='mpi/openmpi-riscv64&mpi:1' ++ export MODULES_LMCONFLICT_modshare ++ PKG_CONFIG_PATH_modshare=:1:/usr/lib64/pkgconfig:1:/usr/lib64/openmpi/lib/pkgconfig:1:/usr/share/pkgconfig:1 ++ export PKG_CONFIG_PATH_modshare ++ MPI_HOME=/usr/lib64/openmpi ++ export MPI_HOME ++ MPI_FORTRAN_MOD_DIR=/usr/lib64/gfortran/modules/openmpi ++ export MPI_FORTRAN_MOD_DIR ++ MPI_SUFFIX=_openmpi ++ export MPI_SUFFIX ++ LD_LIBRARY_PATH_modshare=/usr/lib64/openmpi/lib:1:/builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/lib:1 ++ export LD_LIBRARY_PATH_modshare ++ MPI_SYSCONFIG=/etc/openmpi-riscv64 ++ export MPI_SYSCONFIG ++ _LMFILES__modshare=/usr/share/modulefiles/mpi/openmpi-riscv64:1 ++ export _LMFILES__modshare ++ LOADEDMODULES_modshare=mpi/openmpi-riscv64:1 ++ export LOADEDMODULES_modshare ++ MPI_LIB=/usr/lib64/openmpi/lib ++ export MPI_LIB ++ PATH=/usr/lib64/openmpi/bin:/usr/share/Modules/bin:/usr/bin:/bin:/usr/sbin:/sbin:/usr/local/sbin ++ export PATH ++ MPI_BIN=/usr/lib64/openmpi/bin ++ export MPI_BIN ++ PATH_modshare=/usr/lib64/openmpi/bin:1:/bin:1:/usr/sbin:1:/usr/bin:1:/usr/local/sbin:1:/usr/share/Modules/bin:1:/sbin:1 ++ export PATH_modshare ++ test 0 + _mlstatus=0 + '[' -n x ']' + IFS=' ' + unset _mlre _mlv _mlrv _mlIFS + '[' -n '' ']' + unset _mlshdbg + return 0 + export OMPI_MCA_rmaps_base_oversubscribe=1 + OMPI_MCA_rmaps_base_oversubscribe=1 + CFLAGS=' -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection' + export CFLAGS + CXXFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection' + export CXXFLAGS + FFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection -I/usr/lib64/gfortran/modules' + export FFLAGS + FCFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection -I/usr/lib64/gfortran/modules' + export FCFLAGS + LDFLAGS='-Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld' + export LDFLAGS + LT_SYS_LIBRARY_PATH=/usr/lib64: + export LT_SYS_LIBRARY_PATH + CC=gcc + export CC + CXX=g++ + export CXX + '[' '-flto=auto -ffat-lto-objectsx' '!=' x ']' ++ find . -type f -name configure -print + for file in $(find . -type f -name configure -print) + /usr/bin/sed -r --in-place=.backup 's/^char \(\*f\) \(\) = /__attribute__ ((used)) char (*f) () = /g' ./configure + diff -u ./configure.backup ./configure + mv ./configure.backup ./configure + /usr/bin/sed -r --in-place=.backup 's/^char \(\*f\) \(\);/__attribute__ ((used)) char (*f) ();/g' ./configure + diff -u ./configure.backup ./configure + mv ./configure.backup ./configure + /usr/bin/sed -r --in-place=.backup 's/^char \$2 \(\);/__attribute__ ((used)) char \$2 ();/g' ./configure + diff -u ./configure.backup ./configure --- ./configure.backup 2020-08-17 09:17:32.622394779 -0400 +++ ./configure 2020-08-17 11:10:25.173763723 -0400 @@ -1936,7 +1936,7 @@ #ifdef __cplusplus extern "C" #endif -char $2 (); +__attribute__ ((used)) char $2 (); /* The GNU C library defines this for functions which it implements to always fail with ENOSYS. Some functions are actually named something starting with __ and the normal name is an alias. */ + /usr/bin/sed --in-place=.backup '1{$!N;$!N};$!N;s/int x = 1;\nint y = 0;\nint z;\nint nan;/volatile int x = 1; volatile int y = 0; volatile int z, nan;/;P;D' ./configure + diff -u ./configure.backup ./configure + mv ./configure.backup ./configure + /usr/bin/sed --in-place=.backup 's#^lt_cv_sys_global_symbol_to_cdecl=.*#lt_cv_sys_global_symbol_to_cdecl="sed -n -e '\''s/^T .* \\(.*\\)$/extern int \\1();/p'\'' -e '\''s/^$symcode* .* \\(.*\\)$/extern char \\1;/p'\''"#' ./configure + diff -u ./configure.backup ./configure + mv ./configure.backup ./configure + for file in $(find . -type f -name configure -print) + /usr/bin/sed -r --in-place=.backup 's/^char \(\*f\) \(\) = /__attribute__ ((used)) char (*f) () = /g' ./tools/pdb2idl/configure + diff -u ./tools/pdb2idl/configure.backup ./tools/pdb2idl/configure + mv ./tools/pdb2idl/configure.backup ./tools/pdb2idl/configure + /usr/bin/sed -r --in-place=.backup 's/^char \(\*f\) \(\);/__attribute__ ((used)) char (*f) ();/g' ./tools/pdb2idl/configure + diff -u ./tools/pdb2idl/configure.backup ./tools/pdb2idl/configure + mv ./tools/pdb2idl/configure.backup ./tools/pdb2idl/configure + /usr/bin/sed -r --in-place=.backup 's/^char \$2 \(\);/__attribute__ ((used)) char \$2 ();/g' ./tools/pdb2idl/configure + diff -u ./tools/pdb2idl/configure.backup ./tools/pdb2idl/configure + mv ./tools/pdb2idl/configure.backup ./tools/pdb2idl/configure + /usr/bin/sed --in-place=.backup '1{$!N;$!N};$!N;s/int x = 1;\nint y = 0;\nint z;\nint nan;/volatile int x = 1; volatile int y = 0; volatile int z, nan;/;P;D' ./tools/pdb2idl/configure + diff -u ./tools/pdb2idl/configure.backup ./tools/pdb2idl/configure + mv ./tools/pdb2idl/configure.backup ./tools/pdb2idl/configure + /usr/bin/sed --in-place=.backup 's#^lt_cv_sys_global_symbol_to_cdecl=.*#lt_cv_sys_global_symbol_to_cdecl="sed -n -e '\''s/^T .* \\(.*\\)$/extern int \\1();/p'\'' -e '\''s/^$symcode* .* \\(.*\\)$/extern char \\1;/p'\''"#' ./tools/pdb2idl/configure + diff -u ./tools/pdb2idl/configure.backup ./tools/pdb2idl/configure + mv ./tools/pdb2idl/configure.backup ./tools/pdb2idl/configure + '[' 1 = 1 ']' +++ dirname ./configure ++ find . -name config.guess -o -name config.sub + for i in $(find $(dirname ./configure) -name config.guess -o -name config.sub) ++ basename ./build-aux/config.sub + '[' -f /usr/lib/rpm/redhat/config.sub ']' + /usr/bin/rm -f ./build-aux/config.sub ++ basename ./build-aux/config.sub + /usr/bin/cp -fv /usr/lib/rpm/redhat/config.sub ./build-aux/config.sub '/usr/lib/rpm/redhat/config.sub' -> './build-aux/config.sub' + for i in $(find $(dirname ./configure) -name config.guess -o -name config.sub) ++ basename ./build-aux/config.guess + '[' -f /usr/lib/rpm/redhat/config.guess ']' + /usr/bin/rm -f ./build-aux/config.guess ++ basename ./build-aux/config.guess + /usr/bin/cp -fv /usr/lib/rpm/redhat/config.guess ./build-aux/config.guess '/usr/lib/rpm/redhat/config.guess' -> './build-aux/config.guess' + '[' 1 = 1 ']' + '[' x '!=' 'x-Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld' ']' ++ find . -name ltmain.sh + for i in $(find . -name ltmain.sh) + /usr/bin/sed -i.backup -e 's~compiler_flags=$~compiler_flags="-Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld"~' ./build-aux/ltmain.sh + ./configure --build=riscv64-redhat-linux-gnu --host=riscv64-redhat-linux-gnu --program-prefix= --disable-dependency-tracking --prefix=/usr --exec-prefix=/usr --bindir=/usr/bin --sbindir=/usr/sbin --sysconfdir=/etc --datadir=/usr/share --includedir=/usr/include --libdir=/usr/lib64 --libexecdir=/usr/libexec --localstatedir=/var --sharedstatedir=/var/lib --mandir=/usr/share/man --infodir=/usr/share/info --with-netcdf --with-hdf5 --enable-shared --libdir=/usr/lib64/openmpi/lib --bindir=/usr/lib64/openmpi/bin --sbindir=/usr/lib64/openmpi/sbin --includedir=/usr/include/openmpi-riscv64 --datarootdir=/usr/share configure: WARNING: unrecognized options: --disable-dependency-tracking checking for riscv64-redhat-linux-gnu-mpic++... no checking for riscv64-redhat-linux-gnu-mpicxx... no checking for riscv64-redhat-linux-gnu-mpiCC... no checking for riscv64-redhat-linux-gnu-sxmpic++... no checking for riscv64-redhat-linux-gnu-hcp... no checking for riscv64-redhat-linux-gnu-mpxlC_r... no checking for riscv64-redhat-linux-gnu-mpxlC... no checking for riscv64-redhat-linux-gnu-mpixlcxx_r... no checking for riscv64-redhat-linux-gnu-mpixlcxx... no checking for riscv64-redhat-linux-gnu-mpg++... no checking for riscv64-redhat-linux-gnu-mpc++... no checking for riscv64-redhat-linux-gnu-mpCC... no checking for riscv64-redhat-linux-gnu-cmpic++... no checking for riscv64-redhat-linux-gnu-mpiFCC... no checking for riscv64-redhat-linux-gnu-CCicpc... no checking for riscv64-redhat-linux-gnu-pgCC... no checking for riscv64-redhat-linux-gnu-pathCC... no checking for riscv64-redhat-linux-gnu-sxc++... no checking for riscv64-redhat-linux-gnu-xlC_r... no checking for riscv64-redhat-linux-gnu-xlC... no checking for riscv64-redhat-linux-gnu-bgxlC_r... no checking for riscv64-redhat-linux-gnu-bgxlC... no checking for riscv64-redhat-linux-gnu-openCC... no checking for riscv64-redhat-linux-gnu-sunCC... no checking for riscv64-redhat-linux-gnu-crayCC... no checking for riscv64-redhat-linux-gnu-aCC... no checking for riscv64-redhat-linux-gnu-CC... no checking for riscv64-redhat-linux-gnu-g++... no checking for riscv64-redhat-linux-gnu-c++... no checking for riscv64-redhat-linux-gnu-gpp... no checking for riscv64-redhat-linux-gnu-cxx... no checking for riscv64-redhat-linux-gnu-cc++... no checking for riscv64-redhat-linux-gnu-cl.exe... no checking for riscv64-redhat-linux-gnu-FCC... no checking for riscv64-redhat-linux-gnu-KCC... no checking for riscv64-redhat-linux-gnu-RCC... no checking for mpic++... mpic++ checking whether the C++ compiler works... yes checking for C++ compiler default output file name... a.out checking for suffix of executables... checking whether we are cross compiling... no checking for suffix of object files... o checking whether we are using the GNU C++ compiler... yes checking whether mpic++ accepts -g... yes checking for function MPI_Init... yes checking for mpi.h... yes checking for a thread-safe mkdir -p... /usr/bin/mkdir -p checking whether ln -s works... yes checking whether make sets $(MAKE)... yes checking for a BSD-compatible install... /usr/bin/install -c checking for gmake... gmake checking for riscv64-redhat-linux-gnu-ranlib... no checking for ranlib... ranlib checking whether mpic++ supports C++11 features by default... yes checking for sqrt in -lm... yes checking how to run the C++ preprocessor... mpic++ -E checking for grep that handles long lines and -e... /usr/bin/grep checking for egrep... /usr/bin/grep -E checking for ANSI C header files... yes checking for sys/types.h... yes checking for sys/stat.h... yes checking for stdlib.h... yes checking for string.h... yes checking for memory.h... yes checking for strings.h... yes checking for inttypes.h... yes checking for stdint.h... yes checking for unistd.h... yes checking malloc.h usability... yes checking malloc.h presence... yes checking for malloc.h... yes checking for stdlib.h... (cached) yes checking for string.h... (cached) yes checking for strings.h... (cached) yes checking for stdlib.h... (cached) yes checking for GNU libc compatible malloc... yes checking for stdlib.h... (cached) yes checking for GNU libc compatible realloc... yes checking for vprintf... yes checking for _doprnt... no checking does C++ compiler support __PRETTY_FUNCTION__... yes checking for a sed that does not truncate output... /usr/bin/sed checking whether to build with code coverage support... no checking whether C++ compiler accepts -Werror=unknown-warning-option... no checking whether C++ compiler accepts -we10006,10148... no checking whether C++ compiler accepts -Wall... yes checking whether C++ compiler accepts -Wextra... yes checking whether C++ compiler accepts -Wnull-dereference... yes checking whether C++ compiler accepts -Wno-cast-function-type... yes configure: Enabling default optimisations checking whether C++ compiler accepts -O2... yes configure: Run-time checking enabled configure: -> Level 2 (Basic checking + stack tracing) configure: Segmentation fault handling enabled configure: Output coloring enabled configure: Field name tracking disabled configure: Signaling floating point exceptions disabled checking for addr2line... yes checking for popen... yes checking for backtrace... yes checking execinfo.h usability... yes checking execinfo.h presence... yes checking for execinfo.h... yes checking dlfcn.h usability... yes checking dlfcn.h presence... yes checking for dlfcn.h... yes checking for library containing dladdr... -ldl configure: Native backtrace enabled ./configure: line 6307: git: command not found checking for fftw-wisdom... /usr/bin/fftw-wisdom checking for fftw3.h... yes checking for libfftw3... yes checking for ncxx4-config... /usr/bin/ncxx4-config configure: -> NetCDF-4 support enabled configure: Parallel-NetCDF support disabled checking for gawk... gawk checking for riscv64-redhat-linux-gnu-gcc... gcc checking whether we are using the GNU C compiler... yes checking whether gcc accepts -g... yes checking for gcc option to accept ISO C89... none needed checking how to run the C preprocessor... gcc -E checking for h5cc... /usr/bin/h5cc checking for HDF5 type... serial checking for HDF5 libraries... yes (version 1.10.5) checking hdf5.h usability... yes checking hdf5.h presence... yes checking for hdf5.h... yes checking for H5Fcreate in -lhdf5... yes checking for main in -lhdf5_hl... yes configure: Found HDF5 configure: Parallel HDF5 support disabled configure: Supported file formats: netCDF HDF5 checking for libblas... yes checking for liblapack... yes configure: Using LAPACK checking for riscv64-redhat-linux-gnu-pkg-config... /usr/bin/riscv64-redhat-linux-gnu-pkg-config checking pkg-config is at least version 0.9.0... yes configure: Scorep support disabled configure: PVODE being built without OpenMP support configure: Building PVODE configure: Successfully built PVODE configure: Installing PVODE into BOUT++ sourcetree checking whether NLS is requested... yes checking for msgfmt... /usr/bin/msgfmt checking for gmsgfmt... /usr/bin/msgfmt checking for xgettext... /usr/bin/xgettext checking for msgmerge... /usr/bin/msgmerge checking build system type... riscv64-redhat-linux-gnu checking host system type... riscv64-redhat-linux-gnu checking for ld used by gcc... /usr/bin/ld checking if the linker (/usr/bin/ld) is GNU ld... yes checking for shared library run path origin... /bin/sh: build-aux/config.rpath: No such file or directory done checking 32-bit host C ABI... no checking for ELF binary format... yes checking for the common suffixes of directories in the library search path... ./configure: line 13514: cd: /lib64/lp64d/../lib64/lp64d/: No such file or directory ./configure: line 13514: cd: /usr/lib64/lp64d/../lib64/lp64d/: No such file or directory lib,lib,lib64 checking for CFPreferencesCopyAppValue... no checking for CFLocaleCopyPreferredLanguages... no checking for GNU gettext in libc... yes checking whether to use NLS... yes checking where the gettext function comes from... libc configure: Enabling language support with gettext gmake: Entering directory '/builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/locale' Building language: de Building language: es Building language: fr Building language: zh_CN Building language: zh_TW gmake: Leaving directory '/builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/locale' configure: creating ./config.status config.status: creating make.config config.status: executing po-directories commands configure: WARNING: unrecognized options: --disable-dependency-tracking configure: creating ./config.status config.status: creating make.config config.status: creating bin/bout-config config.status: executing po-directories commands configure: WARNING: unrecognized options: --disable-dependency-tracking configure: ------------------------- configure: Configuration summary configure: ------------------------- configure: PETSc support : no (has SUNDIALS: no) configure: SLEPc support : no configure: IDA support : no configure: CVODE support : no configure: ARKODE support : no configure: FFTW support : yes configure: NetCDF support : yes configure: Parallel-NetCDF support : no configure: HDF5 support : yes (parallel: no) configure: MUMPS support : no configure: Lapack support : yes configure: Scorep support : no configure: OpenMP support : no (schedule: ) configure: Natural language support: yes (path: ${datarootdir}/locale) configure: configure: ------------------------------- configure: Data analysis configuration configure: ------------------------------- configure: configure: === IDL === configure: configure: Make sure that the tools/idllib directory is in your IDL_PATH configure: e.g. by adding to your ~/.bashrc file configure: configure: export IDL_PATH=+/builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/tools/idllib:'':$IDL_PATH configure: configure: === Python === configure: configure: Make sure that the tools/pylib directory is in your PYTHONPATH configure: e.g. by adding to your ~/.bashrc file configure: configure: export PYTHONPATH=/builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/tools/pylib/:$PYTHONPATH configure: configure: *** Now run 'gmake' to compile BOUT++ *** + make -j4 shared python Compiling field.cxx Compiling nc_format.cxx Compiling boutmesh.cxx Compiling cyclic.cxx Compiling ncxx4.cxx In file included from /usr/include/openmpi-riscv64/ncFile.h:2, from /usr/include/openmpi-riscv64/netcdf:16, from ncxx4.hxx:51, from ncxx4.cxx:23: /usr/include/openmpi-riscv64/ncGroup.h:18:14: warning: 'netCDF::file_id' defined but not used [-Wunused-variable] 18 | static int file_id; | ^~~~~~~ Compiling field2d.cxx Compiling invert_parderiv.cxx Compiling pnetcdf.cxx Compiling h5_format.cxx Compiling parderiv_factory.cxx Compiling field3d.cxx Compiling shiftedmetric.cxx Compiling datafile.cxx Compiling serial_tri.cxx Compiling fieldperp.cxx Compiling fci.cxx Compiling serial_band.cxx Compiling field_data.cxx Compiling dataformat.cxx Compiling identity.cxx Compiling pdd.cxx Compiling formatfactory.cxx Compiling fieldgroup.cxx In file included from /usr/include/openmpi-riscv64/ncFile.h:2, from /usr/include/openmpi-riscv64/netcdf:16, from impls/netcdf4/ncxx4.hxx:51, from formatfactory.cxx:8: /usr/include/openmpi-riscv64/ncGroup.h:18:14: warning: 'netCDF::file_id' defined but not used [-Wunused-variable] 18 | static int file_id; | ^~~~~~~ Compiling invert_laplace.cxx Compiling gridfromoptions.cxx Compiling field_factory.cxx invert_laplace.cxx: In constructor 'Laplacian::Laplacian(Options*, CELL_LOC, Mesh*)': invert_laplace.cxx:100:16: warning: 'virtual void Laplacian::setFlags(int)' is deprecated: Please use setGlobalFlags, setInnerBoundaryFlags and setOuterBoundaryFlags methods instead [-Wdeprecated-declarations] 100 | Laplacian::setFlags(flags); | ^~~~~~~~ In file included from invert_laplace.cxx:36: ../../../include/invert_laplace.hxx:189:16: note: declared here 189 | virtual void setFlags(int f); | ^~~~~~~~ invert_laplace.cxx:100:30: warning: 'virtual void Laplacian::setFlags(int)' is deprecated: Please use setGlobalFlags, setInnerBoundaryFlags and setOuterBoundaryFlags methods instead [-Wdeprecated-declarations] 100 | Laplacian::setFlags(flags); | ^ In file included from invert_laplace.cxx:36: ../../../include/invert_laplace.hxx:189:16: note: declared here 189 | virtual void setFlags(int f); | ^~~~~~~~ invert_laplace.cxx: In function 'int invert_laplace(const FieldPerp&, FieldPerp&, int, const Field2D*, const Field2D*, const Field2D*)': invert_laplace.cxx:770:22: warning: 'virtual void Laplacian::setFlags(int)' is deprecated: Please use setGlobalFlags, setInnerBoundaryFlags and setOuterBoundaryFlags methods instead [-Wdeprecated-declarations] 770 | lap->setFlags(flags); | ^ In file included from invert_laplace.cxx:36: ../../../include/invert_laplace.hxx:189:16: note: declared here 189 | virtual void setFlags(int f); | ^~~~~~~~ invert_laplace.cxx: In function 'int invert_laplace(const Field3D&, Field3D&, int, const Field2D*, const Field2D*, const Field2D*)': invert_laplace.cxx:800:22: warning: 'virtual void Laplacian::setFlags(int)' is deprecated: Please use setGlobalFlags, setInnerBoundaryFlags and setOuterBoundaryFlags methods instead [-Wdeprecated-declarations] 800 | lap->setFlags(flags); | ^ In file included from invert_laplace.cxx:36: ../../../include/invert_laplace.hxx:189:16: note: declared here 189 | virtual void setFlags(int f); | ^~~~~~~~ invert_laplace.cxx: In function 'const Field3D invert_laplace(const Field3D&, int, const Field2D*, const Field2D*, const Field2D*)': invert_laplace.cxx:831:22: warning: 'virtual void Laplacian::setFlags(int)' is deprecated: Please use setGlobalFlags, setInnerBoundaryFlags and setOuterBoundaryFlags methods instead [-Wdeprecated-declarations] 831 | lap->setFlags(flags); | ^ In file included from invert_laplace.cxx:36: ../../../include/invert_laplace.hxx:189:16: note: declared here 189 | virtual void setFlags(int f); | ^~~~~~~~ Compiling spt.cxx Compiling gridfromfile.cxx Compiling laplacexy.cxx Compiling fieldgenerators.cxx Compiling petsc_laplace.cxx Compiling mumps_laplace.cxx Compiling laplacexz-cyclic.cxx Compiling bilinear.cxx Compiling initialprofiles.cxx Compiling cyclic_laplace.cxx Compiling hermite_spline.cxx Compiling laplacexz-petsc.cxx Compiling vecops.cxx Compiling shoot_laplace.cxx Compiling laplacexz.cxx Compiling monotonic_hermite_spline.cxx Compiling multigrid_laplace.cxx Compiling vector2d.cxx Compiling multigrid_alg.cxx Compiling lagrange_4pt.cxx Compiling vector3d.cxx Compiling interpolation_factory.cxx Compiling multigrid_solver.cxx Compiling where.cxx Compiling laplacefactory.cxx Compiling naulin_laplace.cxx Compiling difops.cxx Compiling globalfield.cxx Compiling generated_fieldops.cxx Compiling fft_fftw.cxx Compiling lapack_routines.cxx Compiling interpolation.cxx Compiling physicsmodel.cxx Compiling mesh.cxx Compiling arkode.cxx Compiling pvode.cxx Compiling options_ini.cxx Compiling smoothing.cxx Compiling options_netcdf.cxx Compiling cvode.cxx Compiling ida.cxx Compiling petsc.cxx Compiling snes.cxx Compiling imex-bdf2.cxx Compiling power.cxx Compiling sourcex.cxx In file included from /usr/include/openmpi-riscv64/ncFile.h:2, from /usr/include/openmpi-riscv64/netcdf:16, from options_netcdf.cxx:7: /usr/include/openmpi-riscv64/ncGroup.h:18:14: warning: 'netCDF::file_id' defined but not used [-Wunused-variable] 18 | static int file_id; | ^~~~~~~ Compiling boundary_standard.cxx Compiling slepc.cxx Compiling karniadakis.cxx Compiling gyro_average.cxx Compiling bout_types.cxx gyro_average.cxx: In function 'Field3D gyroPade0(const Field3D&, BoutReal, int)': gyro_average.cxx:170:22: warning: 'virtual void Laplacian::setFlags(int)' is deprecated: Please use setGlobalFlags, setInnerBoundaryFlags and setOuterBoundaryFlags methods instead [-Wdeprecated-declarations] 170 | lap->setFlags(flags); | ^ In file included from ../../include/gyro_average.hxx:36, from gyro_average.cxx:34: ../../include/invert_laplace.hxx:189:16: note: declared here 189 | virtual void setFlags(int f); | ^~~~~~~~ gyro_average.cxx: In function 'Field3D gyroPade0(const Field3D&, const Field2D&, int)': gyro_average.cxx:187:22: warning: 'virtual void Laplacian::setFlags(int)' is deprecated: Please use setGlobalFlags, setInnerBoundaryFlags and setOuterBoundaryFlags methods instead [-Wdeprecated-declarations] 187 | lap->setFlags(flags); | ^ In file included from ../../include/gyro_average.hxx:36, from gyro_average.cxx:34: ../../include/invert_laplace.hxx:189:16: note: declared here 189 | virtual void setFlags(int f); | ^~~~~~~~ gyro_average.cxx: In function 'Field3D gyroPade0(const Field3D&, const Field3D&, int)': gyro_average.cxx:194:37: warning: 'Field3D gyroPade0(const Field3D&, const Field2D&, int)' is deprecated: Please use version with separate inner_boundary_flags and outer_boundary_flags [-Wdeprecated-declarations] 194 | return gyroPade0(f, DC(rho), flags); | ^ gyro_average.cxx:175:9: note: declared here 175 | Field3D gyroPade0(const Field3D& f, const Field2D& rho, int flags) { | ^~~~~~~~~ gyro_average.cxx: In function 'Field3D gyroPade1(const Field3D&, BoutReal, int)': gyro_average.cxx:209:22: warning: 'virtual void Laplacian::setFlags(int)' is deprecated: Please use setGlobalFlags, setInnerBoundaryFlags and setOuterBoundaryFlags methods instead [-Wdeprecated-declarations] 209 | lap->setFlags(flags); | ^ In file included from ../../include/gyro_average.hxx:36, from gyro_average.cxx:34: ../../include/invert_laplace.hxx:189:16: note: declared here 189 | virtual void setFlags(int f); | ^~~~~~~~ gyro_average.cxx: In function 'Field3D gyroPade1(const Field3D&, const Field2D&, int)': gyro_average.cxx:226:22: warning: 'virtual void Laplacian::setFlags(int)' is deprecated: Please use setGlobalFlags, setInnerBoundaryFlags and setOuterBoundaryFlags methods instead [-Wdeprecated-declarations] 226 | lap->setFlags(flags); | ^ In file included from ../../include/gyro_average.hxx:36, from gyro_average.cxx:34: ../../include/invert_laplace.hxx:189:16: note: declared here 189 | virtual void setFlags(int f); | ^~~~~~~~ gyro_average.cxx: In function 'Field3D gyroPade1(const Field3D&, const Field3D&, int)': gyro_average.cxx:232:37: warning: 'Field3D gyroPade1(const Field3D&, const Field2D&, int)' is deprecated: Please use version with separate inner_boundary_flags and outer_boundary_flags [-Wdeprecated-declarations] 232 | return gyroPade1(f, DC(rho), flags); | ^ gyro_average.cxx:214:9: note: declared here 214 | Field3D gyroPade1(const Field3D& f, const Field2D& rho, int flags) { | ^~~~~~~~~ gyro_average.cxx: In function 'Field2D gyroPade1(const Field2D&, const Field2D&, int)': gyro_average.cxx:238:34: warning: 'Field3D gyroPade1(const Field3D&, const Field2D&, int)' is deprecated: Please use version with separate inner_boundary_flags and outer_boundary_flags [-Wdeprecated-declarations] 238 | tmp = gyroPade1(tmp, rho, flags); | ^ gyro_average.cxx:214:9: note: declared here 214 | Field3D gyroPade1(const Field3D& f, const Field2D& rho, int flags) { | ^~~~~~~~~ gyro_average.cxx: In function 'Field3D gyroPade2(const Field3D&, BoutReal, int)': gyro_average.cxx:243:53: warning: 'Field3D gyroPade1(const Field3D&, BoutReal, int)' is deprecated: Please use version with separate inner_boundary_flags and outer_boundary_flags [-Wdeprecated-declarations] 243 | Field3D result = gyroPade1(gyroPade1(f, rho, flags), rho, flags); | ^ gyro_average.cxx:197:9: note: declared here 197 | Field3D gyroPade1(const Field3D& f, BoutReal rho, int flags) { | ^~~~~~~~~ gyro_average.cxx:243:66: warning: 'Field3D gyroPade1(const Field3D&, BoutReal, int)' is deprecated: Please use version with separate inner_boundary_flags and outer_boundary_flags [-Wdeprecated-declarations] 243 | Field3D result = gyroPade1(gyroPade1(f, rho, flags), rho, flags); | ^ gyro_average.cxx:197:9: note: declared here 197 | Field3D gyroPade1(const Field3D& f, BoutReal rho, int flags) { | ^~~~~~~~~ gyro_average.cxx: In function 'Field3D gyroPade2(const Field3D&, const Field2D&, int)': gyro_average.cxx:251:53: warning: 'Field3D gyroPade1(const Field3D&, const Field2D&, int)' is deprecated: Please use version with separate inner_boundary_flags and outer_boundary_flags [-Wdeprecated-declarations] 251 | Field3D result = gyroPade1(gyroPade1(f, rho, flags), rho, flags); | ^ gyro_average.cxx:214:9: note: declared here 214 | Field3D gyroPade1(const Field3D& f, const Field2D& rho, int flags) { | ^~~~~~~~~ gyro_average.cxx:251:66: warning: 'Field3D gyroPade1(const Field3D&, const Field2D&, int)' is deprecated: Please use version with separate inner_boundary_flags and outer_boundary_flags [-Wdeprecated-declarations] 251 | Field3D result = gyroPade1(gyroPade1(f, rho, flags), rho, flags); | ^ gyro_average.cxx:214:9: note: declared here 214 | Field3D gyroPade1(const Field3D& f, const Field2D& rho, int flags) { | ^~~~~~~~~ gyro_average.cxx: In function 'Field3D gyroPade2(const Field3D&, const Field3D&, int)': gyro_average.cxx:260:37: warning: 'Field3D gyroPade2(const Field3D&, const Field2D&, int)' is deprecated: Please use version with separate inner_boundary_flags and outer_boundary_flags [-Wdeprecated-declarations] 260 | return gyroPade2(f, DC(rho), flags); | ^ gyro_average.cxx:250:9: note: declared here 250 | Field3D gyroPade2(const Field3D& f, const Field2D& rho, int flags) { | ^~~~~~~~~ Compiling boutexception.cxx Compiling snb.cxx Compiling rk4.cxx Compiling derivs.cxx Compiling boundary_factory.cxx Compiling solver.cxx Compiling euler.cxx Compiling boundary_region.cxx Compiling msg_stack.cxx Compiling options.cxx Compiling meshfactory.cxx Compiling solverfactory.cxx Compiling rk3-ssp.cxx Compiling surfaceiter.cxx Compiling output.cxx Compiling coordinates.cxx Compiling utils.cxx Compiling rkf45.cxx Compiling optionsreader.cxx Compiling split-rk.cxx Compiling cashkarp.cxx Compiling boutcomm.cxx Compiling timer.cxx Compiling range.cxx Compiling petsclib.cxx Compiling expressionparser.cxx Compiling rkgeneric.cxx Compiling rk4simple.cxx Compiling slepclib.cxx Compiling type_name.cxx Compiling index_derivs.cxx Compiling rkscheme.cxx Compiling rkschemefactory.cxx Compiling rkf34.cxx Compiling parallel_boundary_region.cxx Compiling parallel_boundary_op.cxx Compiling fv_ops.cxx Compiling bout++.cxx Recreating libbout++.a make -C tools/pylib python3 Creating libbout++.so make[1]: Entering directory '/builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/tools/pylib' PY=python3 make -C _boutcore_build pseudoinstall make[2]: Entering directory '/builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/tools/pylib/_boutcore_build' Generating setup.py Generating boutcore.pyx Generating helper.cxx Generating helper.h Generating resolve_enum.pxd Generating boutcpp.pxd yes - deflt yes - centre yes - xlow yes - ylow yes - zlow yes - vshift yes - deflt yes - u1 yes - u2 yes - c2 yes - w2 yes - w3 yes - c4 yes - u3 yes - fft yes - split yes - s2 yes - all yes - nobndry yes - nox yes - noy yes - noz yes - X yes - Y yes - Z yes - YAligned yes - YOrthogonal yes - Standard yes - Aligned yes - Standard yes - Average yes - C2L yes - L2C yes - Standard yes - StandardSecond yes - StandardFourth yes - Upwind yes - Flux yes - standard yes - simple yes - arakawa yes - ctu yes - arakawa_old /usr/lib64/python3.9/site-packages/Cython/Compiler/Main.py:369: FutureWarning: Cython directive 'language_level' not set, using 2 for now (Py2). This will change in a later release! File: /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/tools/pylib/_boutcore_build/boutcore.pyx tree = Parsing.p_module(s, pxd, full_module_name) warning: resolve_enum.pxd:49:25: 'deflt' redeclared warning: resolve_enum.pxd:189:28: 'Standard' redeclared warning: resolve_enum.pxd:223:19: 'Standard' redeclared Warning: passing language='c++' to cythonize() is deprecated. Instead, put "# distutils: language=c++" in your .pyx or .pxd file(s) Compiling boutcore.pyx because it changed. [1/1] Cythonizing boutcore.pyx running build_ext building 'boutcore' extension creating build creating build/temp.linux-riscv64-3.9 mpic++ -Wno-unused-result -Wsign-compare -DNDEBUG -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -fasynchronous-unwind-tables -fstack-clash-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -fasynchronous-unwind-tables -fstack-clash-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -fasynchronous-unwind-tables -fstack-clash-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/include -I/usr/include -I/usr/include -I. -I/usr/include/python3.9 -c boutcore.cpp -o build/temp.linux-riscv64-3.9/boutcore.o -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection -DHAS_PRETTY_FUNCTION -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -DSIGHANDLE -DLOGCOLOR -DBOUT_VERSION_STRING=4.3.1 -DBOUT_VERSION_DOUBLE=4.31 -DBACKTRACE -fPIC -DBOUT_HAS_FFTW -DNCDF4 -DHDF5 -DLAPACK -DBOUT_HAS_PVODE -DBOUT_HAS_GETTEXT -DBOUT_LOCALE_PATH=/usr/share/locale -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection -DHAS_PRETTY_FUNCTION -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -DSIGHANDLE -DLOGCOLOR -DBOUT_VERSION_STRING=4.3.1 -DBOUT_VERSION_DOUBLE=4.31 -DBACKTRACE -fPIC -DBOUT_HAS_FFTW -DNCDF4 -DHDF5 -DLAPACK -DBOUT_HAS_PVODE -DBOUT_HAS_GETTEXT -DBOUT_LOCALE_PATH=/usr/share/locale -DBOUT_FLAGS_STRING=-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection -DHAS_PRETTY_FUNCTION -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -DSIGHANDLE -DLOGCOLOR -DBOUT_VERSION_STRING=4.3.1 -DBOUT_VERSION_DOUBLE=4.31 -DBACKTRACE -fPIC -DBOUT_HAS_FFTW -DNCDF4 -DHDF5 -DLAPACK -DBOUT_HAS_PVODE -DBOUT_HAS_GETTEXT -DBOUT_LOCALE_PATH=/usr/share/locale -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection -DHAS_PRETTY_FUNCTION -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -DSIGHANDLE -DLOGCOLOR -DBOUT_VERSION_STRING=4.3.1 -DBOUT_VERSION_DOUBLE=4.31 -DBACKTRACE -fPIC -DBOUT_HAS_FFTW -DNCDF4 -DHDF5 -DLAPACK -DBOUT_HAS_PVODE -DBOUT_HAS_GETTEXT -DBOUT_LOCALE_PATH=/usr/share/locale In file included from /usr/lib64/python3.9/site-packages/numpy/core/include/numpy/ndarraytypes.h:1822, from /usr/lib64/python3.9/site-packages/numpy/core/include/numpy/ndarrayobject.h:12, from /usr/lib64/python3.9/site-packages/numpy/core/include/numpy/arrayobject.h:4, from boutcore.cpp:856: /usr/lib64/python3.9/site-packages/numpy/core/include/numpy/npy_1_7_deprecated_api.h:17:2: warning: #warning "Using deprecated NumPy API, disable it with " "#define NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp] 17 | #warning "Using deprecated NumPy API, disable it with " \ | ^~~~~~~ boutcore.cpp: In function ‘PyObject* __pyx_pf_8boutcore_6DDX(PyObject*, __pyx_obj_8boutcore_Field3D*, PyObject*, PyObject*, PyObject*)’: boutcore.cpp:37504:96: warning: ‘Field3D DDX(const Field3D&, CELL_LOC, const string&, REGION)’ is deprecated: Please use #func(const #T& f, CELL_LOC outloc = CELL_DEFAULT, const std::string& method = "DEFAULT", const std::string& region = "RGN_ALL") instead [-Wdeprecated-declarations] 37504 | __pyx_t_6 = DDX((__pyx_v_field->cobj[0]), __pyx_v_outloc_, __pyx_v_method_, __pyx_v_region_); | ^ In file included from boutcore.cpp:848: /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/include/derivs.hxx:95:34: note: declared here 95 | DERIV_FUNC_REGION_ENUM_TO_STRING(DDX, Field3D) | ^~~ /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/include/derivs.hxx:46:10: note: in definition of macro ‘DERIV_FUNC_REGION_ENUM_TO_STRING’ 46 | inline T func(const T& f, CELL_LOC outloc, const std::string& method, \ | ^~~~ boutcore.cpp: In function ‘PyObject* __pyx_pf_8boutcore_8D2DX2(PyObject*, __pyx_obj_8boutcore_Field3D*, PyObject*, PyObject*, PyObject*)’: boutcore.cpp:37794:98: warning: ‘Field3D D2DX2(const Field3D&, CELL_LOC, const string&, REGION)’ is deprecated: Please use #func(const #T& f, CELL_LOC outloc = CELL_DEFAULT, const std::string& method = "DEFAULT", const std::string& region = "RGN_ALL") instead [-Wdeprecated-declarations] 37794 | __pyx_t_6 = D2DX2((__pyx_v_field->cobj[0]), __pyx_v_outloc_, __pyx_v_method_, __pyx_v_region_); | ^ In file included from boutcore.cpp:848: /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/include/derivs.hxx:225:34: note: declared here 225 | DERIV_FUNC_REGION_ENUM_TO_STRING(D2DX2, Field3D) | ^~~~~ /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/include/derivs.hxx:46:10: note: in definition of macro ‘DERIV_FUNC_REGION_ENUM_TO_STRING’ 46 | inline T func(const T& f, CELL_LOC outloc, const std::string& method, \ | ^~~~ boutcore.cpp: In function ‘PyObject* __pyx_pf_8boutcore_10VDDX(PyObject*, __pyx_obj_8boutcore_Field3D*, __pyx_obj_8boutcore_Field3D*, PyObject*, PyObject*, PyObject*)’: boutcore.cpp:38096:126: warning: ‘Field3D VDDX(const Field3D&, const Field3D&, CELL_LOC, const string&, REGION)’ is deprecated: Please use #func(const #T1 v, const #T2& f, CELL_LOC outloc = CELL_DEFAULT, const std::string& method = "DEFAULT", const std::string& region = "RGN_ALL") instead [-Wdeprecated-declarations] 38096 | __pyx_t_6 = VDDX((__pyx_v_velocity->cobj[0]), (__pyx_v_field->cobj[0]), __pyx_v_outloc_, __pyx_v_method_, __pyx_v_region_); | ^ In file included from boutcore.cpp:848: /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/include/derivs.hxx:420:35: note: declared here 420 | VDERIV_FUNC_REGION_ENUM_TO_STRING(VDDX, Field3D, Field3D, Field3D) | ^~~~ /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/include/derivs.hxx:66:10: note: in definition of macro ‘VDERIV_FUNC_REGION_ENUM_TO_STRING’ 66 | inline T func(const T1& v, const T2& f, CELL_LOC outloc, const std::string& method, \ | ^~~~ boutcore.cpp: In function ‘PyObject* __pyx_pf_8boutcore_12FDDX(PyObject*, __pyx_obj_8boutcore_Field3D*, __pyx_obj_8boutcore_Field3D*, PyObject*, PyObject*, PyObject*)’: boutcore.cpp:38398:126: warning: ‘Field3D FDDX(const Field3D&, const Field3D&, CELL_LOC, const string&, REGION)’ is deprecated: Please use #func(const #T1 v, const #T2& f, CELL_LOC outloc = CELL_DEFAULT, const std::string& method = "DEFAULT", const std::string& region = "RGN_ALL") instead [-Wdeprecated-declarations] 38398 | __pyx_t_6 = FDDX((__pyx_v_velocity->cobj[0]), (__pyx_v_field->cobj[0]), __pyx_v_outloc_, __pyx_v_method_, __pyx_v_region_); | ^ In file included from boutcore.cpp:848: /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/include/derivs.hxx:539:35: note: declared here 539 | VDERIV_FUNC_REGION_ENUM_TO_STRING(FDDX, Field3D, Field3D, Field3D) | ^~~~ /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/include/derivs.hxx:66:10: note: in definition of macro ‘VDERIV_FUNC_REGION_ENUM_TO_STRING’ 66 | inline T func(const T1& v, const T2& f, CELL_LOC outloc, const std::string& method, \ | ^~~~ boutcore.cpp: In function ‘PyObject* __pyx_pf_8boutcore_14DDY(PyObject*, __pyx_obj_8boutcore_Field3D*, PyObject*, PyObject*, PyObject*)’: boutcore.cpp:38688:96: warning: ‘Field3D DDY(const Field3D&, CELL_LOC, const string&, REGION)’ is deprecated: Please use #func(const #T& f, CELL_LOC outloc = CELL_DEFAULT, const std::string& method = "DEFAULT", const std::string& region = "RGN_ALL") instead [-Wdeprecated-declarations] 38688 | __pyx_t_6 = DDY((__pyx_v_field->cobj[0]), __pyx_v_outloc_, __pyx_v_method_, __pyx_v_region_); | ^ In file included from boutcore.cpp:848: /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/include/derivs.hxx:127:34: note: declared here 127 | DERIV_FUNC_REGION_ENUM_TO_STRING(DDY, Field3D) | ^~~ /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/include/derivs.hxx:46:10: note: in definition of macro ‘DERIV_FUNC_REGION_ENUM_TO_STRING’ 46 | inline T func(const T& f, CELL_LOC outloc, const std::string& method, \ | ^~~~ boutcore.cpp: In function ‘PyObject* __pyx_pf_8boutcore_16D2DY2(PyObject*, __pyx_obj_8boutcore_Field3D*, PyObject*, PyObject*, PyObject*)’: boutcore.cpp:38978:98: warning: ‘Field3D D2DY2(const Field3D&, CELL_LOC, const string&, REGION)’ is deprecated: Please use #func(const #T& f, CELL_LOC outloc = CELL_DEFAULT, const std::string& method = "DEFAULT", const std::string& region = "RGN_ALL") instead [-Wdeprecated-declarations] 38978 | __pyx_t_6 = D2DY2((__pyx_v_field->cobj[0]), __pyx_v_outloc_, __pyx_v_method_, __pyx_v_region_); | ^ In file included from boutcore.cpp:848: /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/include/derivs.hxx:257:34: note: declared here 257 | DERIV_FUNC_REGION_ENUM_TO_STRING(D2DY2, Field3D) | ^~~~~ /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/include/derivs.hxx:46:10: note: in definition of macro ‘DERIV_FUNC_REGION_ENUM_TO_STRING’ 46 | inline T func(const T& f, CELL_LOC outloc, const std::string& method, \ | ^~~~ boutcore.cpp: In function ‘PyObject* __pyx_pf_8boutcore_18VDDY(PyObject*, __pyx_obj_8boutcore_Field3D*, __pyx_obj_8boutcore_Field3D*, PyObject*, PyObject*, PyObject*)’: boutcore.cpp:39280:126: warning: ‘Field3D VDDY(const Field3D&, const Field3D&, CELL_LOC, const string&, REGION)’ is deprecated: Please use #func(const #T1 v, const #T2& f, CELL_LOC outloc = CELL_DEFAULT, const std::string& method = "DEFAULT", const std::string& region = "RGN_ALL") instead [-Wdeprecated-declarations] 39280 | __pyx_t_6 = VDDY((__pyx_v_velocity->cobj[0]), (__pyx_v_field->cobj[0]), __pyx_v_outloc_, __pyx_v_method_, __pyx_v_region_); | ^ In file included from boutcore.cpp:848: /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/include/derivs.hxx:454:35: note: declared here 454 | VDERIV_FUNC_REGION_ENUM_TO_STRING(VDDY, Field3D, Field3D, Field3D) | ^~~~ /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/include/derivs.hxx:66:10: note: in definition of macro ‘VDERIV_FUNC_REGION_ENUM_TO_STRING’ 66 | inline T func(const T1& v, const T2& f, CELL_LOC outloc, const std::string& method, \ | ^~~~ boutcore.cpp: In function ‘PyObject* __pyx_pf_8boutcore_20FDDY(PyObject*, __pyx_obj_8boutcore_Field3D*, __pyx_obj_8boutcore_Field3D*, PyObject*, PyObject*, PyObject*)’: boutcore.cpp:39582:126: warning: ‘Field3D FDDY(const Field3D&, const Field3D&, CELL_LOC, const string&, REGION)’ is deprecated: Please use #func(const #T1 v, const #T2& f, CELL_LOC outloc = CELL_DEFAULT, const std::string& method = "DEFAULT", const std::string& region = "RGN_ALL") instead [-Wdeprecated-declarations] 39582 | __pyx_t_6 = FDDY((__pyx_v_velocity->cobj[0]), (__pyx_v_field->cobj[0]), __pyx_v_outloc_, __pyx_v_method_, __pyx_v_region_); | ^ In file included from boutcore.cpp:848: /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/include/derivs.hxx:573:35: note: declared here 573 | VDERIV_FUNC_REGION_ENUM_TO_STRING(FDDY, Field3D, Field3D, Field3D) | ^~~~ /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/include/derivs.hxx:66:10: note: in definition of macro ‘VDERIV_FUNC_REGION_ENUM_TO_STRING’ 66 | inline T func(const T1& v, const T2& f, CELL_LOC outloc, const std::string& method, \ | ^~~~ boutcore.cpp: In function ‘PyObject* __pyx_pf_8boutcore_22DDZ(PyObject*, __pyx_obj_8boutcore_Field3D*, PyObject*, PyObject*, PyObject*)’: boutcore.cpp:39872:96: warning: ‘Field3D DDZ(const Field3D&, CELL_LOC, const string&, REGION)’ is deprecated: Please use #func(const #T& f, CELL_LOC outloc = CELL_DEFAULT, const std::string& method = "DEFAULT", const std::string& region = "RGN_ALL") instead [-Wdeprecated-declarations] 39872 | __pyx_t_6 = DDZ((__pyx_v_field->cobj[0]), __pyx_v_outloc_, __pyx_v_method_, __pyx_v_region_); | ^ In file included from boutcore.cpp:848: /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/include/derivs.hxx:159:34: note: declared here 159 | DERIV_FUNC_REGION_ENUM_TO_STRING(DDZ, Field3D) | ^~~ /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/include/derivs.hxx:46:10: note: in definition of macro ‘DERIV_FUNC_REGION_ENUM_TO_STRING’ 46 | inline T func(const T& f, CELL_LOC outloc, const std::string& method, \ | ^~~~ boutcore.cpp: In function ‘PyObject* __pyx_pf_8boutcore_24D2DZ2(PyObject*, __pyx_obj_8boutcore_Field3D*, PyObject*, PyObject*, PyObject*)’: boutcore.cpp:40162:98: warning: ‘Field3D D2DZ2(const Field3D&, CELL_LOC, const string&, REGION)’ is deprecated: Please use #func(const #T& f, CELL_LOC outloc = CELL_DEFAULT, const std::string& method = "DEFAULT", const std::string& region = "RGN_ALL") instead [-Wdeprecated-declarations] 40162 | __pyx_t_6 = D2DZ2((__pyx_v_field->cobj[0]), __pyx_v_outloc_, __pyx_v_method_, __pyx_v_region_); | ^ In file included from boutcore.cpp:848: /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/include/derivs.hxx:289:34: note: declared here 289 | DERIV_FUNC_REGION_ENUM_TO_STRING(D2DZ2, Field3D) | ^~~~~ /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/include/derivs.hxx:46:10: note: in definition of macro ‘DERIV_FUNC_REGION_ENUM_TO_STRING’ 46 | inline T func(const T& f, CELL_LOC outloc, const std::string& method, \ | ^~~~ boutcore.cpp: In function ‘PyObject* __pyx_pf_8boutcore_26VDDZ(PyObject*, __pyx_obj_8boutcore_Field3D*, __pyx_obj_8boutcore_Field3D*, PyObject*, PyObject*, PyObject*)’: boutcore.cpp:40464:126: warning: ‘Field3D VDDZ(const Field3D&, const Field3D&, CELL_LOC, const string&, REGION)’ is deprecated: Please use #func(const #T1 v, const #T2& f, CELL_LOC outloc = CELL_DEFAULT, const std::string& method = "DEFAULT", const std::string& region = "RGN_ALL") instead [-Wdeprecated-declarations] 40464 | __pyx_t_6 = VDDZ((__pyx_v_velocity->cobj[0]), (__pyx_v_field->cobj[0]), __pyx_v_outloc_, __pyx_v_method_, __pyx_v_region_); | ^ In file included from boutcore.cpp:848: /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/include/derivs.hxx:488:35: note: declared here 488 | VDERIV_FUNC_REGION_ENUM_TO_STRING(VDDZ, Field3D, Field3D, Field3D) | ^~~~ /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/include/derivs.hxx:66:10: note: in definition of macro ‘VDERIV_FUNC_REGION_ENUM_TO_STRING’ 66 | inline T func(const T1& v, const T2& f, CELL_LOC outloc, const std::string& method, \ | ^~~~ boutcore.cpp: In function ‘PyObject* __pyx_pf_8boutcore_28FDDZ(PyObject*, __pyx_obj_8boutcore_Field3D*, __pyx_obj_8boutcore_Field3D*, PyObject*, PyObject*, PyObject*)’: boutcore.cpp:40766:126: warning: ‘Field3D FDDZ(const Field3D&, const Field3D&, CELL_LOC, const string&, REGION)’ is deprecated: Please use #func(const #T1 v, const #T2& f, CELL_LOC outloc = CELL_DEFAULT, const std::string& method = "DEFAULT", const std::string& region = "RGN_ALL") instead [-Wdeprecated-declarations] 40766 | __pyx_t_6 = FDDZ((__pyx_v_velocity->cobj[0]), (__pyx_v_field->cobj[0]), __pyx_v_outloc_, __pyx_v_method_, __pyx_v_region_); | ^ In file included from boutcore.cpp:848: /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/include/derivs.hxx:607:35: note: declared here 607 | VDERIV_FUNC_REGION_ENUM_TO_STRING(FDDZ, Field3D, Field3D, Field3D) | ^~~~ /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/include/derivs.hxx:66:10: note: in definition of macro ‘VDERIV_FUNC_REGION_ENUM_TO_STRING’ 66 | inline T func(const T1& v, const T2& f, CELL_LOC outloc, const std::string& method, \ | ^~~~ boutcore.cpp: In function ‘PyObject* __Pyx_CyFunction_descr_get(PyObject*, PyObject*, PyObject*)’: boutcore.cpp:64265:86: warning: unused parameter ‘type’ [-Wunused-parameter] 64265 | static PyObject *__Pyx_CyFunction_descr_get(PyObject *func, PyObject *obj, PyObject *type) | ~~~~~~~~~~^~~~ boutcore.cpp: At global scope: boutcore.cpp:24946:45: warning: ‘__pyx_obj_8boutcore_Vector2D* __pyx_f_8boutcore_v2dFromObj(Vector2D)’ defined but not used [-Wunused-function] 24946 | static struct __pyx_obj_8boutcore_Vector2D *__pyx_f_8boutcore_v2dFromObj(Vector2D __pyx_v_i) { | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ boutcore.cpp: In function ‘__pyx_f_12resolve_enum_resolve_cell_loc(_object*)’: boutcore.cpp:49035:10: warning: ‘__pyx_r’ may be used uninitialized in this function [-Wmaybe-uninitialized] 49035 | return __pyx_r; | ^~~~~~~ boutcore.cpp: In function ‘__pyx_f_12resolve_enum_resolve_region(_object*)’: boutcore.cpp:49859:10: warning: ‘__pyx_r’ may be used uninitialized in this function [-Wmaybe-uninitialized] 49859 | return __pyx_r; | ^~~~~~~ boutcore.cpp: In function ‘__pyx_pw_8boutcore_45bracket(_object*, _object*, _object*)’: boutcore.cpp:42433:141: warning: ‘__pyx_r’ may be used uninitialized in this function [-Wmaybe-uninitialized] 42433 | __pyx_t_1 = ((PyObject *)__pyx_f_8boutcore_f3dFromObj(bracket((__pyx_v_a->cobj[0]), (__pyx_v_b->cobj[0]), __pyx_v_method_, __pyx_v_outloc_))); if (unlikely(!__pyx_t_1)) __PYX_ERR(0, 2555, __pyx_L1_error) | ^ boutcore.cpp:50546:18: note: ‘__pyx_r’ was declared here 50546 | BRACKET_METHOD __pyx_r; | ^~~~~~~ mpic++ -Wno-unused-result -Wsign-compare -DNDEBUG -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -fasynchronous-unwind-tables -fstack-clash-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -fasynchronous-unwind-tables -fstack-clash-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -fasynchronous-unwind-tables -fstack-clash-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/include -I/usr/include -I/usr/include -I. -I/usr/include/python3.9 -c boutexception_helper.cxx -o build/temp.linux-riscv64-3.9/boutexception_helper.o -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection -DHAS_PRETTY_FUNCTION -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -DSIGHANDLE -DLOGCOLOR -DBOUT_VERSION_STRING=4.3.1 -DBOUT_VERSION_DOUBLE=4.31 -DBACKTRACE -fPIC -DBOUT_HAS_FFTW -DNCDF4 -DHDF5 -DLAPACK -DBOUT_HAS_PVODE -DBOUT_HAS_GETTEXT -DBOUT_LOCALE_PATH=/usr/share/locale -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection -DHAS_PRETTY_FUNCTION -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -DSIGHANDLE -DLOGCOLOR -DBOUT_VERSION_STRING=4.3.1 -DBOUT_VERSION_DOUBLE=4.31 -DBACKTRACE -fPIC -DBOUT_HAS_FFTW -DNCDF4 -DHDF5 -DLAPACK -DBOUT_HAS_PVODE -DBOUT_HAS_GETTEXT -DBOUT_LOCALE_PATH=/usr/share/locale -DBOUT_FLAGS_STRING=-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection -DHAS_PRETTY_FUNCTION -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -DSIGHANDLE -DLOGCOLOR -DBOUT_VERSION_STRING=4.3.1 -DBOUT_VERSION_DOUBLE=4.31 -DBACKTRACE -fPIC -DBOUT_HAS_FFTW -DNCDF4 -DHDF5 -DLAPACK -DBOUT_HAS_PVODE -DBOUT_HAS_GETTEXT -DBOUT_LOCALE_PATH=/usr/share/locale -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection -DHAS_PRETTY_FUNCTION -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -DSIGHANDLE -DLOGCOLOR -DBOUT_VERSION_STRING=4.3.1 -DBOUT_VERSION_DOUBLE=4.31 -DBACKTRACE -fPIC -DBOUT_HAS_FFTW -DNCDF4 -DHDF5 -DLAPACK -DBOUT_HAS_PVODE -DBOUT_HAS_GETTEXT -DBOUT_LOCALE_PATH=/usr/share/locale mpic++ -Wno-unused-result -Wsign-compare -DNDEBUG -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -fasynchronous-unwind-tables -fstack-clash-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -fasynchronous-unwind-tables -fstack-clash-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -fasynchronous-unwind-tables -fstack-clash-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/include -I/usr/include -I/usr/include -I. -I/usr/include/python3.9 -c helper.cxx -o build/temp.linux-riscv64-3.9/helper.o -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection -DHAS_PRETTY_FUNCTION -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -DSIGHANDLE -DLOGCOLOR -DBOUT_VERSION_STRING=4.3.1 -DBOUT_VERSION_DOUBLE=4.31 -DBACKTRACE -fPIC -DBOUT_HAS_FFTW -DNCDF4 -DHDF5 -DLAPACK -DBOUT_HAS_PVODE -DBOUT_HAS_GETTEXT -DBOUT_LOCALE_PATH=/usr/share/locale -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection -DHAS_PRETTY_FUNCTION -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -DSIGHANDLE -DLOGCOLOR -DBOUT_VERSION_STRING=4.3.1 -DBOUT_VERSION_DOUBLE=4.31 -DBACKTRACE -fPIC -DBOUT_HAS_FFTW -DNCDF4 -DHDF5 -DLAPACK -DBOUT_HAS_PVODE -DBOUT_HAS_GETTEXT -DBOUT_LOCALE_PATH=/usr/share/locale -DBOUT_FLAGS_STRING=-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection -DHAS_PRETTY_FUNCTION -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -DSIGHANDLE -DLOGCOLOR -DBOUT_VERSION_STRING=4.3.1 -DBOUT_VERSION_DOUBLE=4.31 -DBACKTRACE -fPIC -DBOUT_HAS_FFTW -DNCDF4 -DHDF5 -DLAPACK -DBOUT_HAS_PVODE -DBOUT_HAS_GETTEXT -DBOUT_LOCALE_PATH=/usr/share/locale -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection -DHAS_PRETTY_FUNCTION -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -DSIGHANDLE -DLOGCOLOR -DBOUT_VERSION_STRING=4.3.1 -DBOUT_VERSION_DOUBLE=4.31 -DBACKTRACE -fPIC -DBOUT_HAS_FFTW -DNCDF4 -DHDF5 -DLAPACK -DBOUT_HAS_PVODE -DBOUT_HAS_GETTEXT -DBOUT_LOCALE_PATH=/usr/share/locale mpic++ -pthread -shared -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -g -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -g -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection build/temp.linux-riscv64-3.9/boutcore.o build/temp.linux-riscv64-3.9/boutexception_helper.o build/temp.linux-riscv64-3.9/helper.o -L/builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/lib -L/usr/lib64 -L/usr/lib64 -L/builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/lib -L/usr/lib64 -lm -lbout++ -ldl -lm -lfftw3 -lnetcdf_c++4 -lnetcdf -lhdf5_hl -lhdf5 -lhdf5_hl -lsz -lz -ldl -lm -lblas -llapack -lpvode -lpvpre -o /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/tools/pylib/_boutcore_build/boutcore.cpython-39-riscv64-linux-gnu.so -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld cp boutcore*.so .. make[2]: Leaving directory '/builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/tools/pylib/_boutcore_build' make[1]: Leaving directory '/builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/tools/pylib' ++ pwd + export LD_LIBRARY_PATH=/builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/lib + LD_LIBRARY_PATH=/builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/lib + make -j4 -C manual html make: Entering directory '/builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/manual' cd doxygen && doxygen Doxyfile warning: Tag 'TCL_SUBST' at line 247 of file 'Doxyfile' has become obsolete. To avoid this warning please remove this line from your configuration file or upgrade it using "doxygen -u" warning: Tag 'PERL_PATH' at line 2149 of file 'Doxyfile' has become obsolete. To avoid this warning please remove this line from your configuration file or upgrade it using "doxygen -u" warning: Tag 'MSCGEN_PATH' at line 2171 of file 'Doxyfile' has become obsolete. To avoid this warning please remove this line from your configuration file or upgrade it using "doxygen -u" warning: argument 'a4wide' for option PAPER_TYPE is not a valid enum value Using the default: a4! Doxygen version used: 1.8.18 Notice: Output directory 'bout' does not exist. I have created it for you. Searching for include files... Searching for example files... Searching for images... Searching for dot files... Searching for msc files... Searching for dia files... 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files Parsing files Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/include/boundary_factory.hxx... 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Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/include/gyro_average.hxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/include/gyro_average.hxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/include/initialprofiles.hxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/include/initialprofiles.hxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/include/interpolation.hxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/include/interpolation.hxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/include/interpolation_factory.hxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/include/interpolation_factory.hxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/include/invert_laplace.hxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/include/invert_laplace.hxx... 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Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/include/options.hxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/include/options_netcdf.hxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/include/options_netcdf.hxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/include/optionsreader.hxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/include/optionsreader.hxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/include/output.hxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/include/output.hxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/include/parallel_boundary_op.hxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/include/parallel_boundary_op.hxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/include/parallel_boundary_region.hxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/include/parallel_boundary_region.hxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/include/pvode/band.h... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/include/pvode/band.h... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/include/pvode/cvdiag.h... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/include/pvode/cvdiag.h... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/include/pvode/cvode.h... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/include/pvode/cvode.h... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/include/pvode/cvspgmr.h... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/include/pvode/cvspgmr.h... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/include/pvode/iterativ.h... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/include/pvode/iterativ.h... 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Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/field/field_factory.cxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/field/fieldgenerators.cxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/field/fieldgenerators.cxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/field/fieldgenerators.hxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/field/fieldgenerators.hxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/field/fieldgroup.cxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/field/fieldgroup.cxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/field/fieldperp.cxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/field/fieldperp.cxx... Reading /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/field/gen_fieldops.py... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/field/gen_fieldops.py... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/field/generated_fieldops.cxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/field/generated_fieldops.cxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/field/globalfield.cxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/field/globalfield.cxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/field/initialprofiles.cxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/field/initialprofiles.cxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/field/vecops.cxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/field/vecops.cxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/field/vector2d.cxx... 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Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/fileio/impls/pnetcdf/pnetcdf.hxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/fileio/impls/pnetcdf/pnetcdf.hxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/invert/fft_fftw.cxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/invert/fft_fftw.cxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/invert/lapack_routines.cxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/invert/lapack_routines.cxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/invert/laplace/impls/cyclic/cyclic_laplace.cxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/invert/laplace/impls/cyclic/cyclic_laplace.cxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/invert/laplace/impls/cyclic/cyclic_laplace.hxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/invert/laplace/impls/cyclic/cyclic_laplace.hxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/invert/laplace/impls/multigrid/multigrid_alg.cxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/invert/laplace/impls/multigrid/multigrid_alg.cxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/invert/laplace/impls/multigrid/multigrid_laplace.cxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/invert/laplace/impls/multigrid/multigrid_laplace.cxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/invert/laplace/impls/multigrid/multigrid_laplace.hxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/invert/laplace/impls/multigrid/multigrid_laplace.hxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/invert/laplace/impls/multigrid/multigrid_solver.cxx... 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Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/invert/laplace/impls/naulin/naulin_laplace.hxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/invert/laplace/impls/pdd/pdd.cxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/invert/laplace/impls/pdd/pdd.cxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/invert/laplace/impls/pdd/pdd.hxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/invert/laplace/impls/pdd/pdd.hxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/invert/laplace/impls/petsc/petsc_laplace.cxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/invert/laplace/impls/petsc/petsc_laplace.cxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/invert/laplace/impls/petsc/petsc_laplace.hxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/invert/laplace/impls/petsc/petsc_laplace.hxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/invert/laplace/impls/serial_band/serial_band.cxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/invert/laplace/impls/serial_band/serial_band.cxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/invert/laplace/impls/serial_band/serial_band.hxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/invert/laplace/impls/serial_band/serial_band.hxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/invert/laplace/impls/serial_tri/serial_tri.cxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/invert/laplace/impls/serial_tri/serial_tri.cxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/invert/laplace/impls/serial_tri/serial_tri.hxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/invert/laplace/impls/serial_tri/serial_tri.hxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/invert/laplace/impls/shoot/shoot_laplace.cxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/invert/laplace/impls/shoot/shoot_laplace.cxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/invert/laplace/impls/shoot/shoot_laplace.hxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/invert/laplace/impls/shoot/shoot_laplace.hxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/invert/laplace/impls/spt/spt.cxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/invert/laplace/impls/spt/spt.cxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/invert/laplace/impls/spt/spt.hxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/invert/laplace/impls/spt/spt.hxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/invert/laplace/invert_laplace.cxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/invert/laplace/invert_laplace.cxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/invert/laplace/laplacefactory.cxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/invert/laplace/laplacefactory.cxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/invert/laplace/laplacefactory.hxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/invert/laplace/laplacefactory.hxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/invert/laplacexy/laplacexy.cxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/invert/laplacexy/laplacexy.cxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/invert/laplacexz/impls/cyclic/laplacexz-cyclic.cxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/invert/laplacexz/impls/cyclic/laplacexz-cyclic.cxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/invert/laplacexz/impls/cyclic/laplacexz-cyclic.hxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/invert/laplacexz/impls/cyclic/laplacexz-cyclic.hxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/invert/laplacexz/impls/petsc/laplacexz-petsc.cxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/invert/laplacexz/impls/petsc/laplacexz-petsc.cxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/invert/laplacexz/impls/petsc/laplacexz-petsc.hxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/invert/laplacexz/impls/petsc/laplacexz-petsc.hxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/invert/laplacexz/laplacexz.cxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/invert/laplacexz/laplacexz.cxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/invert/parderiv/impls/cyclic/cyclic.cxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/invert/parderiv/impls/cyclic/cyclic.cxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/invert/parderiv/impls/cyclic/cyclic.hxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/invert/parderiv/impls/cyclic/cyclic.hxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/invert/parderiv/invert_parderiv.cxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/invert/parderiv/invert_parderiv.cxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/invert/parderiv/parderiv_factory.cxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/invert/parderiv/parderiv_factory.cxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/invert/parderiv/parderiv_factory.hxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/invert/parderiv/parderiv_factory.hxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/mesh/boundary_factory.cxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/mesh/boundary_factory.cxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/mesh/boundary_region.cxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/mesh/boundary_region.cxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/mesh/boundary_standard.cxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/mesh/boundary_standard.cxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/mesh/coordinates.cxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/mesh/coordinates.cxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/mesh/data/gridfromfile.cxx... 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Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/mesh/impls/bout/boutmesh.hxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/mesh/index_derivs.cxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/mesh/index_derivs.cxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/mesh/interpolation/bilinear.cxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/mesh/interpolation/bilinear.cxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/mesh/interpolation/hermite_spline.cxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/mesh/interpolation/hermite_spline.cxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/mesh/interpolation/interpolation_factory.cxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/mesh/interpolation/interpolation_factory.cxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/mesh/interpolation/lagrange_4pt.cxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/mesh/interpolation/lagrange_4pt.cxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/mesh/interpolation/monotonic_hermite_spline.cxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/mesh/interpolation/monotonic_hermite_spline.cxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/mesh/interpolation.cxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/mesh/interpolation.cxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/mesh/mesh.cxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/mesh/mesh.cxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/mesh/meshfactory.cxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/mesh/meshfactory.cxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/mesh/meshfactory.hxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/mesh/meshfactory.hxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/mesh/parallel/fci.cxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/mesh/parallel/fci.cxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/mesh/parallel/fci.hxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/mesh/parallel/fci.hxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/mesh/parallel/identity.cxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/mesh/parallel/identity.cxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/mesh/parallel/shiftedmetric.cxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/mesh/parallel/shiftedmetric.cxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/mesh/parallel_boundary_op.cxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/mesh/parallel_boundary_op.cxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/mesh/parallel_boundary_region.cxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/mesh/parallel_boundary_region.cxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/mesh/surfaceiter.cxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/mesh/surfaceiter.cxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/physics/gyro_average.cxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/physics/gyro_average.cxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/physics/physicsmodel.cxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/physics/physicsmodel.cxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/physics/smoothing.cxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/physics/smoothing.cxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/physics/snb.cxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/physics/snb.cxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/physics/sourcex.cxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/physics/sourcex.cxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/solver/impls/arkode/arkode.cxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/solver/impls/arkode/arkode.cxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/solver/impls/arkode/arkode.hxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/solver/impls/arkode/arkode.hxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/solver/impls/cvode/cvode.cxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/solver/impls/cvode/cvode.cxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/solver/impls/cvode/cvode.hxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/solver/impls/cvode/cvode.hxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/solver/impls/euler/euler.cxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/solver/impls/euler/euler.cxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/solver/impls/euler/euler.hxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/solver/impls/euler/euler.hxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/solver/impls/ida/ida.cxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/solver/impls/ida/ida.cxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/solver/impls/ida/ida.hxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/solver/impls/ida/ida.hxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/solver/impls/imex-bdf2/imex-bdf2.cxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/solver/impls/imex-bdf2/imex-bdf2.cxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/solver/impls/imex-bdf2/imex-bdf2.hxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/solver/impls/imex-bdf2/imex-bdf2.hxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/solver/impls/karniadakis/karniadakis.cxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/solver/impls/karniadakis/karniadakis.cxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/solver/impls/karniadakis/karniadakis.hxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/solver/impls/karniadakis/karniadakis.hxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/solver/impls/petsc/petsc.cxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/solver/impls/petsc/petsc.cxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/solver/impls/petsc/petsc.hxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/solver/impls/petsc/petsc.hxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/solver/impls/power/power.cxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/solver/impls/power/power.cxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/solver/impls/power/power.hxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/solver/impls/power/power.hxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/solver/impls/pvode/pvode.cxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/solver/impls/pvode/pvode.cxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/solver/impls/pvode/pvode.hxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/solver/impls/pvode/pvode.hxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/solver/impls/rk3-ssp/rk3-ssp.cxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/solver/impls/rk3-ssp/rk3-ssp.cxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/solver/impls/rk3-ssp/rk3-ssp.hxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/solver/impls/rk3-ssp/rk3-ssp.hxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/solver/impls/rk4/rk4.cxx... 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Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/solver/impls/rkgeneric/impls/rk4simple/rk4simple.cxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/solver/impls/rkgeneric/impls/rk4simple/rk4simple.hxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/solver/impls/rkgeneric/impls/rk4simple/rk4simple.hxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/solver/impls/rkgeneric/impls/rkf34/rkf34.cxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/solver/impls/rkgeneric/impls/rkf34/rkf34.cxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/solver/impls/rkgeneric/impls/rkf34/rkf34.hxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/solver/impls/rkgeneric/impls/rkf34/rkf34.hxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/solver/impls/rkgeneric/impls/rkf45/rkf45.cxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/solver/impls/rkgeneric/impls/rkf45/rkf45.cxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/solver/impls/rkgeneric/impls/rkf45/rkf45.hxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/solver/impls/rkgeneric/impls/rkf45/rkf45.hxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/solver/impls/rkgeneric/rkgeneric.cxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/solver/impls/rkgeneric/rkgeneric.cxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/solver/impls/rkgeneric/rkgeneric.hxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/solver/impls/rkgeneric/rkgeneric.hxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/solver/impls/rkgeneric/rkscheme.cxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/solver/impls/rkgeneric/rkscheme.cxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/solver/impls/rkgeneric/rkschemefactory.cxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/solver/impls/rkgeneric/rkschemefactory.cxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/solver/impls/rkgeneric/rkschemefactory.hxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/solver/impls/rkgeneric/rkschemefactory.hxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/solver/impls/slepc/slepc.cxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/solver/impls/slepc/slepc.cxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/solver/impls/slepc/slepc.hxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/solver/impls/slepc/slepc.hxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/solver/impls/snes/snes.cxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/solver/impls/snes/snes.cxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/solver/impls/snes/snes.hxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/solver/impls/snes/snes.hxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/solver/impls/split-rk/split-rk.cxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/solver/impls/split-rk/split-rk.cxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/solver/impls/split-rk/split-rk.hxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/solver/impls/split-rk/split-rk.hxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/solver/solver.cxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/solver/solver.cxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/solver/solverfactory.cxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/solver/solverfactory.cxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/sys/bout_types.cxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/sys/bout_types.cxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/sys/boutcomm.cxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/sys/boutcomm.cxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/sys/boutexception.cxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/sys/boutexception.cxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/sys/derivs.cxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/sys/derivs.cxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/sys/expressionparser.cxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/sys/expressionparser.cxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/sys/msg_stack.cxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/sys/msg_stack.cxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/sys/options/optionparser.hxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/sys/options/optionparser.hxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/sys/options/options_ini.cxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/sys/options/options_ini.cxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/sys/options/options_ini.hxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/sys/options/options_ini.hxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/sys/options/options_netcdf.cxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/sys/options/options_netcdf.cxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/sys/options.cxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/sys/options.cxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/sys/optionsreader.cxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/sys/optionsreader.cxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/sys/output.cxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/sys/output.cxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/sys/petsclib.cxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/sys/petsclib.cxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/sys/range.cxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3./builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/include/bout/generic_factory.hxx:1: warning: the name 'Base' supplied as the argument in the \file statement is not an input file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/fileio/impls/netcdf/nc_format.cxx:347: warning: no uniquely matching class member found for const vector< int > NcFormat::getSize(const string &var) Possible candidates: 'const std::vector< int > NcFormat::getSize(const char *var) override' at line 77 of file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/fileio/impls/netcdf/nc_format.hxx 'const std::vector< int > NcFormat::getSize(const std::string &var) override' at line 78 of file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/fileio/impls/netcdf/nc_format.hxx /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/fileio/impls/netcdf/nc_format.cxx:558: warning: no uniquely matching class member found for bool NcFormat::read(int *var, const string &name, int lx, int ly, int lz) Possible candidates: 'bool NcFormat::read(int *var, const char *name, int lx=1, int ly=0, int lz=0) override' at line 97 of file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/fileio/impls/netcdf/nc_format.hxx 'bool NcFormat::read(int *var, const std::string &name, int lx=1, int ly=0, int lz=0) override' at line 98 of file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/fileio/impls/netcdf/nc_format.hxx 'bool NcFormat::read(BoutReal *var, const char *name, int lx=1, int ly=0, int lz=0) override' at line 99 of file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/fileio/impls/netcdf/nc_format.hxx 'bool NcFormat::read(BoutReal *var, const std::string &name, int lx=1, int ly=0, int lz=0) override' at line 100 of file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/fileio/impls/netcdf/nc_format.hxx /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/fileio/impls/netcdf/nc_format.cxx:599: warning: no uniquely matching class member found for bool NcFormat::read(BoutReal *var, const string &name, int lx, int ly, int lz) Possible candidates: 'bool NcFormat::read(int *var, const char *name, int lx=1, int ly=0, int lz=0) override' at line 97 of file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/fileio/impls/netcdf/nc_format.hxx 'bool NcFormat::read(int *var, const std::string &name, int lx=1, int ly=0, int lz=0) override' at line 98 of file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/fileio/impls/netcdf/nc_format.hxx 'bool NcFormat::read(BoutReal *var, const char *name, int lx=1, int ly=0, int lz=0) override' at line 99 of file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/fileio/impls/netcdf/nc_format.hxx 'bool NcFormat::read(BoutReal *var, const std::string &name, int lx=1, int ly=0, int lz=0) override' at line 100 of file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/fileio/impls/netcdf/nc_format.hxx /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/fileio/impls/netcdf/nc_format.cxx:677: warning: no uniquely matching class member found for bool NcFormat::write(int *var, const string &name, int lx, int ly, int lz) Possible candidates: 'bool NcFormat::write(int *var, const char *name, int lx=0, int ly=0, int lz=0) override' at line 103 of file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/fileio/impls/netcdf/nc_format.hxx 'bool NcFormat::write(int *var, const std::string &name, int lx=0, int ly=0, int lz=0) override' at line 104 of file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/fileio/impls/netcdf/nc_format.hxx 'bool NcFormat::write(BoutReal *var, const char *name, int lx=0, int ly=0, int lz=0) override' at line 105 of file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/fileio/impls/netcdf/nc_format.hxx 'bool NcFormat::write(BoutReal *var, const std::string &name, int lx=0, int ly=0, int lz=0) override' at line 106 of file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/fileio/impls/netcdf/nc_format.hxx /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/fileio/impls/netcdf/nc_format.cxx:739: warning: no uniquely matching class member found for bool NcFormat::write(BoutReal *var, const string &name, int lx, int ly, int lz) Possible candidates: 'bool NcFormat::write(int *var, const char *name, int lx=0, int ly=0, int lz=0) override' at line 103 of file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/fileio/impls/netcdf/nc_format.hxx 'bool NcFormat::write(int *var, const std::string &name, int lx=0, int ly=0, int lz=0) override' at line 104 of file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/fileio/impls/netcdf/nc_format.hxx 'bool NcFormat::write(BoutReal *var, const char *name, int lx=0, int ly=0, int lz=0) override' at line 105 of file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/fileio/impls/netcdf/nc_format.hxx 'bool NcFormat::write(BoutReal *var, const std::string &name, int lx=0, int ly=0, int lz=0) override' at line 106 of file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/fileio/impls/netcdf/nc_format.hxx /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/fileio/impls/netcdf/nc_format.cxx:841: warning: no uniquely matching class member found for bool NcFormat::read_rec(int *var, const string &name, int lx, int ly, int lz) Possible candidates: 'bool NcFormat::read_rec(int *var, const char *name, int lx=1, int ly=0, int lz=0) override' at line 111 of file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/fileio/impls/netcdf/nc_format.hxx 'bool NcFormat::read_rec(int *var, const std::string &name, int lx=1, int ly=0, int lz=0) override' at line 112 of file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/fileio/impls/netcdf/nc_format.hxx 'bool NcFormat::read_rec(BoutReal *var, const char *name, int lx=1, int ly=0, int lz=0) override' at line 113 of file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/fileio/impls/netcdf/nc_format.hxx 'bool NcFormat::read_rec(BoutReal *var, const std::string &name, int lx=1, int ly=0, int lz=0) override' at line 114 of file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/fileio/impls/netcdf/nc_format.hxx /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/fileio/impls/netcdf/nc_format.cxx:882: warning: no uniquely matching class member found for bool NcFormat::read_rec(BoutReal *var, const string &name, int lx, int ly, int lz) Possible candidates: 'bool NcFormat::read_rec(int *var, const char *name, int lx=1, int ly=0, int lz=0) override' at line 111 of file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/fileio/impls/netcdf/nc_format.hxx 'bool NcFormat::read_rec(int *var, const std::string &name, int lx=1, int ly=0, int lz=0) override' at line 112 of file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/fileio/impls/netcdf/nc_format.hxx 'bool NcFormat::read_rec(BoutReal *var, const char *name, int lx=1, int ly=0, int lz=0) override' at line 113 of file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/fileio/impls/netcdf/nc_format.hxx 'bool NcFormat::read_rec(BoutReal *var, const std::string &name, int lx=1, int ly=0, int lz=0) override' at line 114 of file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/fileio/impls/netcdf/nc_format.hxx /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/fileio/impls/netcdf/nc_format.cxx:964: warning: no uniquely matching class member found for bool NcFormat::write_rec(int *var, const string &name, int lx, int ly, int lz) Possible candidates: 'bool NcFormat::write_rec(int *var, const char *name, int lx=0, int ly=0, int lz=0) override' at line 117 of file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/fileio/impls/netcdf/nc_format.hxx 'bool NcFormat::write_rec(int *var, const std::string &name, int lx=0, int ly=0, int lz=0) override' at line 118 of file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/fileio/impls/netcdf/nc_format.hxx 'bool NcFormat::write_rec(BoutReal *var, const char *name, int lx=0, int ly=0, int lz=0) override' at line 119 of file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/fileio/impls/netcdf/nc_format.hxx 'bool NcFormat::write_rec(BoutReal *var, const std::string &name, int lx=0, int ly=0, int lz=0) override' at line 120 of file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/fileio/impls/netcdf/nc_format.hxx /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/fileio/impls/netcdf/nc_format.cxx:1039: warning: no uniquely matching class member found for bool NcFormat::write_rec(BoutReal *var, const string &name, int lx, int ly, int lz) Possible candidates: 'bool NcFormat::write_rec(int *var, const char *name, int lx=0, int ly=0, int lz=0) override' at line 117 of file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/fileio/impls/netcdf/nc_format.hxx 'bool NcFormat::write_rec(int *var, const std::string &name, int lx=0, int ly=0, int lz=0) override' at line 118 of file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/fileio/impls/netcdf/nc_format.hxx 'bool NcFormat::write_rec(BoutReal *var, const char *name, int lx=0, int ly=0, int lz=0) override' at line 119 of file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/fileio/impls/netcdf/nc_format.hxx 'bool NcFormat::write_rec(BoutReal *var, const std::string &name, int lx=0, int ly=0, int lz=0) override' at line 120 of file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/fileio/impls/netcdf/nc_format.hxx /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/fileio/impls/pnetcdf/pnetcdf.cxx:295: warning: no uniquely matching class member found for bool PncFormat::read(int *var, const string &name, int lx, int ly, int lz) Possible candidates: 'bool PncFormat::read(int *var, const char *name, int lx=1, int ly=0, int lz=0) override' at line 84 of file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/fileio/impls/pnetcdf/pnetcdf.hxx 'bool PncFormat::read(int *var, const std::string &name, int lx=1, int ly=0, int lz=0) override' at line 85 of file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/fileio/impls/pnetcdf/pnetcdf.hxx 'bool PncFormat::read(BoutReal *var, const char *name, int lx=1, int ly=0, int lz=0) override' at line 86 of file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/fileio/impls/pnetcdf/pnetcdf.hxx 'bool PncFormat::read(BoutReal *var, const std::string &name, int lx=1, int ly=0, int lz=0) override' at line 87 of file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/fileio/impls/pnetcdf/pnetcdf.hxx /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/fileio/impls/pnetcdf/pnetcdf.cxx:354: warning: no uniquely matching class member found for bool PncFormat::read(BoutReal *var, const string &name, int lx, int ly, int lz) Possible candidates: 'bool PncFormat::read(int *var, const char *name, int lx=1, int ly=0, int lz=0) override' at line 84 of file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/fileio/impls/pnetcdf/pnetcdf.hxx 'bool PncFormat::read(int *var, const std::string &name, int lx=1, int ly=0, int lz=0) override' at line 85 of file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/fileio/impls/pnetcdf/pnetcdf.hxx 'bool PncFormat::read(BoutReal *var, const char *name, int lx=1, int ly=0, int lz=0) override' at line 86 of file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/fileio/impls/pnetcdf/pnetcdf.hxx 'bool PncFormat::read(BoutReal *var, const std::string &name, int lx=1, int ly=0, int lz=0) override' at line 87 of file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/fileio/impls/pnetcdf/pnetcdf.hxx /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/fileio/impls/pnetcdf/pnetcdf.cxx:402: warning: no uniquely matching class member found for bool PncFormat::write(int *var, const string &name, int lx, int ly, int lz) Possible candidates: 'bool PncFormat::write(int *var, const char *name, int lx=0, int ly=0, int lz=0) override' at line 89 of file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/fileio/impls/pnetcdf/pnetcdf.hxx 'bool PncFormat::write(int *var, const std::string &name, int lx=0, int ly=0, int lz=0) override' at line 90 of file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/fileio/impls/pnetcdf/pnetcdf.hxx 'bool PncFormat::write(BoutReal *var, const char *name, int lx=0, int ly=0, int lz=0) override' at line 91 of file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/fileio/impls/pnetcdf/pnetcdf.hxx 'bool PncFormat::write(BoutReal *var, const std::string &name, int lx=0, int ly=0, int lz=0) override' at line 92 of file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/fileio/impls/pnetcdf/pnetcdf.hxx /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/fileio/impls/pnetcdf/pnetcdf.cxx:488: warning: no uniquely matching class member found for bool PncFormat::write(BoutReal *var, const string &name, int lx, int ly, int lz) Possible candidates: 'bool PncFormat::write(int *var, const char *name, int lx=0, int ly=0, int lz=0) override' at line 89 of file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/fileio/impls/pnetcdf/pnetcdf.hxx 'bool PncFormat::write(int *var, const std::string &name, int lx=0, int ly=0, int lz=0) override' at line 90 of file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/fileio/impls/pnetcdf/pnetcdf.hxx 'bool PncFormat::write(BoutReal *var, const char *name, int lx=0, int ly=0, int lz=0) override' at line 91 of file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/fileio/impls/pnetcdf/pnetcdf.hxx 'bool PncFormat::write(BoutReal *var, const std::string &name, int lx=0, int ly=0, int lz=0) override' at line 92 of file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/fileio/impls/pnetcdf/pnetcdf.hxx /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/fileio/impls/pnetcdf/pnetcdf.cxx:524: warning: no uniquely matching class member found for bool PncFormat::read_rec(int *var, const string &name, int lx, int ly, int lz) Possible candidates: 'bool PncFormat::read_rec(int *var, const char *name, int lx=1, int ly=0, int lz=0) override' at line 96 of file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/fileio/impls/pnetcdf/pnetcdf.hxx 'bool PncFormat::read_rec(int *var, const std::string &name, int lx=1, int ly=0, int lz=0) override' at line 97 of file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/fileio/impls/pnetcdf/pnetcdf.hxx 'bool PncFormat::read_rec(BoutReal *var, const char *name, int lx=1, int ly=0, int lz=0) override' at line 98 of file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/fileio/impls/pnetcdf/pnetcdf.hxx 'bool PncFormat::read_rec(BoutReal *var, const std::string &name, int lx=1, int ly=0, int lz=0) override' at line 99 of file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/fileio/impls/pnetcdf/pnetcdf.hxx /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/fileio/impls/pnetcdf/pnetcdf.cxx:556: warning: no uniquely matching class member found for bool PncFormat::read_rec(BoutReal *var, const string &name, int lx, int ly, int lz) Possible candidates: 'bool PncFormat::read_rec(int *var, const char *name, int lx=1, int ly=0, int lz=0) override' at line 96 of file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/fileio/impls/pnetcdf/pnetcdf.hxx 'bool PncFormat::read_rec(int *var, const std::string &name, int lx=1, int ly=0, int lz=0) override' at line 97 of file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/fileio/impls/pnetcdf/pnetcdf.hxx 'bool PncFormat::read_rec(BoutReal *var, const char *name, int lx=1, int ly=0, int lz=0) override' at line 98 of file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/fileio/impls/pnetcdf/pnetcdf.hxx 'bool PncFormat::read_rec(BoutReal *var, const std::string &name, int lx=1, int ly=0, int lz=0) override' at line 99 of file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/fileio/impls/pnetcdf/pnetcdf.hxx /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/fileio/impls/pnetcdf/pnetcdf.cxx:605: warning: no uniquely matching class member found for bool PncFormat::write_rec(int *var, const string &name, int lx, int ly, int lz) Possible candidates: 'bool PncFormat::write_rec(int *var, const char *name, int lx=0, int ly=0, int lz=0) override' at line 101 of file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/fileio/impls/pnetcdf/pnetcdf.hxx 'bool PncFormat::write_rec(int *var, const std::string &name, int lx=0, int ly=0, int lz=0) override' at line 102 of file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/fileio/impls/pnetcdf/pnetcdf.hxx 'bool PncFormat::write_rec(BoutReal *var, const char *name, int lx=0, int ly=0, int lz=0) override' at line 103 of file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/fileio/impls/pnetcdf/pnetcdf.hxx 'bool PncFormat::write_rec(BoutReal *var, const std::string &name, int lx=0, int ly=0, int lz=0) override' at line 104 of file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/fileio/impls/pnetcdf/pnetcdf.hxx /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/fileio/impls/pnetcdf/pnetcdf.cxx:681: warning: no uniquely matching class member found for bool PncFormat::write_rec(BoutReal *var, const string &name, int lx, int ly, int lz) Possible candidates: 'bool PncFormat::write_rec(int *var, const char *name, int lx=0, int ly=0, int lz=0) override' at line 101 of file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/fileio/impls/pnetcdf/pnetcdf.hxx 'bool PncFormat::write_rec(int *var, const std::string &name, int lx=0, int ly=0, int lz=0) override' at line 102 of file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/fileio/impls/pnetcdf/pnetcdf.hxx 'bool PncFormat::write_rec(BoutReal *var, const char *name, int lx=0, int ly=0, int lz=0) override' at line 103 of file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/fileio/impls/pnetcdf/pnetcdf.hxx 'bool PncFormat::write_rec(BoutReal *var, const std::string &name, int lx=0, int ly=0, int lz=0) override' at line 104 of file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/fileio/impls/pnetcdf/pnetcdf.hxx /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/mesh/boundary_factory.cxx:80: warning: no uniquely matching class member found for BoundaryOpBase * BoundaryFactory::create(const string &name, BoundaryRegionBase *region) Possible candidates: 'BoundaryOpBase * BoundaryFactory::create(const std::string &name, BoundaryRegionBase *region)' at line 70 of file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/include/boundary_factory.hxx 'BoundaryOpBase * BoundaryFactory::create(const char *name, BoundaryRegionBase *region)' at line 71 of file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/include/boundary_factory.hxx /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/mesh/boundary_factory.cxx:210: warning: no matching class member found for BoundaryOpBase * BoundaryFactory::createFromOptions(const string &varname, BoundaryRegionBase *region) Possible candidates: 'BoundaryOpBase * BoundaryFactory::createFromOptions(const std::string &varname, BoundaryRegionBase *region)' 'BoundaryOpBase * BoundaryFactory::createFromOptions(const char *varname, BoundaryRegionBase *region)' /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/mesh/boundary_factory.cxx:313: warning: no uniquely matching class member found for void BoundaryFactory::add(BoundaryOp *bop, const string &name) Possible candidates: 'void BoundaryFactory::add(BoundaryOp *bop, const std::string &name)' at line 81 of file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/include/boundary_factory.hxx 'void BoundaryFactory::add(BoundaryOp *bop, const char *name)' at line 88 of file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/include/boundary_factory.hxx 'void BoundaryFactory::add(BoundaryOpPar *bop, const std::string &name)' at line 101 of file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/include/boundary_factory.hxx 'void BoundaryFactory::add(BoundaryOpPar *bop, const char *name)' at line 102 of file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/include/boundary_factory.hxx /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/mesh/boundary_factory.cxx:326: warning: no uniquely matching class member found for void BoundaryFactory::add(BoundaryOpPar *bop, const string &name) Possible candidates: 'void BoundaryFactory::add(BoundaryOp *bop, const std::string &name)' at line 81 of file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/include/boundary_factory.hxx 'void BoundaryFactory::add(BoundaryOp *bop, const char *name)' at line 88 of file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/include/boundary_factory.hxx 'void BoundaryFactory::add(BoundaryOpPar *bop, const std::string &name)' at line 101 of file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/include/boundary_factory.hxx 'void BoundaryFactory::add(BoundaryOpPar *bop, const char *name)' at line 102 of file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/include/boundary_factory.hxx /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/mesh/boundary_factory.cxx:339: warning: no matching class member found for void BoundaryFactory::addMod(BoundaryModifier *bmod, const string &name) Possible candidates: 'void BoundaryFactory::addMod(BoundaryModifier *bmod, const std::string &name)' 'void BoundaryFactory::addMod(BoundaryModifier *bmod, const char *name)' /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/mesh/coordinates.cxx:1229: warning: no matching class member found for Field2D Coordinates::DDZ(MAYBE_UNUSED(const Field2D &f), CELL_LOC loc, const std::string &method, const std::string ®ion) Possible candidates: 'Field2D Coordinates::DDZ(const Field2D &f, CELL_LOC outloc=CELL_DEFAULT, const std::string &method="DEFAULT", const std::string ®ion="RGN_NOBNDRY")' 'Field2D Coordinates::DDZ(const Field2D &f, CELL_LOC outloc, const std::string &method, REGION region)' 'Field2D Coordinates::DDZ(const Field2D &f, CELL_LOC outloc, DIFF_METHOD method, REGION region=RGN_NOBNDRY)' /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/mesh/coordinates.cxx:1244: warning: no matching class member found for Field2D Coordinates::Grad_par(const Field2D &var, MAYBE_UNUSED(CELL_LOC outloc), const std::string &method) Possible candidates: 'Field2D Coordinates::Grad_par(const Field2D &var, CELL_LOC outloc=CELL_DEFAULT, const std::string &method="DEFAULT")' 'Field2D Coordinates::Grad_par(const Field2D &f, CELL_LOC outloc, DIFF_METHOD method)' 'Field3D Coordinates::Grad_par(const Field3D &var, CELL_LOC outloc=CELL_DEFAULT, const std::string &method="DEFAULT")' 'Field3D Coordinates::Grad_par(const Field3D &f, CELL_LOC outloc, DIFF_METHOD method)' /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/mesh/coordinates.cxx:1265: warning: no matching class member found for Field2D Coordinates::Vpar_Grad_par(const Field2D &v, const Field2D &f, MAYBE_UNUSED(CELL_LOC outloc), const std::string &method) Possible candidates: 'Field2D Coordinates::Vpar_Grad_par(const Field2D &v, const Field2D &f, CELL_LOC outloc=CELL_DEFAULT, const std::string &method="DEFAULT")' 'Field2D Coordinates::Vpar_Grad_par(const Field2D &v, const Field2D &f, CELL_LOC outloc, DIFF_METHOD method)' 'Field3D Coordinates::Vpar_Grad_par(const Field3D &v, const Field3D &f, CELL_LOC outloc=CELL_DEFAULT, const std::string &method="DEFAULT")' 'Field3D Coordinates::Vpar_Grad_par(const Field3D &v, const Field3D &f, CELL_LOC outloc, DIFF_METHOD method)' /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/mesh/index_derivs.cxx:59: warning: no matching class member found for STAGGER Mesh::getStagger(const CELL_LOC vloc, MAYBE_UNUSED(const CELL_LOC inloc), const CELL_LOC outloc, const CELL_LOC allowedStaggerLoc) const Possible candidates: 'STAGGER Mesh::getStagger(const CELL_LOC inloc, const CELL_LOC outloc, const CELL_LOC allowedloc) const' 'STAGGER Mesh::getStagger(const CELL_LOC vloc, const CELL_LOC inloc, const CELL_LOC outloc, const CELL_LOC allowedloc) const' sh: latex: command not found error: Problems running latex. Check your installation or look for typos in _formulas.tex and check _formulas.log! sh: dvips: command not found error: Problems running dvips. Check your installation! 1/build_openmpi/src/sys/range.cxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/sys/slepclib.cxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/sys/slepclib.cxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/sys/timer.cxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/sys/timer.cxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/sys/type_name.cxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/sys/type_name.cxx... Preprocessing /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/sys/utils.cxx... Parsing file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/sys/utils.cxx... Building group list... Building directory list... Building namespace list... Building file list... Building class list... Computing nesting relations for classes... Associating documentation with classes... Building example list... Searching for enumerations... Searching for documented typedefs... Searching for members imported via using declarations... Searching for included using directives... Searching for documented variables... Building interface member list... Building member list... Searching for friends... Searching for documented defines... Computing class inheritance relations... Computing class usage relations... Flushing cached template relations that have become invalid... Computing class relations... Add enum values to enums... Searching for member function documentation... Creating members for template instances... Building page list... Search for main page... Computing page relations... Determining the scope of groups... Sorting lists... Determining which enums are documented Computing member relations... Building full member lists recursively... Adding members to member groups. Computing member references... Inheriting documentation... Generating disk names... Adding source references... Adding xrefitems... Sorting member lists... Setting anonymous enum type... Computing dependencies between directories... Generating citations page... Counting members... Counting data structures... Resolving user defined references... Finding anchors and sections in the documentation... Transferring function references... Combining using relations... Adding members to index pages... Correcting members for VHDL... Generating style sheet... Generating search indices... Generating images for formulas in HTML... Generating image form_0.png for formula Generating example documentation... Generating file sources... Generating file documentation... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/include/boundary_factory.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/include/boundary_op.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/include/boundary_region.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/include/boundary_standard.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/include/bout.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/include/bout/array.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/include/bout/assert.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/include/bout/constants.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/include/bout/coordinates.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/include/bout/deprecated.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/include/bout/deriv_store.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/include/bout/expr.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/include/bout/field_visitor.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/include/bout/fieldgroup.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/include/bout/format.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/include/bout/fv_ops.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/include/bout/generic_factory.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/include/bout/globalfield.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/include/bout/griddata.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/include/bout/index_derivs.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/include/bout/index_derivs_interface.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/include/bout/invert/laplacexy.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/include/bout/invert/laplacexz.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/include/bout/invertable_operator.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/include/bout/macro_for_each.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/include/bout/mesh.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/include/bout/monitor.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/include/bout/openmpwrap.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/include/bout/paralleltransform.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/include/bout/petsclib.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/include/bout/physicsmodel.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/include/bout/region.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/include/bout/rkscheme.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/include/bout/rvec.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/include/bout/scorepwrapper.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/include/bout/slepclib.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/include/bout/snb.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/include/bout/solver.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/include/bout/solverfactory.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/include/bout/surfaceiter.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/include/bout/sys/expressionparser.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/include/bout/sys/gettext.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/include/bout/sys/range.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/include/bout/sys/timer.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/include/bout/sys/type_name.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/include/bout/sys/uncopyable.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/include/bout/sys/variant.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/include/bout/template_combinations.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/include/bout/traits.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/include/bout_types.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/include/boutcomm.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/include/boutexception.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/in/builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/include/difops.hxx:299: warning: The following parameter of Div_par_K_Grad_par(BoutReal kY, const Field2D &f, CELL_LOC outloc=CELL_DEFAULT) is not documented: parameter 'outloc' /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/include/difops.hxx:208: warning: The following parameter of Grad2_par2(const Field2D &f, CELL_LOC outloc=CELL_DEFAULT, const std::string &method="DEFAULT") is not documented: parameter 'method' /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/include/gyro_average.hxx:52: warning: argument 'flags' of command @param is not found in the argument list of gyroPade0(const Field3D &f, const Field3D &rho, int inner_boundary_flags, int outer_boundary_flags) /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/include/gyro_average.hxx:61: warning: The following parameters of gyroPade0(const Field3D &f, const Field3D &rho, int inner_boundary_flags, int outer_boundary_flags) are not documented: parameter 'inner_boundary_flags' parameter 'outer_boundary_flags' /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/include/gyro_average.hxx:84: warning: argument 'flags' of command @param is not found in the argument list of gyroPade1(const Field3D &f, const Field3D &rho, int inner_boundary_flags, int outer_boundary_flags) /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/include/gyro_average.hxx:91: warning: The following parameters of gyroPade1(const Field3D &f, const Field3D &rho, int inner_boundary_flags, int outer_boundary_flags) are not documented: parameter 'inner_boundary_flags' parameter 'outer_boundary_flags' /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/include/gyro_average.hxx:120: warning: argument 'flags' of command @param is not found in the argument list of gyroPade2(const Field3D &f, const Field3D &rho, int inner_boundary_flags, int outer_boundary_flags) /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/include/gyro_average.hxx:131: warning: The following parameters of gyroPade2(const Field3D &f, const Field3D &rho, int inner_boundary_flags, int outer_boundary_flags) are not documented: parameter 'inner_boundary_flags' parameter 'outer_boundary_flags' clude/boutmain.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/include/cyclic_reduction.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/include/datafile.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/include/dataformat.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/include/dcomplex.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/include/derivs.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/include/difops.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/include/fft.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/include/field.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/include/field2d.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/include/field3d.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/include/field_data.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/include/field_factory.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/include/fieldperp.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/include/globals.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/include/gyro_average.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/include/initialprofiles.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/include/interpolation.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/include/interpolation_factory.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/include/invert_laplace.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/include/invert_parderiv.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/include/lapack_routines.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/include/mask.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/include/msg_stack.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/include/multiostream.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/include/options.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/include/options_netcdf.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/include/optionsreader.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/include/output.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/include/parallel_boundary_op.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/include/parallel_boundary_region.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/include/pvode/band.h... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/include/pvode/cvdiag.h... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/include/pvode/cvode.h... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/include/pvode/cvspgmr.h... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/include/pvode/iterativ.h... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/include/pvode/llnlmath.h... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/include/pvode/llnltyps.h... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/include/pvode/nvector.h... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/include/pvode/pvbbdpre.h... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/include/pvode/smalldense.h... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/include/pvode/spgmr.h... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/include/pvode/vector.h... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/include/smoothing.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/include/sourcex.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/include/stencils.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/include/unused.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/include/utils.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/include/vecops.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/include/vector2d.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/include/vector3d.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/include/where.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/bout++.cxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/field/field.cxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/field/field2d.cxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/field/field3d.cxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/field/field_data.cxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/field/field_factory.cxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/field/fieldgenerators.cxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/field/fieldgenerators.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/field/fieldgroup.cxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/field/fieldperp.cxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/field/gen_fieldops.py... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/field/generated_fieldops.cxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/field/globalfield.cxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/field/initialprofiles.cxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/field/vecops.cxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/field/vector2d.cxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/field/vector3d.cxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/field/where.cxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/fileio/datafile.cxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/fileio/dataformat.cxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/fileio/formatfactory.cxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/fileio/formatfactory.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/fileio/impls/emptyformat.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/fileio/impls/hdf5/h5_format.cxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/fileio/impls/hdf5/h5_format.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/fileio/impls/netcdf/nc_format.cxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/fileio/impls/netcdf/nc_format.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/fileio/impls/netcdf4/ncxx4.cxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/fileio/impls/netcdf4/ncxx4.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/fileio/impls/pnetcdf/pnetcdf.cxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/fileio/impls/pnetcdf/pnetcdf.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/invert/fft_fftw.cxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/invert/lapack_routines.cxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/invert/laplace/impls/cyclic/cyclic_laplace.cxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/invert/laplace/impls/cyclic/cyclic_laplace.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/invert/laplace/impls/multigrid/multigrid_alg.cxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/invert/laplace/impls/multigrid/multigrid_laplace.cxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/invert/laplace/impls/multigrid/multigrid_laplace.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/invert/laplace/impls/multigrid/multigrid_solver.cxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/invert/laplace/impls/mumps/mumps_laplace.cxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/invert/laplace/impls/mumps/mumps_laplace.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/invert/laplace/impls/naulin/naulin_laplace.cxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/invert/laplace/impls/naulin/naulin_laplace.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/invert/laplace/impls/pdd/pdd.cxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/invert/laplace/impls/pdd/pdd.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/invert/laplace/impls/petsc/petsc_laplace.cxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/invert/laplace/impls/petsc/petsc_laplace.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/invert/laplace/impls/serial_band/serial_band.cxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/invert/laplace/impls/serial_band/serial_band.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/invert/laplace/impls/serial_tri/serial_tri.cxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/invert/laplace/impls/serial_tri/serial_tri.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/invert/laplace/impls/shoot/shoot_laplace.cxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/invert/laplace/impls/shoot/shoot_laplace.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/invert/laplace/impls/spt/spt.cxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/invert/laplace/impls/spt/spt.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/invert/laplace/invert_laplace.cxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/invert/laplace/laplacefactory.cxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/invert/laplace/laplacefactory.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/invert/laplacexy/laplacexy.cxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/invert/laplacexz/impls/cyclic/laplacexz-cyclic.cxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/invert/laplacexz/impls/cyclic/laplacexz-cyclic.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src//builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/mesh/difops.cxx:287: warning: The following parameter of Div_par_K_Grad_par(BoutReal kY, const Field2D &f, CELL_LOC outloc=CELL_DEFAULT) is not documented: parameter 'outloc' /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/mesh/difops.cxx:274: warning: The following parameter of Grad2_par2(const Field2D &f, CELL_LOC outloc=CELL_DEFAULT, const std::string &method="DEFAULT") is not documented: parameter 'method' /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/include/gyro_average.hxx:52: warning: argument 'flags' of command @param is not found in the argument list of gyroPade0(const Field3D &f, const Field3D &rho, int inner_boundary_flags, int outer_boundary_flags) /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/physics/gyro_average.cxx:78: warning: The following parameters of gyroPade0(const Field3D &f, const Field3D &rho, int inner_boundary_flags, int outer_boundary_flags) are not documented: parameter 'inner_boundary_flags' parameter 'outer_boundary_flags' /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/include/gyro_average.hxx:84: warning: argument 'flags' of command @param is not found in the argument list of gyroPade1(const Field3D &f, const Field3D &rho, int inner_boundary_flags, int outer_boundary_flags) /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/physics/gyro_average.cxx:119: warning: The following parameters of gyroPade1(const Field3D &f, const Field3D &rho, int inner_boundary_flags, int outer_boundary_flags) are not documented: parameter 'inner_boundary_flags' parameter 'outer_boundary_flags' /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/include/gyro_average.hxx:120: warning: argument 'flags' of command @param is not found in the argument list of gyroPade2(const Field3D &f, const Field3D &rho, int inner_boundary_flags, int outer_boundary_flags) /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/physics/gyro_average.cxx:149: warning: The following parameters of gyroPade2(const Field3D &f, const Field3D &rho, int inner_boundary_flags, int outer_boundary_flags) are not documented: parameter 'inner_boundary_flags' parameter 'outer_boundary_flags' invert/laplacexz/impls/petsc/laplacexz-petsc.cxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/invert/laplacexz/impls/petsc/laplacexz-petsc.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/invert/laplacexz/laplacexz.cxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/invert/parderiv/impls/cyclic/cyclic.cxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/invert/parderiv/impls/cyclic/cyclic.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/invert/parderiv/invert_parderiv.cxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/invert/parderiv/parderiv_factory.cxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/invert/parderiv/parderiv_factory.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/mesh/boundary_factory.cxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/mesh/boundary_region.cxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/mesh/boundary_standard.cxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/mesh/coordinates.cxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/mesh/data/gridfromfile.cxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/mesh/data/gridfromoptions.cxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/mesh/difops.cxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/mesh/fv_ops.cxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/mesh/impls/bout/boutmesh.cxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/mesh/impls/bout/boutmesh.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/mesh/index_derivs.cxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/mesh/interpolation.cxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/mesh/interpolation/bilinear.cxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/mesh/interpolation/hermite_spline.cxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/mesh/interpolation/interpolation_factory.cxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/mesh/interpolation/lagrange_4pt.cxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/mesh/interpolation/monotonic_hermite_spline.cxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/mesh/mesh.cxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/mesh/meshfactory.cxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/mesh/meshfactory.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/mesh/parallel/fci.cxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/mesh/parallel/fci.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/mesh/parallel/identity.cxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/mesh/parallel/shiftedmetric.cxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/mesh/parallel_boundary_op.cxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/mesh/parallel_boundary_region.cxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/mesh/surfaceiter.cxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/physics/gyro_average.cxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/physics/physicsmodel.cxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/physics/smoothing.cxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/physics/snb.cxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/physics/sourcex.cxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/solver/impls/arkode/arkode.cxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/solver/impls/arkode/arkode.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/solver/impls/cvode/cvode.cxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/solver/impls/cvode/cvode.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/solver/impls/euler/euler.cxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/solver/impls/euler/euler.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/solver/impls/ida/ida.cxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/solver/impls/ida/ida.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/solver/impls/imex-bdf2/imex-bdf2.cxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/solver/impls/imex-bdf2/imex-bdf2.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/solver/impls/karniadakis/karniadakis.cxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/solver/impls/karniadakis/karniadakis.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/solver/impls/petsc/petsc.cxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/solver/impls/petsc/petsc.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/solver/impls/power/power.cxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/solver/impls/power/power.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/solver/impls/pvode/pvode.cxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/solver/impls/pvode/pvode.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/solver/impls/rk3-ssp/rk3-ssp.cxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/solver/impls/rk3-ssp/rk3-ssp.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/solver/impls/rk4/rk4.cxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/solver/impls/rk4/rk4.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/solver/impls/rkgeneric/impls/cashkarp/cashkarp.cxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/solver/impls/rkgeneric/impls/cashkarp/cashkarp.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/solver/impls/rkgeneric/impls/rk4simple/rk4simple.cxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/solver/impls/rkgeneric/impls/rk4simple/rk4simple.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/solver/impls/rkgeneric/impls/rkf34/rkf34.cxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/solver/impls/rkgeneric/impls/rkf34/rkf34.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/solver/impls/rkgeneric/impls/rkf45/rkf45.cxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/solver/impls/rkgeneric/impls/rkf45/rkf45.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/solver/impls/rkgeneric/rkgeneric.cxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/solver/impls/rkgeneric/rkgeneric.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_ope/builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/include/bout/array.hxx:384: warning: Unsupported xml/html tag found nmpi/src/solver/impls/rkgeneric/rkscheme.cxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/solver/impls/rkgeneric/rkschemefactory.cxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/solver/impls/rkgeneric/rkschemefactory.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/solver/impls/slepc/slepc.cxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/solver/impls/slepc/slepc.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/solver/impls/snes/snes.cxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/solver/impls/snes/snes.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/solver/impls/split-rk/split-rk.cxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/solver/impls/split-rk/split-rk.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/solver/solver.cxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/solver/solverfactory.cxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/sys/bout_types.cxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/sys/boutcomm.cxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/sys/boutexception.cxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/sys/derivs.cxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/sys/expressionparser.cxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/sys/msg_stack.cxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/sys/options.cxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/sys/options/optionparser.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/sys/options/options_ini.cxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/sys/options/options_ini.hxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/sys/options/options_netcdf.cxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/sys/optionsreader.cxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/sys/output.cxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/sys/petsclib.cxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/sys/range.cxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/sys/slepclib.cxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/sys/timer.cxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/sys/type_name.cxx... Generating docs for file /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/sys/utils.cxx... Generating page documentation... Generating group documentation... Generating class documentation... Generating docs for compound Add... Generating docs for compound ArkodeSolver... Generating docs for compound Array... Generating docs for compound ArrayData... Generating docs for compound asExpr... Generating docs for compound asExpr< double >... Generating docs for compound asExpr< Field3D >... Generating docs for compound asExpr< float >... Generating docs for compound asExpr< int >... Generating docs for compound Bilinear... Generating docs for compound BinaryExpr... Generating docs for compound BinaryResult... Generating docs for compound BoundaryConstGradient... Generating docs for compound BoundaryConstLaplace... Generating docs for compound BoundaryDirichlet... Generating docs for compound BoundaryDirichlet_2ndOrder... Generating docs for compound BoundaryDirichlet_4thOrder... Generating docs for compound BoundaryDirichlet_O3... Generating docs for compound /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/include/dataformat.hxx:207: warning: The following parameter of DataFormat::getAttribute(const std::string &varname, const std::string &attrname, BoutReal &value)=0 is not documented: parameter 'value' /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/include/dataformat.hxx:191: warning: The following parameter of DataFormat::getAttribute(const std::string &varname, const std::string &attrname, int &value)=0 is not documented: parameter 'value' /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/include/dataformat.hxx:175: warning: The following parameter of DataFormat::getAttribute(const std::string &varname, const std::string &attrname, std::string &text)=0 is not documented: parameter 'text' /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/include/bout/generic_factory.hxx:57: warning: The following parameter of Factory::create(const std::string &name, Args &&... args) is not documented: parameter 'args' /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/include/field2d.hxx:67: warning: The following parameters of Field2D::Field2D(Mesh *localmesh=nullptr, CELL_LOC location_in=CELL_CENTRE, DirectionTypes directions_in={YDirectionType::Standard, ZDirectionType::Average}) are not documented: parameter 'location_in' parameter 'directions_in' BoundaryDirichlet_O4... Generating docs for compound BoundaryDivCurl... Generating docs for compound BoundaryFactory... Generating docs for compound BoundaryFree... Generating docs for compound BoundaryFree_O2... Generating docs for compound BoundaryFree_O3... Generating docs for compound BoundaryFromFieldAligned... Generating docs for compound BoundaryModifier... Generating docs for compound BoundaryNeumann... Generating docs for compound BoundaryNeumann2... Generating docs for compound BoundaryNeumann_2ndOrder... Generating docs for compound BoundaryNeumann_4thOrder... Generating docs for compound BoundaryNeumann_NonOrthogonal... Generating docs for compound BoundaryNeumann_O4... Generating docs for compound BoundaryNeumannPar... Generating docs for compound BoundaryOp... Generating docs for compound BoundaryOpBase... Generating docs for compound BoundaryOpPar... Generating docs for compound BoundaryOpPar_dirichlet... Generating docs for compound BoundaryOpPar_dirichlet_interp... Generating docs for compound BoundaryOpPar_dirichlet_O3... Generating docs for compound BoundaryOpPar_neumann... Generating docs for compound BoundaryRegion... Generating docs for compound BoundaryRegionBase... Generating docs for compound BoundaryRegionPar... Generating docs for nested compound BoundaryRegionPar::IndexPoint... Generating docs for nested compound BoundaryRegionPar::Indices... Generating docs for nested compound BoundaryRegionPar::RealPoint... Generating docs for compound BoundaryRegionXIn... Generating docs for compound BoundaryRegionXOut... Generating docs for compound BoundaryRegionYDown... Generating docs for compound BoundaryRegionYUp... Generating docs for compound BoundaryRelax... Generating docs for compound BoundaryRobin... Generating docs for compound BoundaryToFieldAligned... Generating docs for compound BoundaryWidth... Generating docs for compound BoundaryZeroLaplace... Generating docs for compound BoundaryZeroLaplace2... Generating docs for compound BoutComm... Generating docs for compound BoutException... Generating docs for compound BoutIterationFail... Generating docs for compound BoutMask... Generating docs for compound BoutMesh... Generating docs for nested compound BoutMesh::CommHandle... Generating docs for compound BoutMonitor... Generating docs for compound BoutRhsFail... Generating docs for compound CASHKARPScheme... Generating docs for compound ConditionalOutput... Generating docs for compound Coordinates... Generating docs for compound CvodeSolver... Generating docs for compound CyclicReduce... Generating docs for compound Datafile... Generating docs for nested compound Datafile::VarStr... Generating docs for compound DataFormat... Generating docs for compound DeferredFunction... Generating docs for compound DerivativeStore... Generating docs for compound DerivativeType... Generating docs for compound DirectionTypes... Generating docs for compound Divide... Generating docs for compound DummyOutput... Generating docs for compound EmptyFormat... Generating docs for compound enumWrapper... Generating docs for compound EulerSolver... Generating docs for compound ExpressionParser... Generating docs for nested compound ExpressionParser::LexInfo... Generating docs for compound exprTraits... Generating docs for compound exprTraits< double >... Generating docs for compound exprTraits< float >... Generating docs for compound exprTraits< int >... Generating docs for compound Factory... Generating docs for compound FCIMap... Generating docs for compound FCITransform... Generating docs for compound fcmplx... Generating docs for compound Field... Generating docs for compound Field2D... Generating docs for compound Field2DExpr... Generating docs for compound Field3D... Generating docs for compound Field3DExpr... Generating docs for compound FieldAbs... Generating docs for compound FieldATan... Generating docs for compound FieldBallooning... Generating docs for compound FieldBinary... Generating docs for compound FieldCos... Generating docs for compound FieldCosh... Generating docs for compound FieldData... Generating/builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/include/bout/griddata.hxx:217: warning: The following parameter of GridFromOptions::get(Mesh *mesh, BoutReal &rval, const std::string &name, BoutReal def=0.0) is not documented: parameter 'def' /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/include/bout/griddata.hxx:191: warning: The following parameter of GridFromOptions::get(Mesh *mesh, std::string &sval, const std::string &name, const std::string &def="") is not documented: parameter 'def' /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/fileio/impls/hdf5/h5_format.hxx:131: warning: The following parameter of H5Format::getAttribute(const std::string &varname, const std::string &attrname, BoutReal &value) is not documented: parameter 'value' /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/fileio/impls/hdf5/h5_format.hxx:130: warning: The following parameter of H5Format::getAttribute(const std::string &varname, const std::string &attrname, int &value) is not documented: parameter 'value' /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/fileio/impls/hdf5/h5_format.hxx:129: warning: The following parameter of H5Format::getAttribute(const std::string &varname, const std::string &attrname, std::string &text) is not documented: parameter 'text' /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/invert/laplace/impls/petsc/petsc_laplace.hxx:186: warning: argument 'coef1' from the argument list of LaplacePetsc::Coeffs has multiple @param documentation sections /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/invert/laplace/impls/petsc/petsc_laplace.hxx:186: warning: argument 'coef2' from the argument list of LaplacePetsc::Coeffs has multiple @param documentation sections /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/invert/laplace/impls/petsc/petsc_laplace.hxx:186: warning: argument 'coef3' from the argument list of LaplacePetsc::Coeffs has multiple @param documentation sections /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/invert/laplace/impls/petsc/petsc_laplace.hxx:186: warning: argument 'coef4' from the argument list of LaplacePetsc::Coeffs has multiple @param documentation sections /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/invert/laplace/impls/petsc/petsc_laplace.hxx:186: warning: argument 'coef5' from the argument list of LaplacePetsc::Coeffs has multiple @param documentation sections /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/invert/laplace/impls/petsc/petsc_laplace.hxx:185: warning: argument 'MatA' from the argument list of LaplacePetsc::Element has multiple @param documentation sections /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/include/invert_laplace.hxx:212: warning: The following parameters of Laplacian::create(Options *opt=nullptr, const CELL_LOC loc=CELL_CENTRE, Mesh *mesh_in=nullptr) are not documented: parameter 'loc' parameter 'mesh_in' /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/include/invert_laplace.hxx:255: warning: argument 'avec' from the argument list of Laplacian::tridagMatrix has multiple @param documentation sections /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/include/invert_laplace.hxx:255: warning: argument 'bvec' from the argument list of Laplacian::tridagMatrix has multiple @param documentation sections /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/include/invert_laplace.hxx:255: warning: argument 'cvec' from the argument list of Laplacian::tridagMatrix has multiple @param documentation sections /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/include/bout/mesh.hxx:730: warning: argument 'v' of command @param is not found in the argument list of Mesh::indexVDDX(const T &vel, const T &f, CELL_LOC outloc=CELL_DEFAULT, const std::string &method="DEFAULT", REGION region=RGN_NOBNDRY) const /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/include/bout/mesh.hxx:748: warning: The following parameter of Mesh::indexVDDX(const T &vel, const T &f, CELL_LOC outloc=CELL_DEFAULT, const std::string &method="DEFAULT", REGION region=RGN_NOBNDRY) const is not documented: parameter 'vel' /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/fileio/impls/netcdf/nc_format.hxx:135: warning: The following parameter of NcFormat::getAttribute(const std::string &varname, const std::string &attrname, BoutReal &value) is not documented: parameter 'value' /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/fileio/impls/netcdf/nc_format.hxx:134: warning: The following parameter of NcFormat::getAttribute(const std::string &varname, const std::string &attrname, int &value) is not documented: parameter 'value' /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/fileio/impls/netcdf/nc_format.hxx:133: warning: The following parameter of NcFormat::getAttribute(const std::string &varname, const std::string &attrname, std::string &text) is not documented: parameter 'text' /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/fileio/impls/netcdf4/ncxx4.hxx:136: warning: The following parameter of Ncxx4::getAttribute(const std::string &varname, const std::string &attrname, BoutReal &value) is not documented: parameter 'value' /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/fileio/impls/netcdf4/ncxx4.hxx:135: warning: The following parameter of Ncxx4::getAttribute(const std::string &varname, const std::string &attrname, int &value) is not documented: parameter 'value' /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/fileio/impls/netcdf4/ncxx4.hxx:134: warning: The following parameter of Ncxx4::getAttribute(const std::string &varname, const std::string &attrname, std::string &text) is not documented: parameter 'text' /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/include/options.hxx:160: warning: argument 'parent' of command @param is not found in the argument list of Options::Options(Options *parent_instance, std::string full_name) /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/include/options.hxx:160: warning: argument 'sectionName' of command @param is not found in the argument list of Options::Options(Options *parent_instance, std::string full_name) /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/include/options.hxx:164: warning: The following parameters of Options::Options(Options *parent_instance, std::string full_name) are not documented: parameter 'parent_instance' parameter 'full_name' docs for compound FieldErf... Generating docs for compound FieldFactory... Generating docs for compound FieldFunction... Generating docs for compound FieldGaussian... Generating docs for compound FieldGenerator... Generating docs for compound FieldGenOneArg... Generating docs for compound FieldGenTwoArg... Generating docs for compound FieldGroup... Generating docs for compound FieldHeaviside... Generating docs for compound FieldMax... Generating docs for compound FieldMin... Generating docs for compound FieldMixmode... Generating docs for compound FieldNull... Generating docs for compound FieldPerp... Generating docs for compound FieldRound... Generating docs for compound FieldSin... Generating docs for compound FieldSinh... Generating docs for compound FieldSqrt... Generating docs for compound FieldTanh... Generating docs for compound FieldTanhHat... Generating docs for compound FieldValue... Generating docs for compound FieldValuePtr... Generating docs for compound FieldVisitor... Generating docs for compound FormatFactory... Generating docs for compound GlobalField... Generating docs for compound GlobalField2D... Generating docs for compound GlobalField3D... Generating docs for compound GridDataSource... Generating docs for compound GridFile... Generating docs for compound GridFromOptions... Generating docs for compound H5Format... Generating docs for compound HermiteSpline... Generating docs for compound IdaSolver... Generating docs for compound IMEXBDF2... Generating docs for compound Interpolation... Generating docs for compound InterpolationFactory... Generating docs for compound InvertPar... Generating docs for compound InvertParCR... Generating docs for compound KarniadakisSolver... Generating docs for compound Lagrange4pt... Generating docs for compound LaplaceCyclic... Generating docs for compound LaplaceFactory... Generating docs for compound LaplaceMultigrid... Generating docs for compound LaplaceMumps... Generating docs for compound LaplaceNaulin... Generating docs for compound LaplacePDD... Generating docs for nested compound LaplacePDD::PDD_data... Generating docs for compound LaplacePetsc... Generating docs for compound LaplaceSerialBand... Generating docs for compound LaplaceSerialTri... Generating docs for compound LaplaceShoot... Generating docs for compound LaplaceSPT... Generating docs for nested compound LaplaceSPT::SPT_data... Generating docs for compound LaplaceXY... Generating docs for compound LaplaceXZ... Generating docs for compound LaplaceXZcyclic... Generating docs for compound LaplaceXZpetsc... Generating docs for nested compound LaplaceXZpetsc::YSlice... Generating docs for compound Laplacian... Generating docs for compound LegacyModel... Generating docs for compound Literal... Generating docs for compound LoadVarOp... Generating docs for compound Matrix... Generating docs for compound Mesh... Generating docs for compound MeshFactory... Generating docs for compound metaData... Generating docs for compound Monitor... Generating docs for compound MonotonicHermiteSpline... Generating docs for compound MsgStack... Generating docs for compound MsgStackItem... Generating docs for compound Multigrid1DP... Generating docs for compound Multigrid2DPf1D... Generating docs for compound MultigridAlg... Generating docs for compound MultigridSerial... Generating docs for compound multiostream... Generating docs for compound multioutbuf... Generating docs for compound multioutbuf_init... Generating docs for compound Multiply... Generating docs for compound NcFormat... Generating docs for compound Ncxx4... Generating docs for compound OptionINI... Generating docs for compound OptionParser... Generating docs for compound Options... Generating docs for nested compound Options::AttributeType... Generating docs for nested compound Options::OptionValue... Generating docs for compound OptionsReader... Generating docs for compound Output... Generating docs for compound ParallelTransform... Generating docs for compound ParallelTransformIdentity... Generating docs for compound ParDerivFactory... Generating docs f/builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/include/bout/paralleltransform.hxx:265: warning: The following parameter of ShiftedMetric::shiftZ(const Field3D &f, const Field2D &zangle, const std::string ®ion="RGN_NOX") const is not documented: parameter 'region' /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/include/bout/paralleltransform.hxx:284: warning: The following parameter of ShiftedMetric::shiftZ(const Field3D &f, const Tensor< dcomplex > &phs, const YDirectionType y_direction_out, const std::string ®ion="RGN_NOX") const is not documented: parameter 'region' /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/include/bout/index_derivs_interface.hxx:276: warning: argument 'v' of command @param is not found in the argument list of bout::derivatives::index::VDDX(const T &vel, const T &f, CELL_LOC outloc=CELL_DEFAULT, const std::string &method="DEFAULT", const std::string ®ion="RGN_NOBNDRY") /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/include/bout/index_derivs_interface.hxx:292: warning: The following parameter of bout::derivatives::index::VDDX(const T &vel, const T &f, CELL_LOC outloc=CELL_DEFAULT, const std::string &method="DEFAULT", const std::string ®ion="RGN_NOBNDRY") is not documented: parameter 'vel' /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/include/bout/sys/variant.hxx:81: warning: Found unknown command '\v' /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/include/bout/sys/variant.hxx:118: warning: Found unknown command '\v' or compound ParseException... Generating docs for compound PetscLib... Generating docs for compound PetscSolver... Generating docs for compound PhysicsModel... Generating docs for nested compound PhysicsModel::PhysicsModelMonitor... Generating docs for compound PncFormat... Generating docs for compound Power... Generating docs for compound PowerSolver... Generating docs for compound produceCombinations... Generating docs for compound PromoteType... Generating docs for compound PvodeSolver... Generating docs for compound RangeIterator... Generating docs for compound Region... Generating docs for compound RegionStats... Generating docs for compound RegisterInFactory... Generating docs for compound RegisterInFactory< Solver, DerivedType >... Generating docs for compound registerMethod... Generating docs for compound RK3SSP... Generating docs for compound RK4SIMPLEScheme... Generating docs for compound RK4Solver... Generating docs for compound RKF34Scheme... Generating docs for compound RKF45Scheme... Generating docs for compound RKGenericSolver... Generating docs for compound RKScheme... Generating docs for compound RKSchemeFactory... Generating docs for compound RunMetrics... Generating docs for compound SaveDerivsOp... Generating docs for compound SaveVarOp... Generating docs for compound Set... Generating docs for compound ShiftedMetric... Generating docs for nested compound ShiftedMetric::ParallelSlicePhase... Generating docs for compound SlepcLib... Generating docs for compound SlepcSolver... Generating docs for compound snes_info... Generating docs for compound SNESSolver... Generating docs for compound Solver... Generating docs for nested compound Solver::VarStr... Generating docs for compound SolverFactory... Generating docs for compound SpecificInd... Generating docs for compound SplitFluxDerivativeType... Generating docs for compound SplitRK... Generating docs for compound stencil... Generating docs for compound Subtract... Generating docs for compound SurfaceIter... Generating docs for compound Tensor... Generating docs for compound Timer... Generating docs for nested compound Timer::timer_info... Generating docs for compound TypeContainer... Generating docs for compound Uncopyable... Generating docs for compound Vector2D... Generating docs for compound Vector3D... Generating namespace index... Generating docs for namespace bout Generating docs for compound bout::HeatFluxSNB... Generating docs for namespace bout::derivatives Generating docs for namespace bout::derivatives::index Generating docs for namespace bout::experimental Generating docs for compound bout::experimental::CommandLineArgs... Generating docs for compound bout::experimental::OptionsNetCDF... Generating docs for namespace bout::fft Generating docs for namespace bout::globals Generating docs for namespace bout::inversion Generating docs for compound bout::inversion::InvertableOperator... Generating docs for namespace bout::utils Generating docs for compound bout::utils::_Unique_if... Generating docs for compound bout::utils::_Unique_if< T[]>... Generating docs for compound bout::utils::_Unique_if< T[N]>... Generating docs for compound bout::utils::function_traits... Generating docs for compound bout::utils::function_traits< R(*)(Args...)>... Generating docs for nested compound bout::utils::function_traits< R(*)(Args...)>::arg... Generating docs for namespace bout::utils::details Generating docs for compound bout::utils::details::CompareTypes... Generating docs for compound bout::utils::details::CompareTypes< T, T >... Generating docs for compound bout::utils::details::IsEqual... Generating docs for compound bout::utils::details::StaticCastOrThrow... Generating docs for compound bout::utils::details::ToString... Generating docs for namespace FV Generating docs for compound FV::Fromm... Generating docs for compound FV::MC... Generating docs for compound FV::MinMod... Generating docs for compound FV::Stencil1D... Generating docs for compound FV::Upwind... Generating docs for namespace gen_fieldops Generating docs for compound gen_fieldops::Field... Ge/builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/include/bout/array.hxx:384: warning: Unsupported xml/html tag found nerating docs for namespace pvode Generating docs for compound pvode::bandmat_type... Generating docs for compound pvode::CVodeMemRec... Generating docs for compound pvode::machenv_type... Generating docs for compound pvode::nvec_type... Generating docs for compound pvode::pvbbddata_type... Generating docs for compound pvode::SpgmrMemRec... Generating docs for namespace SI Generating graph info page... Generating directory documentation... Generating index page... Generating page index... Generating module index... Generating namespace index... Generating namespace member index... Generating annotated compound index... Generating alphabetical compound index... Generating hierarchical class index... Generating member index... Generating file index... Generating file member index... Generating example index... finalizing index lists... writing tag file... Generating XML output... Generating XML output for class bout::utils::_Unique_if Generating XML output for class bout::utils::_Unique_if< T[]> Generating XML output for class bout::utils::_Unique_if< T[N]> Generating XML output for class Add Generating XML output for class bout::utils::function_traits< R(*)(Args...)>::arg Generating XML output for class ArkodeSolver Generating XML output for class Array Generating XML output for class ArrayData Generating XML output for class asExpr Generating XML output for class asExpr< double > Generating XML output for class asExpr< Field3D > Generating XML output for class asExpr< float > Generating XML output for class asExpr< int > Generating XML output for class Options::AttributeType Generating XML output for class pvode::bandmat_type Generating XML output for class Bilinear Generating XML output for class BinaryExpr Generating XML output for class BinaryResult Generating XML output for class BoundaryConstGradient Generating XML output for class BoundaryConstLaplace Generating XML output for class BoundaryDirichlet Generating XML output for class BoundaryDirichlet_2ndOrder Generating XML output for class BoundaryDirichlet_4thOrder Generating XML output for class BoundaryDirichlet_O3 Generating XML output for class BoundaryDirichlet_O4 Generating XML output for class BoundaryDivCurl Generating XML output for class BoundaryFactory Generating XML output for class BoundaryFree Generating XML output for class BoundaryFree_O2 Generating XML output for class BoundaryFree_O3 Generating XML output for class BoundaryFromFieldAligned Generating XML output for class BoundaryModifier Generating XML output for class BoundaryNeumann Generating XML output for class BoundaryNeumann2 Generating XML output for class BoundaryNeumann_2ndOrder Generating XML output for class BoundaryNeumann_4thOrder Generating XML output for class BoundaryNeumann_NonOrthogonal Generating XML output for class BoundaryNeumann_O4 Generating XML output for class BoundaryNeumannPar Generating XML output for class BoundaryOp Generating XML output for class BoundaryOpBase Generating XML output for class BoundaryOpPar Generating XML output for class BoundaryOpPar_dirichlet Generating XML output for class BoundaryOpPar_dirichlet_interp Generating XML output for class BoundaryOpPar_dirichlet_O3 Generating XML output for class BoundaryOpPar_neumann Generating XML output for class BoundaryRegion Generating XML output for class BoundaryRegionBase Generating XML output for class BoundaryRegionPar Generating XML output for class BoundaryRegionXIn Generating XML output for class BoundaryRegionXOut Generating XML output for class BoundaryRegionYDown Generating XML output for class BoundaryRegionYUp Generating XML output for class BoundaryRelax Generating XML output for class BoundaryRobin Generating XML output for class BoundaryToFieldAligned Generating XML output for class BoundaryWidth Generating XML output for class BoundaryZeroLaplace Generating XML output for class BoundaryZeroLaplace2 Generating XML output for class BoutComm Generating XML output for class BoutException Generating XML output for class BoutIterationFail Generating XML output for class BoutMask Generating XML outp/builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/include/dataformat.hxx:175: warning: The following parameter of DataFormat::getAttribute(const std::string &varname, const std::string &attrname, std::string &text)=0 is not documented: parameter 'text' /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/include/dataformat.hxx:191: warning: The following parameter of DataFormat::getAttribute(const std::string &varname, const std::string &attrname, int &value)=0 is not documented: parameter 'value' /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/include/dataformat.hxx:207: warning: The following parameter of DataFormat::getAttribute(const std::string &varname, const std::string &attrname, BoutReal &value)=0 is not documented: parameter 'value' /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/include/bout/generic_factory.hxx:57: warning: The following parameter of Factory::create(const std::string &name, Args &&... args) is not documented: parameter 'args' /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/include/field2d.hxx:67: warning: The following parameters of Field2D::Field2D(Mesh *localmesh=nullptr, CELL_LOC location_in=CELL_CENTRE, DirectionTypes directions_in={YDirectionType::Standard, ZDirectionType::Average}) are not documented: parameter 'location_in' parameter 'directions_in' /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/include/bout/griddata.hxx:191: warning: The following parameter of GridFromOptions::get(Mesh *mesh, std::string &sval, const std::string &name, const std::string &def="") is not documented: parameter 'def' /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/include/bout/griddata.hxx:217: warning: The following parameter of GridFromOptions::get(Mesh *mesh, BoutReal &rval, const std::string &name, BoutReal def=0.0) is not documented: parameter 'def' /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/fileio/impls/hdf5/h5_format.hxx:129: warning: The following parameter of H5Format::getAttribute(const std::string &varname, const std::string &attrname, std::string &text) is not documented: parameter 'text' /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/fileio/impls/hdf5/h5_format.hxx:130: warning: The following parameter of H5Format::getAttribute(const std::string &varname, const std::string &attrname, int &value) is not documented: parameter 'value' /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/fileio/impls/hdf5/h5_format.hxx:131: warning: The following parameter of H5Format::getAttribute(const std::string &varname, const std::string &attrname, BoutReal &value) is not documented: parameter 'value' ut for class BoutMesh Generating XML output for class BoutMonitor Generating XML output for class BoutRhsFail Generating XML output for class CASHKARPScheme Generating XML output for class bout::experimental::CommandLineArgs Generating XML output for class BoutMesh::CommHandle Generating XML output for class bout::utils::details::CompareTypes Generating XML output for class bout::utils::details::CompareTypes< T, T > Generating XML output for class ConditionalOutput Generating XML output for class Coordinates Generating XML output for class pvode::CVodeMemRec Generating XML output for class CvodeSolver Generating XML output for class CyclicReduce Generating XML output for class Datafile Generating XML output for class DataFormat Generating XML output for class DeferredFunction Generating XML output for class DerivativeStore Generating XML output for class DerivativeType Generating XML output for class DirectionTypes Generating XML output for class Divide Generating XML output for class DummyOutput Generating XML output for class EmptyFormat Generating XML output for class enumWrapper Generating XML output for class EulerSolver Generating XML output for class ExpressionParser Generating XML output for class exprTraits Generating XML output for class exprTraits< double > Generating XML output for class exprTraits< float > Generating XML output for class exprTraits< int > Generating XML output for class Factory Generating XML output for class FCIMap Generating XML output for class FCITransform Generating XML output for class fcmplx Generating XML output for class Field Generating XML output for class gen_fieldops::Field Generating XML output for class Field2D Generating XML output for class Field2DExpr Generating XML output for class Field3D Generating XML output for class Field3DExpr Generating XML output for class FieldAbs Generating XML output for class FieldATan Generating XML output for class FieldBallooning Generating XML output for class FieldBinary Generating XML output for class FieldCos Generating XML output for class FieldCosh Generating XML output for class FieldData Generating XML output for class FieldErf Generating XML output for class FieldFactory Generating XML output for class FieldFunction Generating XML output for class FieldGaussian Generating XML output for class FieldGenerator Generating XML output for class FieldGenOneArg Generating XML output for class FieldGenTwoArg Generating XML output for class FieldGroup Generating XML output for class FieldHeaviside Generating XML output for class FieldMax Generating XML output for class FieldMin Generating XML output for class FieldMixmode Generating XML output for class FieldNull Generating XML output for class FieldPerp Generating XML output for class FieldRound Generating XML output for class FieldSin Generating XML output for class FieldSinh Generating XML output for class FieldSqrt Generating XML output for class FieldTanh Generating XML output for class FieldTanhHat Generating XML output for class FieldValue Generating XML output for class FieldValuePtr Generating XML output for class FieldVisitor Generating XML output for class FormatFactory Generating XML output for class FV::Fromm Generating XML output for class bout::utils::function_traits Generating XML output for class bout::utils::function_traits< R(*)(Args...)> Generating XML output for class GlobalField Generating XML output for class GlobalField2D Generating XML output for class GlobalField3D Generating XML output for class GridDataSource Generating XML output for class GridFile Generating XML output for class GridFromOptions Generating XML output for class H5Format Generating XML output for class bout::HeatFluxSNB Generating XML output for class HermiteSpline Generating XML output for class IdaSolver Generating XML output for class IMEXBDF2 Generating XML output for class BoundaryRegionPar::IndexPoint Generating XML output for class BoundaryRegionPar::Indices Generating XML output for class Interpolation Generating XML output for class InterpolationFactory Generating XML output for class bout:/builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/invert/laplace/impls/petsc/petsc_laplace.hxx:185: warning: argument 'MatA' from the argument list of LaplacePetsc::Element has multiple @param documentation sections /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/invert/laplace/impls/petsc/petsc_laplace.hxx:186: warning: argument 'coef1' from the argument list of LaplacePetsc::Coeffs has multiple @param documentation sections /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/invert/laplace/impls/petsc/petsc_laplace.hxx:186: warning: argument 'coef2' from the argument list of LaplacePetsc::Coeffs has multiple @param documentation sections /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/invert/laplace/impls/petsc/petsc_laplace.hxx:186: warning: argument 'coef3' from the argument list of LaplacePetsc::Coeffs has multiple @param documentation sections /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/invert/laplace/impls/petsc/petsc_laplace.hxx:186: warning: argument 'coef4' from the argument list of LaplacePetsc::Coeffs has multiple @param documentation sections /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/invert/laplace/impls/petsc/petsc_laplace.hxx:186: warning: argument 'coef5' from the argument list of LaplacePetsc::Coeffs has multiple @param documentation sections /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/include/invert_laplace.hxx:212: warning: The following parameters of Laplacian::create(Options *opt=nullptr, const CELL_LOC loc=CELL_CENTRE, Mesh *mesh_in=nullptr) are not documented: parameter 'loc' parameter 'mesh_in' /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/include/invert_laplace.hxx:255: warning: argument 'avec' from the argument list of Laplacian::tridagMatrix has multiple @param documentation sections /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/include/invert_laplace.hxx:255: warning: argument 'bvec' from the argument list of Laplacian::tridagMatrix has multiple @param documentation sections /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/include/invert_laplace.hxx:255: warning: argument 'cvec' from the argument list of Laplacian::tridagMatrix has multiple @param documentation sections /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/include/bout/mesh.hxx:730: warning: argument 'v' of command @param is not found in the argument list of Mesh::indexVDDX(const T &vel, const T &f, CELL_LOC outloc=CELL_DEFAULT, const std::string &method="DEFAULT", REGION region=RGN_NOBNDRY) const /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/include/bout/mesh.hxx:748: warning: The following parameter of Mesh::indexVDDX(const T &vel, const T &f, CELL_LOC outloc=CELL_DEFAULT, const std::string &method="DEFAULT", REGION region=RGN_NOBNDRY) const is not documented: parameter 'vel' /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/fileio/impls/netcdf/nc_format.hxx:133: warning: The following parameter of NcFormat::getAttribute(const std::string &varname, const std::string &attrname, std::string &text) is not documented: parameter 'text' /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/fileio/impls/netcdf/nc_format.hxx:134: warning: The following parameter of NcFormat::getAttribute(const std::string &varname, const std::string &attrname, int &value) is not documented: parameter 'value' /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/fileio/impls/netcdf/nc_format.hxx:135: warning: The following parameter of NcFormat::getAttribute(const std::string &varname, const std::string &attrname, BoutReal &value) is not documented: parameter 'value' /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/fileio/impls/netcdf4/ncxx4.hxx:134: warning: The following parameter of Ncxx4::getAttribute(const std::string &varname, const std::string &attrname, std::string &text) is not documented: parameter 'text' /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/fileio/impls/netcdf4/ncxx4.hxx:135: warning: The following parameter of Ncxx4::getAttribute(const std::string &varname, const std::string &attrname, int &value) is not documented: parameter 'value' /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/fileio/impls/netcdf4/ncxx4.hxx:136: warning: The following parameter of Ncxx4::getAttribute(const std::string &varname, const std::string &attrname, BoutReal &value) is not documented: parameter 'value' /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/include/options.hxx:160: warning: argument 'parent' of command @param is not found in the argument list of Options::Options(Options *parent_instance, std::string full_name) /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/include/options.hxx:160: warning: argument 'sectionName' of command @param is not found in the argument list of Options::Options(Options *parent_instance, std::string full_name) /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/include/options.hxx:164: warning: The following parameters of Options::Options(Options *parent_instance, std::string full_name) are not documented: parameter 'parent_instance' parameter 'full_name' :inversion::InvertableOperator Generating XML output for class InvertPar Generating XML output for class InvertParCR Generating XML output for class bout::utils::details::IsEqual Generating XML output for class KarniadakisSolver Generating XML output for class Lagrange4pt Generating XML output for class LaplaceCyclic Generating XML output for class LaplaceFactory Generating XML output for class LaplaceMultigrid Generating XML output for class LaplaceMumps Generating XML output for class LaplaceNaulin Generating XML output for class LaplacePDD Generating XML output for class LaplacePetsc Generating XML output for class LaplaceSerialBand Generating XML output for class LaplaceSerialTri Generating XML output for class LaplaceShoot Generating XML output for class LaplaceSPT Generating XML output for class LaplaceXY Generating XML output for class LaplaceXZ Generating XML output for class LaplaceXZcyclic Generating XML output for class LaplaceXZpetsc Generating XML output for class Laplacian Generating XML output for class LegacyModel Generating XML output for class ExpressionParser::LexInfo Generating XML output for class Literal Generating XML output for class LoadVarOp Generating XML output for class pvode::machenv_type Generating XML output for class Matrix Generating XML output for class FV::MC Generating XML output for class Mesh Generating XML output for class MeshFactory Generating XML output for class metaData Generating XML output for class FV::MinMod Generating XML output for class Monitor Generating XML output for class MonotonicHermiteSpline Generating XML output for class MsgStack Generating XML output for class MsgStackItem Generating XML output for class Multigrid1DP Generating XML output for class Multigrid2DPf1D Generating XML output for class MultigridAlg Generating XML output for class MultigridSerial Generating XML output for class multiostream Generating XML output for class multioutbuf Generating XML output for class multioutbuf_init Generating XML output for class Multiply Generating XML output for class NcFormat Generating XML output for class Ncxx4 Generating XML output for class pvode::nvec_type Generating XML output for class OptionINI Generating XML output for class OptionParser Generating XML output for class Options Generating XML output for class bout::experimental::OptionsNetCDF Generating XML output for class OptionsReader Generating XML output for class Options::OptionValue Generating XML output for class Output Generating XML output for class ShiftedMetric::ParallelSlicePhase Generating XML output for class ParallelTransform Generating XML output for class ParallelTransformIdentity Generating XML output for class ParDerivFactory Generating XML output for class ParseException Generating XML output for class LaplacePDD::PDD_data Generating XML output for class PetscLib Generating XML output for class PetscSolver Generating XML output for class PhysicsModel Generating XML output for class PhysicsModel::PhysicsModelMonitor Generating XML output for class PncFormat Generating XML output for class Power Generating XML output for class PowerSolver Generating XML output for class produceCombinations Generating XML output for class PromoteType Generating XML output for class pvode::pvbbddata_type Generating XML output for class PvodeSolver Generating XML output for class RangeIterator Generating XML output for class BoundaryRegionPar::RealPoint Generating XML output for class Region Generating XML output for class RegionStats Generating XML output for class RegisterInFactory Generating XML output for class RegisterInFactory< Solver, DerivedType > Generating XML output for class registerMethod Generating XML output for class RK3SSP Generating XML output for class RK4SIMPLEScheme Generating XML output for class RK4Solver Generating XML output for class RKF34Scheme Generating XML output for class RKF45Scheme Generating XML output for class RKGenericSolver Generating XML output for class RKScheme Generating XML output for class RKSchemeFactory Generating XML output for class RunMetrics Generating XML ou/builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/include/bout/paralleltransform.hxx:265: warning: The following parameter of ShiftedMetric::shiftZ(const Field3D &f, const Field2D &zangle, const std::string ®ion="RGN_NOX") const is not documented: parameter 'region' /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/include/bout/paralleltransform.hxx:284: warning: The following parameter of ShiftedMetric::shiftZ(const Field3D &f, const Tensor< dcomplex > &phs, const YDirectionType y_direction_out, const std::string ®ion="RGN_NOX") const is not documented: parameter 'region' /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/include/bout/index_derivs_interface.hxx:276: warning: argument 'v' of command @param is not found in the argument list of bout::derivatives::index::VDDX(const T &vel, const T &f, CELL_LOC outloc=CELL_DEFAULT, const std::string &method="DEFAULT", const std::string ®ion="RGN_NOBNDRY") /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/include/bout/index_derivs_interface.hxx:292: warning: The following parameter of bout::derivatives::index::VDDX(const T &vel, const T &f, CELL_LOC outloc=CELL_DEFAULT, const std::string &method="DEFAULT", const std::string ®ion="RGN_NOBNDRY") is not documented: parameter 'vel' /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/include/bout/sys/variant.hxx:81: warning: Found unknown command '\v' /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/include/bout/sys/variant.hxx:118: warning: Found unknown command '\v' tput for class SaveDerivsOp Generating XML output for class SaveVarOp Generating XML output for class Set Generating XML output for class ShiftedMetric Generating XML output for class SlepcLib Generating XML output for class SlepcSolver Generating XML output for class snes_info Generating XML output for class SNESSolver Generating XML output for class Solver Generating XML output for class SolverFactory Generating XML output for class SpecificInd Generating XML output for class pvode::SpgmrMemRec Generating XML output for class SplitFluxDerivativeType Generating XML output for class SplitRK Generating XML output for class LaplaceSPT::SPT_data Generating XML output for class bout::utils::details::StaticCastOrThrow Generating XML output for class stencil Generating XML output for class FV::Stencil1D Generating XML output for class Subtract Generating XML output for class SurfaceIter Generating XML output for class Tensor Generating XML output for class Timer Generating XML output for class Timer::timer_info Generating XML output for class bout::utils::details::ToString Generating XML output for class TypeContainer Generating XML output for class Uncopyable Generating XML output for class FV::Upwind Generating XML output for class Datafile::VarStr Generating XML output for class Solver::VarStr Generating XML output for class Vector2D Generating XML output for class Vector3D Generating XML output for class LaplaceXZpetsc::YSlice Generating XML output for namespace @106 Generating XML output for namespace @107 Generating XML output for namespace @175 Generating XML output for namespace @176 Generating XML output for namespace @177 Generating XML output for namespace @189 Generating XML output for namespace @205 Generating XML output for namespace @207 Generating XML output for namespace @209 Generating XML output for namespace @211 Generating XML output for namespace @213 Generating XML output for namespace @215 Generating XML output for namespace @217 Generating XML output for namespace @219 Generating XML output for namespace @221 Generating XML output for namespace @223 Generating XML output for namespace @225 Generating XML output for namespace @235 Generating XML output for namespace @240 Generating XML output for namespace @242 Generating XML output for namespace @244 Generating XML output for namespace @247 Generating XML output for namespace @251 Generating XML output for namespace @256 Generating XML output for namespace @4 Generating XML output for namespace bout Generating XML output for namespace bout::derivatives Generating XML output for namespace bout::derivatives::index Generating XML output for namespace bout::experimental Generating XML output for namespace bout::fft Generating XML output for namespace bout::globals Generating XML output for namespace bout::inversion Generating XML output for namespace bout::utils Generating XML output for namespace bout::utils::details Generating XML output for namespace FV Generating XML output for namespace gen_fieldops Generating XML output for namespace netCDF Generating XML output for namespace pvode Generating XML output for namespace SI Generating XML output for namespace std Generating XML output for file boundary_factory.hxx Generating XML output for file boundary_op.hxx Generating XML output for file boundary_region.hxx Generating XML output for file boundary_standard.hxx Generating XML output for file bout.hxx Generating XML output for file array.hxx Generating XML output for file assert.hxx Generating XML output for file constants.hxx Generating XML output for file coordinates.hxx Generating XML output for file deprecated.hxx Generating XML output for file deriv_store.hxx Generating XML output for file expr.hxx Generating XML output for file field_visitor.hxx Generating XML output for file fieldgroup.hxx Generating XML output for file format.hxx Generating XML output for file fv_ops.hxx Generating XML output for file generic_factory.hxx Generating XML output for file globalfield.hxx Generating XML output for file griddata.hxx Generating XML output for file index/builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/include/difops.hxx:208: warning: The following parameter of Grad2_par2(const Field2D &f, CELL_LOC outloc=CELL_DEFAULT, const std::string &method="DEFAULT") is not documented: parameter 'method' /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/include/difops.hxx:299: warning: The following parameter of Div_par_K_Grad_par(BoutReal kY, const Field2D &f, CELL_LOC outloc=CELL_DEFAULT) is not documented: parameter 'outloc' /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/include/gyro_average.hxx:52: warning: argument 'flags' of command @param is not found in the argument list of gyroPade0(const Field3D &f, const Field3D &rho, int inner_boundary_flags, int outer_boundary_flags) /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/include/gyro_average.hxx:61: warning: The following parameters of gyroPade0(const Field3D &f, const Field3D &rho, int inner_boundary_flags, int outer_boundary_flags) are not documented: parameter 'inner_boundary_flags' parameter 'outer_boundary_flags' /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/include/gyro_average.hxx:84: warning: argument 'flags' of command @param is not found in the argument list of gyroPade1(const Field3D &f, const Field3D &rho, int inner_boundary_flags, int outer_boundary_flags) /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/include/gyro_average.hxx:91: warning: The following parameters of gyroPade1(const Field3D &f, const Field3D &rho, int inner_boundary_flags, int outer_boundary_flags) are not documented: parameter 'inner_boundary_flags' parameter 'outer_boundary_flags' /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/include/gyro_average.hxx:120: warning: argument 'flags' of command @param is not found in the argument list of gyroPade2(const Field3D &f, const Field3D &rho, int inner_boundary_flags, int outer_boundary_flags) /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/include/gyro_average.hxx:131: warning: The following parameters of gyroPade2(const Field3D &f, const Field3D &rho, int inner_boundary_flags, int outer_boundary_flags) are not documented: parameter 'inner_boundary_flags' parameter 'outer_boundary_flags' _derivs.hxx Generating XML output for file index_derivs_interface.hxx Generating XML output for file laplacexy.hxx Generating XML output for file laplacexz.hxx Generating XML output for file invertable_operator.hxx Generating XML output for file macro_for_each.hxx Generating XML output for file mesh.hxx Generating XML output for file monitor.hxx Generating XML output for file openmpwrap.hxx Generating XML output for file paralleltransform.hxx Generating XML output for file petsclib.hxx Generating XML output for file physicsmodel.hxx Generating XML output for file region.hxx Generating XML output for file rkscheme.hxx Generating XML output for file rvec.hxx Generating XML output for file scorepwrapper.hxx Generating XML output for file slepclib.hxx Generating XML output for file snb.hxx Generating XML output for file solver.hxx Generating XML output for file solverfactory.hxx Generating XML output for file surfaceiter.hxx Generating XML output for file expressionparser.hxx Generating XML output for file gettext.hxx Generating XML output for file range.hxx Generating XML output for file timer.hxx Generating XML output for file type_name.hxx Generating XML output for file uncopyable.hxx Generating XML output for file variant.hxx Generating XML output for file template_combinations.hxx Generating XML output for file traits.hxx Generating XML output for file bout_types.hxx Generating XML output for file boutcomm.hxx Generating XML output for file boutexception.hxx Generating XML output for file boutmain.hxx Generating XML output for file cyclic_reduction.hxx Generating XML output for file datafile.hxx Generating XML output for file dataformat.hxx Generating XML output for file dcomplex.hxx Generating XML output for file derivs.hxx Generating XML output for file difops.hxx Generating XML output for file fft.hxx Generating XML output for file field.hxx Generating XML output for file field2d.hxx Generating XML output for file field3d.hxx Generating XML output for file field_data.hxx Generating XML output for file field_factory.hxx Generating XML output for file fieldperp.hxx Generating XML output for file globals.hxx Generating XML output for file gyro_average.hxx Generating XML output for file initialprofiles.hxx Generating XML output for file interpolation.hxx Generating XML output for file interpolation_factory.hxx Generating XML output for file invert_laplace.hxx Generating XML output for file invert_parderiv.hxx Generating XML output for file lapack_routines.hxx Generating XML output for file mask.hxx Generating XML output for file msg_stack.hxx Generating XML output for file multiostream.hxx Generating XML output for file options.hxx Generating XML output for file options_netcdf.hxx Generating XML output for file optionsreader.hxx Generating XML output for file output.hxx Generating XML output for file parallel_boundary_op.hxx Generating XML output for file parallel_boundary_region.hxx Generating XML output for file band.h Generating XML output for file cvdiag.h Generating XML output for file cvode.h Generating XML output for file cvspgmr.h Generating XML output for file iterativ.h Generating XML output for file llnlmath.h Generating XML output for file llnltyps.h Generating XML output for file nvector.h Generating XML output for file pvbbdpre.h Generating XML output for file smalldense.h Generating XML output for file spgmr.h Generating XML output for file vector.h Generating XML output for file smoothing.hxx Generating XML output for file sourcex.hxx Generating XML output for file stencils.hxx Generating XML output for file unused.hxx Generating XML output for file utils.hxx Generating XML output for file vecops.hxx Generating XML output for file vector2d.hxx Generating XML output for file vector3d.hxx Generating XML output for file where.hxx Generating XML output for file bout++.cxx Generating XML output for file field.cxx Generating XML output for file field2d.cxx Generating XML output for file field3d.cxx Generating XML output for file field_data.cxx Generating XML output for file field_factory.cxx Generating XML outp/builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/mesh/difops.cxx:274: warning: The following parameter of Grad2_par2(const Field2D &f, CELL_LOC outloc=CELL_DEFAULT, const std::string &method="DEFAULT") is not documented: parameter 'method' /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/mesh/difops.cxx:287: warning: The following parameter of Div_par_K_Grad_par(BoutReal kY, const Field2D &f, CELL_LOC outloc=CELL_DEFAULT) is not documented: parameter 'outloc' ut for file fieldgenerators.cxx Generating XML output for file fieldgenerators.hxx Generating XML output for file fieldgroup.cxx Generating XML output for file fieldperp.cxx Generating XML output for file gen_fieldops.py Generating XML output for file generated_fieldops.cxx Generating XML output for file globalfield.cxx Generating XML output for file initialprofiles.cxx Generating XML output for file vecops.cxx Generating XML output for file vector2d.cxx Generating XML output for file vector3d.cxx Generating XML output for file where.cxx Generating XML output for file datafile.cxx Generating XML output for file dataformat.cxx Generating XML output for file formatfactory.cxx Generating XML output for file formatfactory.hxx Generating XML output for file emptyformat.hxx Generating XML output for file h5_format.cxx Generating XML output for file h5_format.hxx Generating XML output for file nc_format.cxx Generating XML output for file nc_format.hxx Generating XML output for file ncxx4.cxx Generating XML output for file ncxx4.hxx Generating XML output for file pnetcdf.cxx Generating XML output for file pnetcdf.hxx Generating XML output for file fft_fftw.cxx Generating XML output for file lapack_routines.cxx Generating XML output for file cyclic_laplace.cxx Generating XML output for file cyclic_laplace.hxx Generating XML output for file multigrid_alg.cxx Generating XML output for file multigrid_laplace.cxx Generating XML output for file multigrid_laplace.hxx Generating XML output for file multigrid_solver.cxx Generating XML output for file mumps_laplace.cxx Generating XML output for file mumps_laplace.hxx Generating XML output for file naulin_laplace.cxx Generating XML output for file naulin_laplace.hxx Generating XML output for file pdd.cxx Generating XML output for file pdd.hxx Generating XML output for file petsc_laplace.cxx Generating XML output for file petsc_laplace.hxx Generating XML output for file serial_band.cxx Generating XML output for file serial_band.hxx Generating XML output for file serial_tri.cxx Generating XML output for file serial_tri.hxx Generating XML output for file shoot_laplace.cxx Generating XML output for file shoot_laplace.hxx Generating XML output for file spt.cxx Generating XML output for file spt.hxx Generating XML output for file invert_laplace.cxx Generating XML output for file laplacefactory.cxx Generating XML output for file laplacefactory.hxx Generating XML output for file laplacexy.cxx Generating XML output for file laplacexz-cyclic.cxx Generating XML output for file laplacexz-cyclic.hxx Generating XML output for file laplacexz-petsc.cxx Generating XML output for file laplacexz-petsc.hxx Generating XML output for file laplacexz.cxx Generating XML output for file cyclic.cxx Generating XML output for file cyclic.hxx Generating XML output for file invert_parderiv.cxx Generating XML output for file parderiv_factory.cxx Generating XML output for file parderiv_factory.hxx Generating XML output for file boundary_factory.cxx Generating XML output for file boundary_region.cxx Generating XML output for file boundary_standard.cxx Generating XML output for file coordinates.cxx Generating XML output for file gridfromfile.cxx Generating XML output for file gridfromoptions.cxx Generating XML output for file difops.cxx Generating XML output for file fv_ops.cxx Generating XML output for file boutmesh.cxx Generating XML output for file boutmesh.hxx Generating XML output for file index_derivs.cxx Generating XML output for file interpolation.cxx Generating XML output for file bilinear.cxx Generating XML output for file hermite_spline.cxx Generating XML output for file interpolation_factory.cxx Generating XML output for file lagrange_4pt.cxx Generating XML output for file monotonic_hermite_spline.cxx Generating XML output for file mesh.cxx Generating XML output for file meshfactory.cxx Generating XML output for file meshfactory.hxx Generating XML output for file fci.cxx Generating XML output for file fci.hxx Generating XML output for file identity.cxx Generating XML output for file shiftedmetric.cxx Generating /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/include/gyro_average.hxx:52: warning: argument 'flags' of command @param is not found in the argument list of gyroPade0(const Field3D &f, const Field3D &rho, int inner_boundary_flags, int outer_boundary_flags) /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/physics/gyro_average.cxx:78: warning: The following parameters of gyroPade0(const Field3D &f, const Field3D &rho, int inner_boundary_flags, int outer_boundary_flags) are not documented: parameter 'inner_boundary_flags' parameter 'outer_boundary_flags' /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/include/gyro_average.hxx:84: warning: argument 'flags' of command @param is not found in the argument list of gyroPade1(const Field3D &f, const Field3D &rho, int inner_boundary_flags, int outer_boundary_flags) /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/physics/gyro_average.cxx:119: warning: The following parameters of gyroPade1(const Field3D &f, const Field3D &rho, int inner_boundary_flags, int outer_boundary_flags) are not documented: parameter 'inner_boundary_flags' parameter 'outer_boundary_flags' /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/include/gyro_average.hxx:120: warning: argument 'flags' of command @param is not found in the argument list of gyroPade2(const Field3D &f, const Field3D &rho, int inner_boundary_flags, int outer_boundary_flags) /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/physics/gyro_average.cxx:149: warning: The following parameters of gyroPade2(const Field3D &f, const Field3D &rho, int inner_boundary_flags, int outer_boundary_flags) are not documented: parameter 'inner_boundary_flags' parameter 'outer_boundary_flags' XML output for file parallel_boundary_op.cxx Generating XML output for file parallel_boundary_region.cxx Generating XML output for file surfaceiter.cxx Generating XML output for file gyro_average.cxx Generating XML output for file physicsmodel.cxx Generating XML output for file smoothing.cxx Generating XML output for file snb.cxx Generating XML output for file sourcex.cxx Generating XML output for file arkode.cxx Generating XML output for file arkode.hxx Generating XML output for file cvode.cxx Generating XML output for file cvode.hxx Generating XML output for file euler.cxx Generating XML output for file euler.hxx Generating XML output for file ida.cxx Generating XML output for file ida.hxx Generating XML output for file imex-bdf2.cxx Generating XML output for file imex-bdf2.hxx Generating XML output for file karniadakis.cxx Generating XML output for file karniadakis.hxx Generating XML output for file petsc.cxx Generating XML output for file petsc.hxx Generating XML output for file power.cxx Generating XML output for file power.hxx Generating XML output for file pvode.cxx Generating XML output for file pvode.hxx Generating XML output for file rk3-ssp.cxx Generating XML output for file rk3-ssp.hxx Generating XML output for file rk4.cxx Generating XML output for file rk4.hxx Generating XML output for file cashkarp.cxx Generating XML output for file cashkarp.hxx Generating XML output for file rk4simple.cxx Generating XML output for file rk4simple.hxx Generating XML output for file rkf34.cxx Generating XML output for file rkf34.hxx Generating XML output for file rkf45.cxx Generating XML output for file rkf45.hxx Generating XML output for file rkgeneric.cxx Generating XML output for file rkgeneric.hxx Generating XML output for file rkscheme.cxx Generating XML output for file rkschemefactory.cxx Generating XML output for file rkschemefactory.hxx Generating XML output for file slepc.cxx Generating XML output for file slepc.hxx Generating XML output for file snes.cxx Generating XML output for file snes.hxx Generating XML output for file split-rk.cxx Generating XML output for file split-rk.hxx Generating XML output for file solver.cxx Generating XML output for file solverfactory.cxx Generating XML output for file bout_types.cxx Generating XML output for file boutcomm.cxx Generating XML output for file boutexception.cxx Generating XML output for file derivs.cxx Generating XML output for file expressionparser.cxx Generating XML output for file msg_stack.cxx Generating XML output for file options.cxx Generating XML output for file optionparser.hxx Generating XML output for file options_ini.cxx Generating XML output for file options_ini.hxx Generating XML output for file options_netcdf.cxx Generating XML output for file optionsreader.cxx Generating XML output for file output.cxx Generating XML output for file petsclib.cxx Generating XML output for file range.cxx Generating XML output for file slepclib.cxx Generating XML output for file timer.cxx Generating XML output for file type_name.cxx Generating XML output for file utils.cxx Generate XML output for dir /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/solver/impls/arkode/ Generate XML output for dir /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/include/bout/ Generate XML output for dir /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/mesh/impls/bout/ Generate XML output for dir /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/solver/impls/rkgeneric/impls/cashkarp/ Generate XML output for dir /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/solver/impls/cvode/ Generate XML output for dir /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/invert/laplace/impls/cyclic/ Generate XML output for dir /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/invert/parderiv/impls/cyclic/ Generate XML output for dir /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/invert/laplacexz/impls/cyclic/ Generate XML output for dir /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/mesh/data/ Generate XML output for dir /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/solver/impls/euler/ Generate XML output for dir /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/field/ Generate XML output for dir /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/fileio/ Generate XML output for dir /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/fileio/impls/hdf5/ Generate XML output for dir /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/solver/impls/ida/ Generate XML output for dir /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/solver/impls/imex-bdf2/ Generate XML output for dir /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/invert/parderiv/impls/ Generate XML output for dir /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/fileio/impls/ Generate XML output for dir /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/invert/laplace/impls/ Generate XML output for dir /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/mesh/impls/ Generate XML output for dir /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/solver/impls/ Generate XML output for dir /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/solver/impls/rkgeneric/impls/ Generate XML output for dir /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/invert/laplacexz/impls/ Generate XML output for dir /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/include/ Generate XML output for dir /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/mesh/interpolation/ Generate XML output for dir /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/include/bout/invert/ Generate XML output for dir /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/invert/ Generate XML output for dir /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/solver/impls/karniadakis/ Generate XML output for dir /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/invert/laplace/ Generate XML output for dir /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/invert/laplacexy/ Generate XML output for dir /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/invert/laplacexz/ Generate XML output for dir /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/mesh/ Generate XML output for dir /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/invert/laplace/impls/multigrid/ Generate XML output for dir /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/invert/laplace/impls/mumps/ Generate XML output for dir /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/invert/laplace/impls/naulin/ Generate XML output for dir /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/fileio/impls/netcdf/ Generate XML output for dir /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/fileio/impls/netcdf4/ Generate XML output for dir /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/sys/options/ Generate XML output for dir /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/mesh/parallel/ Generate XML output for dir /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/invert/parderiv/ Generate XML output for dir /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/invert/laplace/impls/pdd/ Generate XML output for dir /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/invert/laplace/impls/petsc/ Generate XML output for dir /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/solver/impls/petsc/ Generate XML output for dir /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/invert/laplacexz/impls/petsc/ Generate XML output for dir /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/physics/ Generate XML output for dir /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/fileio/impls/pnetcdf/ Generate XML output for dir /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/solver/impls/power/ Generate XML output for dir /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/solver/impls/pvode/ Generate XML output for dir /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/include/pvode/ Generate XML output for dir /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/solver/impls/rk3-ssp/ Generate XML output for dir /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/solver/impls/rk4/ Generate XML output for dir /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/solver/impls/rkgeneric/impls/rk4simple/ Generate XML output for dir /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/solver/impls/rkgeneric/impls/rkf34/ Generate XML output for dir /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/solver/impls/rkgeneric/impls/rkf45/ Generate XML output for dir /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/solver/impls/rkgeneric/ Generate XML output for dir /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/invert/laplace/impls/serial_band/ Generate XML output for dir /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/invert/laplace/impls/serial_tri/ Generate XML output for dir /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/invert/laplace/impls/shoot/ Generate XML output for dir /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/solver/impls/slepc/ Generate XML output for dir /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/solver/impls/snes/ Generate XML output for dir /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/solver/ Generate XML output for dir /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/solver/impls/split-rk/ Generate XML output for dir /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/invert/laplace/impls/spt/ Generate XML output for dir /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/ Generate XML output for dir /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/src/sys/ Generate XML output for dir /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/include/bout/sys/ Generating XML output for the main page Running plantuml with JAVA... lookup cache used 17691/65536 hits=275745 misses=18151 finished... PYTHONPATH=../tools/pylib:$PYTHONPATH sphinx-build-3 -b html sphinx/ html/ Running Sphinx v3.1.2 breathe module not installed recommonmark module not installed making output directory... done WARNING: html_static_path entry '_static' does not exist building [mo]: targets for 0 po files that are out of date building [html]: targets for 40 source files that are out of date updating environment: [new config] 40 added, 0 changed, 0 removed reading sources... [ 2%] _apidoc/boutdata /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/tools/pylib/boutdata/data.py:191: SyntaxWarning: "is" with a literal. Did you mean "=="? if sectionname is "root": /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/tools/pylib/boutdata/data.py:206: SyntaxWarning: "is not" with a literal. Did you mean "!="? if nested_sectionname is not "": /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/tools/pylib/boutdata/data.py:217: SyntaxWarning: "is not" with a literal. Did you mean "!="? if nested_sectionname is not "": reading sources... [ 5%] _apidoc/boututils /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/tools/pylib/boututils/options.py:94: SyntaxWarning: "is not" with a literal. Did you mean "!="? if len(line) > 0 and line[0] is not '#': No mlab available reading sources... [ 7%] _apidoc/zoidberg /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/tools/pylib/zoidberg/poloidal_grid.py:32: UserWarning: Couldn't import matplotlib, plotting not available. warnings.warn("Couldn't import matplotlib, plotting not available.") /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/tools/pylib/zoidberg/rzline.py:18: UserWarning: Couldn't import matplotlib, plotting not available. warnings.warn("Couldn't import matplotlib, plotting not available.") /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/tools/pylib/zoidberg/plot.py:12: UserWarning: Couldn't import matplotlib, plotting not available. warnings.warn("Couldn't import matplotlib, plotting not available.") reading sources... [ 10%] api_reference reading sources... [ 12%] developer_docs/code_layout reading sources... [ 15%] developer_docs/contributing reading sources... [ 17%] developer_docs/data_types reading sources... [ 20%] developer_docs/file_io reading sources... 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[100%] user_docs/variable_init WARNING: missing attribute mentioned in :members: or __all__: module boutdata, attribute gen_surface WARNING: missing attribute mentioned in :members: or __all__: module boutdata, attribute pol_slice WARNING: autodoc: failed to import module 'cbdtoeqdsk' from module 'boutdata'; the following exception was raised: No module named 'bunch' /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/tools/pylib/boutdata/collect.py:docstring of boutdata.collect:1: WARNING: duplicate object description of boutdata.collect, other instance in _apidoc/boutdata, use :noindex: for one of them WARNING: autodoc: failed to import module 'griddata' from module 'boutdata'; the following exception was raised: No module named 'matplotlib' WARNING: autodoc: failed to import module 'mayavi2' from module 'boutdata'; the following exception was raised: No module named 'enthought' WARNING: autodoc: failed to import module 'mms' from module 'boutdata'; the following exception was raised: No module named 'sympy' /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/tools/pylib/boutdata/__init__.py:docstring of boutdata:1: WARNING: duplicate object description of boutdata, other instance in _apidoc/boutdata, use :noindex: for one of them /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/tools/pylib/boutdata/__init__.py:docstring of boutdata.attributes:1: WARNING: duplicate object description of boutdata.attributes, other instance in _apidoc/boutdata, use :noindex: for one of them /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/tools/pylib/boutdata/__init__.py:docstring of boutdata.collect:1: WARNING: duplicate object description of boutdata.collect, other instance in _apidoc/boutdata, use :noindex: for one of them /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/tools/pylib/boutdata/restart.py:docstring of boutdata.restart.normal:55: WARNING: Footnote [1] is not referenced. WARNING: missing attribute mentioned in :members: or __all__: module boututils, attribute calculus WARNING: missing attribute mentioned in :members: or __all__: module boututils, attribute closest_line WARNING: missing attribute mentioned in :members: or __all__: module boututils, attribute fft_deriv WARNING: missing attribute mentioned in :members: or __all__: module boututils, attribute fft_integrate WARNING: missing attribute mentioned in :members: or __all__: module boututils, attribute int_func WARNING: missing attribute mentioned in :members: or __all__: module boututils, attribute linear_regression WARNING: missing attribute mentioned in :members: or __all__: module boututils, attribute mode_structure WARNING: missing attribute mentioned in :members: or __all__: module boututils, attribute run_wrapper WARNING: missing attribute mentioned in :members: or __all__: module boututils, attribute shell WARNING: missing attribute mentioned in :members: or __all__: module boututils, attribute showdata WARNING: autodoc: failed to import module 'analyse_equil_2' from module 'boututils'; the following exception was raised: No module named 'past' WARNING: autodoc: failed to import module 'anim' from module 'boututils'; the following exception was raised: No module named 'tvtk' WARNING: autodoc: failed to import module 'boutgrid' from module 'boututils'; the following exception was raised: No module named 'tvtk' WARNING: autodoc: failed to import module 'contour' from module 'boututils'; the following exception was raised: No module named 'past' WARNING: autodoc: failed to import module 'crosslines' from module 'boututils'; the following exception was raised: No module named 'past' WARNING: autodoc: failed to import module 'efit_analyzer' from module 'boututils'; the following exception was raised: No module named 'past' WARNING: autodoc: failed to import module 'fft_deriv' from module 'boututils'; the following exception was raised: No module named 'past' WARNING: autodoc: failed to import module 'fft_integrate' from module 'boututils'; the following exception was raised: No module named 'past' WARNING: autodoc: failed to import module 'int_func' from module 'boututils'; the following exception was raised: No module named 'past' WARNING: autodoc: failed to import module 'mode_structure' from module 'boututils'; the following exception was raised: No module named 'past' WARNING: autodoc: failed to import module 'moment_xyzt' from module 'boututils'; the following exception was raised: No module named 'past' WARNING: autodoc: failed to import module 'plotdata' from module 'boututils'; the following exception was raised: No module named 'matplotlib' WARNING: autodoc: failed to import module 'plotpolslice' from module 'boututils'; the following exception was raised: No module named 'past' WARNING: autodoc: failed to import module 'radial_grid' from module 'boututils'; the following exception was raised: No module named 'past' WARNING: autodoc: failed to import module 'read_geqdsk' from module 'boututils'; the following exception was raised: No module named 'bunch' WARNING: autodoc: failed to import module 'showdata' from module 'boututils'; the following exception was raised: No module named 'matplotlib' WARNING: autodoc: failed to import module 'surface_average' from module 'boututils'; the following exception was raised: No module named 'past' WARNING: autodoc: failed to import module 'volume_integral' from module 'boututils'; the following exception was raised: No module named 'past' WARNING: missing attribute mentioned in :members: or __all__: module boututils, attribute fft_deriv WARNING: missing attribute mentioned in :members: or __all__: module boututils, attribute fft_integrate WARNING: missing attribute mentioned in :members: or __all__: module boututils, attribute int_func WARNING: missing attribute mentioned in :members: or __all__: module boututils, attribute mode_structure WARNING: missing attribute mentioned in :members: or __all__: module boututils, attribute shell WARNING: missing attribute mentioned in :members: or __all__: module boututils, attribute showdata /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/tools/pylib/boututils/__init__.py:docstring of boututils:1: WARNING: duplicate object description of boututils, other instance in _apidoc/boututils, use :noindex: for one of them /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/tools/pylib/zoidberg/field.py:docstring of zoidberg.field.MagneticField.attributes:1: WARNING: duplicate object description of zoidberg.field.MagneticField.attributes, other instance in _apidoc/zoidberg, use :noindex: for one of them /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/tools/pylib/zoidberg/field.py:docstring of zoidberg.field.MagneticField.boundary:1: WARNING: duplicate object description of zoidberg.field.MagneticField.boundary, other instance in _apidoc/zoidberg, use :noindex: for one of them /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/tools/pylib/zoidberg/__init__.py:docstring of zoidberg:1: WARNING: duplicate object description of zoidberg, other instance in _apidoc/zoidberg, use :noindex: for one of them /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/tools/pylib/zoidberg/__init__.py:docstring of zoidberg.make_maps:1: WARNING: duplicate object description of zoidberg.make_maps, other instance in _apidoc/zoidberg, use :noindex: for one of them /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/tools/pylib/zoidberg/__init__.py:docstring of zoidberg.write_maps:1: WARNING: duplicate object description of zoidberg.write_maps, other instance in _apidoc/zoidberg, use :noindex: for one of them /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/manual/sphinx/api_reference.rst:4: WARNING: toctree glob pattern '_breathe_autogen/*' didn't match any documents /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/manual/sphinx/developer_docs/data_types.rst:75: WARNING: Definition list ends without a blank line; unexpected unindent. /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/manual/sphinx/user_docs/installing.rst:93: WARNING: Block quote ends without a blank line; unexpected unindent. /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/manual/sphinx/user_docs/nonlocal.rst:119: WARNING: malformed hyperlink target. WARNING: missing attribute mentioned in :members: or __all__: module boututils, attribute fft_deriv WARNING: missing attribute mentioned in :members: or __all__: module boututils, attribute fft_integrate WARNING: missing attribute mentioned in :members: or __all__: module boututils, attribute int_func WARNING: missing attribute mentioned in :members: or __all__: module boututils, attribute mode_structure WARNING: missing attribute mentioned in :members: or __all__: module boututils, attribute shell WARNING: missing attribute mentioned in :members: or __all__: module boututils, attribute showdata /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/tools/pylib/boututils/__init__.py:docstring of boututils:1: WARNING: duplicate object description of boututils, other instance in _apidoc/boututils, use :noindex: for one of them /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/tools/pylib/boutdata/__init__.py:docstring of boutdata:1: WARNING: duplicate object description of boutdata, other instance in _apidoc/boutdata, use :noindex: for one of them /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/tools/pylib/boutdata/__init__.py:docstring of boutdata.attributes:1: WARNING: duplicate object description of boutdata.attributes, other instance in _apidoc/boutdata, use :noindex: for one of them /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/tools/pylib/boutdata/__init__.py:docstring of boutdata.collect:1: WARNING: duplicate object description of boutdata.collect, other instance in _apidoc/boutdata, use :noindex: for one of them docstring of boutcore.Laplace:2: WARNING: Block quote ends without a blank line; unexpected unindent. docstring of boutcore.Laplace:5: WARNING: Unexpected section title. Parameters ---------- docstring of boutcore.Laplace:10: WARNING: Unexpected section title. Returns ------- docstring of boutcore.create3D:3: WARNING: Unexpected indentation. docstring of boutcore:1: WARNING: duplicate object description of boutcore, other instance in user_docs/python_boutcore, use :noindex: for one of them docstring of boutcore:1: WARNING: duplicate object description of boutcore, other instance in user_docs/python_boutcore, use :noindex: for one of them docstring of boutcore.Coordinates:1: WARNING: duplicate object description of boutcore.Coordinates, other instance in user_docs/python_boutcore, use :noindex: for one of them docstring of boutcore.D2DX2:1: WARNING: duplicate object description of boutcore.D2DX2, other instance in user_docs/python_boutcore, use :noindex: for one of them docstring of boutcore.D2DY2:1: WARNING: duplicate object description of boutcore.D2DY2, other instance in user_docs/python_boutcore, use :noindex: for one of them docstring of boutcore.D2DZ2:1: WARNING: duplicate object description of boutcore.D2DZ2, other instance in user_docs/python_boutcore, use :noindex: for one of them docstring of boutcore.DDX:1: WARNING: duplicate object description of boutcore.DDX, other instance in user_docs/python_boutcore, use :noindex: for one of them docstring of boutcore.DDY:1: WARNING: duplicate object description of boutcore.DDY, other instance in user_docs/python_boutcore, use :noindex: for one of them docstring of boutcore.DDZ:1: WARNING: duplicate object description of boutcore.DDZ, other instance in user_docs/python_boutcore, use :noindex: for one of them docstring of boutcore.Div_par:1: WARNING: duplicate object description of boutcore.Div_par, other instance in user_docs/python_boutcore, use :noindex: for one of them docstring of boutcore.FDDX:1: WARNING: duplicate object description of boutcore.FDDX, other instance in user_docs/python_boutcore, use :noindex: for one of them docstring of boutcore.FDDY:1: WARNING: duplicate object description of boutcore.FDDY, other instance in user_docs/python_boutcore, use :noindex: for one of them docstring of boutcore.FDDZ:1: WARNING: duplicate object description of boutcore.FDDZ, other instance in user_docs/python_boutcore, use :noindex: for one of them docstring of boutcore.Field2D:1: WARNING: duplicate object description of boutcore.Field2D, other instance in user_docs/python_boutcore, use :noindex: for one of them docstring of boutcore.Field2D.applyBoundary:1: WARNING: duplicate object description of boutcore.Field2D.applyBoundary, other instance in user_docs/python_boutcore, use :noindex: for one of them docstring of boutcore.Field2D.ddt:1: WARNING: duplicate object description of boutcore.Field2D.ddt, other instance in user_docs/python_boutcore, use :noindex: for one of them docstring of boutcore.Field2D.fromBoutOutputs:1: WARNING: duplicate object description of boutcore.Field2D.fromBoutOutputs, other instance in user_docs/python_boutcore, use :noindex: for one of them docstring of boutcore.Field2D.fromCollect:1: WARNING: duplicate object description of boutcore.Field2D.fromCollect, other instance in user_docs/python_boutcore, use :noindex: for one of them docstring of boutcore.Field2D.fromMesh:1: WARNING: duplicate object description of boutcore.Field2D.fromMesh, other instance in user_docs/python_boutcore, use :noindex: for one of them docstring of boutcore.Field2D.get:1: WARNING: duplicate object description of boutcore.Field2D.get, other instance in user_docs/python_boutcore, use :noindex: for one of them docstring of boutcore.Field2D.getAll:1: WARNING: duplicate object description of boutcore.Field2D.getAll, other instance in user_docs/python_boutcore, use :noindex: for one of them docstring of boutcore.Field2D.getLocation:1: WARNING: duplicate object description of boutcore.Field2D.getLocation, other instance in user_docs/python_boutcore, use :noindex: for one of them looking for now-outdated files... docstring of boutcore.Field2D.isAllocated:1: WARNING: duplicate object description of boutcore.Field2D.isAllocated, other instance in user_docs/python_boutcore, use :noindex: for one of them docstring of boutcore.Field2D.set:1: WARNING: duplicate object description of boutcore.Field2D.set, other instance in user_docs/python_boutcore, use :noindex: for one of them docstring of boutcore.Field2D.setAll:1: WARNING: duplicate object description of boutcore.Field2D.setAll, other instance in user_docs/python_boutcore, use :noindex: for one of them docstring of boutcore.Field2D.setLocation:1: WARNING: duplicate object description of boutcore.Field2D.setLocation, other instance in user_docs/python_boutcore, use :noindex: for one of them docstring of boutcore.Field3D:1: WARNING: duplicate object description of boutcore.Field3D, other instance in user_docs/python_boutcore, use :noindex: for one of them docstring of boutcore.Field3D.applyBoundary:1: WARNING: duplicate object description of boutcore.Field3D.applyBoundary, other instance in user_docs/python_boutcore, use :noindex: for one of them docstring of boutcore.Field3D.ddt:1: WARNING: duplicate object description of boutcore.Field3D.ddt, other instance in user_docs/python_boutcore, use :noindex: for one of them docstring of boutcore.Field3D.fromBoutOutputs:1: WARNING: duplicate object description of boutcore.Field3D.fromBoutOutputs, other instance in user_docs/python_boutcore, use :noindex: for one of them docstring of boutcore.Field3D.fromCollect:1: WARNING: duplicate object description of boutcore.Field3D.fromCollect, other instance in user_docs/python_boutcore, use :noindex: for one of them docstring of boutcore.Field3D.fromMesh:1: WARNING: duplicate object description of boutcore.Field3D.fromMesh, other instance in user_docs/python_boutcore, use :noindex: for one of them docstring of boutcore.Field3D.get:1: WARNING: duplicate object description of boutcore.Field3D.get, other instance in user_docs/python_boutcore, use :noindex: for one of them docstring of boutcore.Field3D.getAll:1: WARNING: duplicate object description of boutcore.Field3D.getAll, other instance in user_docs/python_boutcore, use :noindex: for one of them docstring of boutcore.Field3D.getLocation:1: WARNING: duplicate object description of boutcore.Field3D.getLocation, other instance in user_docs/python_boutcore, use :noindex: for one of them docstring of boutcore.Field3D.isAllocated:1: WARNING: duplicate object description of boutcore.Field3D.isAllocated, other instance in user_docs/python_boutcore, use :noindex: for one of them docstring of boutcore.Field3D.set:1: WARNING: duplicate object description of boutcore.Field3D.set, other instance in user_docs/python_boutcore, use :noindex: for one of them docstring of boutcore.Field3D.setAll:1: WARNING: duplicate object description of boutcore.Field3D.setAll, other instance in user_docs/python_boutcore, use :noindex: for one of them docstring of boutcore.Field3D.setLocation:1: WARNING: duplicate object description of boutcore.Field3D.setLocation, other instance in user_docs/python_boutcore, use :noindex: for one of them docstring of boutcore.Grad_par:1: WARNING: duplicate object description of boutcore.Grad_par, other instance in user_docs/python_boutcore, use :noindex: for one of them docstring of boutcore.Grad_perp:1: WARNING: duplicate object description of boutcore.Grad_perp, other instance in user_docs/python_boutcore, use :noindex: for one of them docstring of boutcore.Grad_perp_dot_Grad_perp:1: WARNING: duplicate object description of boutcore.Grad_perp_dot_Grad_perp, other instance in user_docs/python_boutcore, use :noindex: for one of them docstring of boutcore.Laplace:1: WARNING: duplicate object description of boutcore.Laplace, other instance in user_docs/python_boutcore, use :noindex: for one of them docstring of boutcore.Laplace:2: WARNING: Block quote ends without a blank line; unexpected unindent. docstring of boutcore.Laplace:5: WARNING: Unexpected section title. Parameters ---------- docstring of boutcore.Laplace:10: WARNING: Unexpected section title. Returns ------- docstring of boutcore.Laplacian:1: WARNING: duplicate object description of boutcore.Laplacian, other instance in user_docs/python_boutcore, use :noindex: for one of them docstring of boutcore.Laplacian.setCoefA:1: WARNING: duplicate object description of boutcore.Laplacian.setCoefA, other instance in user_docs/python_boutcore, use :noindex: for one of them docstring of boutcore.Laplacian.setCoefC:1: WARNING: duplicate object description of boutcore.Laplacian.setCoefC, other instance in user_docs/python_boutcore, use :noindex: for one of them docstring of boutcore.Laplacian.setCoefC1:1: WARNING: duplicate object description of boutcore.Laplacian.setCoefC1, other instance in user_docs/python_boutcore, use :noindex: for one of them docstring of boutcore.Laplacian.setCoefC2:1: WARNING: duplicate object description of boutcore.Laplacian.setCoefC2, other instance in user_docs/python_boutcore, use :noindex: for one of them docstring of boutcore.Laplacian.setCoefD:1: WARNING: duplicate object description of boutcore.Laplacian.setCoefD, other instance in user_docs/python_boutcore, use :noindex: for one of them docstring of boutcore.Laplacian.setCoefEx:1: WARNING: duplicate object description of boutcore.Laplacian.setCoefEx, other instance in user_docs/python_boutcore, use :noindex: for one of them docstring of boutcore.Laplacian.setCoefEz:1: WARNING: duplicate object description of boutcore.Laplacian.setCoefEz, other instance in user_docs/python_boutcore, use :noindex: for one of them docstring of boutcore.Laplacian.setCoefs:1: WARNING: duplicate object description of boutcore.Laplacian.setCoefs, other instance in user_docs/python_boutcore, use :noindex: for one of them docstring of boutcore.Laplacian.solve:1: WARNING: duplicate object description of boutcore.Laplacian.solve, other instance in user_docs/python_boutcore, use :noindex: for one of them docstring of boutcore.Mesh:1: WARNING: duplicate object description of boutcore.Mesh, other instance in user_docs/python_boutcore, use :noindex: for one of them docstring of boutcore.Mesh.__init__:4: WARNING: Unexpected section title. Parameter --------- docstring of boutcore.Mesh.communicate:1: WARNING: duplicate object description of boutcore.Mesh.communicate, other instance in user_docs/python_boutcore, use :noindex: for one of them docstring of boutcore.Mesh.coordinates:1: WARNING: duplicate object description of boutcore.Mesh.coordinates, other instance in user_docs/python_boutcore, use :noindex: for one of them docstring of boutcore.Mesh.getGlobal:1: WARNING: duplicate object description of boutcore.Mesh.getGlobal, other instance in user_docs/python_boutcore, use :noindex: for one of them docstring of boutcore.Mesh.normalise:1: WARNING: duplicate object description of boutcore.Mesh.normalise, other instance in user_docs/python_boutcore, use :noindex: for one of them docstring of boutcore.Options:1: WARNING: duplicate object description of boutcore.Options, other instance in user_docs/python_boutcore, use :noindex: for one of them docstring of boutcore.Options.fromFile:1: WARNING: duplicate object description of boutcore.Options.fromFile, other instance in user_docs/python_boutcore, use :noindex: for one of them docstring of boutcore.Options.get:1: WARNING: duplicate object description of boutcore.Options.get, other instance in user_docs/python_boutcore, use :noindex: for one of them docstring of boutcore.Options.set:1: WARNING: duplicate object description of boutcore.Options.set, other instance in user_docs/python_boutcore, use :noindex: for one of them docstring of boutcore.PhysicsModel:1: WARNING: duplicate object description of boutcore.PhysicsModel, other instance in user_docs/python_boutcore, use :noindex: for one of them docstring of boutcore.PhysicsModel.init:1: WARNING: duplicate object description of boutcore.PhysicsModel.init, other instance in user_docs/python_boutcore, use :noindex: for one of them docstring of boutcore.PhysicsModel.solve:1: WARNING: duplicate object description of boutcore.PhysicsModel.solve, other instance in user_docs/python_boutcore, use :noindex: for one of them docstring of boutcore.PhysicsModel.solve_for:1: WARNING: duplicate object description of boutcore.PhysicsModel.solve_for, other instance in user_docs/python_boutcore, use :noindex: for one of them docstring of boutcore.PhysicsModelBase:1: WARNING: duplicate object description of boutcore.PhysicsModelBase, other instance in user_docs/python_boutcore, use :noindex: for one of them docstring of boutcore.PhysicsModelBase.setInit:1: WARNING: duplicate object description of boutcore.PhysicsModelBase.setInit, other instance in user_docs/python_boutcore, use :noindex: for one of them docstring of boutcore.PhysicsModelBase.setRhs:1: WARNING: duplicate object description of boutcore.PhysicsModelBase.setRhs, other instance in user_docs/python_boutcore, use :noindex: for one of them docstring of boutcore.PythonModelCallback:1: WARNING: duplicate object description of boutcore.PythonModelCallback, other instance in user_docs/python_boutcore, use :noindex: for one of them docstring of boutcore.VDDX:1: WARNING: duplicate object description of boutcore.VDDX, other instance in user_docs/python_boutcore, use :noindex: for one of them docstring of boutcore.VDDY:1: WARNING: duplicate object description of boutcore.VDDY, other instance in user_docs/python_boutcore, use :noindex: for one of them docstring of boutcore.VDDZ:1: WARNING: duplicate object description of boutcore.VDDZ, other instance in user_docs/python_boutcore, use :noindex: for one of them docstring of boutcore.Vector2D:1: WARNING: duplicate object description of boutcore.Vector2D, other instance in user_docs/python_boutcore, use :noindex: for one of them docstring of boutcore.Vector2D.x:1: WARNING: duplicate object description of boutcore.Vector2D.x, other instance in user_docs/python_boutcore, use :noindex: for one of them docstring of boutcore.Vector2D.y:1: WARNING: duplicate object description of boutcore.Vector2D.y, other instance in user_docs/python_boutcore, use :noindex: for one of them docstring of boutcore.Vector2D.z:1: WARNING: duplicate object description of boutcore.Vector2D.z, other instance in user_docs/python_boutcore, use :noindex: for one of them docstring of boutcore.Vector3D:1: WARNING: duplicate object description of boutcore.Vector3D, other instance in user_docs/python_boutcore, use :noindex: for one of them docstring of boutcore.Vector3D.x:1: WARNING: duplicate object description of boutcore.Vector3D.x, other instance in user_docs/python_boutcore, use :noindex: for one of them docstring of boutcore.Vector3D.y:1: WARNING: duplicate object description of boutcore.Vector3D.y, other instance in user_docs/python_boutcore, use :noindex: for one of them docstring of boutcore.Vector3D.z:1: WARNING: duplicate object description of boutcore.Vector3D.z, other instance in user_docs/python_boutcore, use :noindex: for one of them docstring of boutcore.Vpar_Grad_par:1: WARNING: duplicate object description of boutcore.Vpar_Grad_par, other instance in user_docs/python_boutcore, use :noindex: for one of them docstring of boutcore.abs:1: WARNING: duplicate object description of boutcore.abs, other instance in user_docs/python_boutcore, use :noindex: for one of them docstring of boutcore.bracket:1: WARNING: duplicate object description of boutcore.bracket, other instance in user_docs/python_boutcore, use :noindex: for one of them docstring of boutcore.checkInit:1: WARNING: duplicate object description of boutcore.checkInit, other instance in user_docs/python_boutcore, use :noindex: for one of them docstring of boutcore.cos:1: WARNING: duplicate object description of boutcore.cos, other instance in user_docs/python_boutcore, use :noindex: for one of them docstring of boutcore.create3D:1: WARNING: duplicate object description of boutcore.create3D, other instance in user_docs/python_boutcore, use :noindex: for one of them docstring of boutcore.create3D:3: WARNING: Unexpected indentation. docstring of boutcore.exp:1: WARNING: duplicate object description of boutcore.exp, other instance in user_docs/python_boutcore, use :noindex: for one of them docstring of boutcore.finalise:1: WARNING: duplicate object description of boutcore.finalise, other instance in user_docs/python_boutcore, use :noindex: for one of them docstring of boutcore.init:1: WARNING: duplicate object description of boutcore.init, other instance in user_docs/python_boutcore, use :noindex: for one of them docstring of boutcore.interp_to:1: WARNING: duplicate object description of boutcore.interp_to, other instance in user_docs/python_boutcore, use :noindex: for one of them docstring of boutcore.log:1: WARNING: duplicate object description of boutcore.log, other instance in user_docs/python_boutcore, use :noindex: for one of them docstring of boutcore.max:1: WARNING: duplicate object description of boutcore.max, other instance in user_docs/python_boutcore, use :noindex: for one of them docstring of boutcore.min:1: WARNING: duplicate object description of boutcore.min, other instance in user_docs/python_boutcore, use :noindex: for one of them docstring of boutcore.pow:1: WARNING: duplicate object description of boutcore.pow, other instance in user_docs/python_boutcore, use :noindex: for one of them docstring of boutcore.setOption:1: WARNING: duplicate object description of boutcore.setOption, other instance in user_docs/python_boutcore, use :noindex: for one of them docstring of boutcore.sin:1: WARNING: duplicate object description of boutcore.sin, other instance in user_docs/python_boutcore, use :noindex: for one of them docstring of boutcore.sqrt:1: WARNING: duplicate object description of boutcore.sqrt, other instance in user_docs/python_boutcore, use :noindex: for one of them none found pickling environment... done checking consistency... /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/manual/sphinx/user_docs/invertable_operator.rst: WARNING: document isn't included in any toctree done preparing documents... done writing output... [ 2%] _apidoc/boutdata writing output... [ 5%] _apidoc/boututils writing output... [ 7%] _apidoc/zoidberg writing output... [ 10%] api_reference writing output... [ 12%] developer_docs/code_layout writing output... [ 15%] developer_docs/contributing writing output... [ 17%] developer_docs/data_types writing output... [ 20%] developer_docs/file_io writing output... [ 22%] developer_docs/git_basics writing output... [ 25%] developer_docs/mesh writing output... [ 27%] developer_docs/natural_language writing output... [ 30%] developer_docs/performance_profiling writing output... [ 32%] index writing output... [ 35%] user_docs/BOUT_Gradperp_op writing output... [ 37%] user_docs/advanced_install writing output... [ 40%] user_docs/algebraic_operators writing output... [ 42%] user_docs/boundary_options writing output... [ 45%] user_docs/bout_functions_for_physics writing output... [ 47%] user_docs/bout_options writing output... [ 50%] user_docs/coordinates writing output... [ 52%] user_docs/differential_operators writing output... [ 55%] user_docs/eigenvalue_solver writing output... [ 57%] user_docs/input_grids writing output... [ 60%] user_docs/installing writing output... [ 62%] user_docs/introduction writing output... [ 65%] user_docs/invertable_operator writing output... [ 67%] user_docs/laplacian writing output... [ 70%] user_docs/makefiles writing output... [ 72%] user_docs/nonlocal writing output... [ 75%] user_docs/output_and_post writing output... [ 77%] user_docs/parallel-transforms writing output... [ 80%] user_docs/physics_models writing output... [ 82%] user_docs/preconditioning writing output... [ 85%] user_docs/python writing output... [ 87%] user_docs/python_boutcore writing output... [ 90%] user_docs/running_bout writing output... [ 92%] user_docs/staggered_grids writing output... [ 95%] user_docs/testing writing output... [ 97%] user_docs/time_integration writing output... [100%] user_docs/variable_init /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/tools/pylib/boutdata/restart.py:docstring of boutdata.restart.normal:14: WARNING: Unparseable C++ cross-reference: 'random-quick-start' Error in cross-reference. If shorthand ref: Invalid C++ declaration: Expected end of definition. [error at 6] random-quick-start ------^ If full function ref: Error when parsing function declaration. If the function has no return type: Error in declarator or parameters-and-qualifiers Invalid C++ declaration: Expecting "(" in parameters-and-qualifiers. [error at 6] random-quick-start ------^ If the function has a return type: Error in declarator or parameters-and-qualifiers If pointer to member declarator: Invalid C++ declaration: Expected identifier in nested name. [error at 6] random-quick-start ------^ If declarator-id: Invalid C++ declaration: Expected identifier in nested name. [error at 6] random-quick-start ------^ /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/manual/sphinx/developer_docs/code_layout.rst:81: WARNING: unknown document: ../_breathe_autogen/file/bout_09_09_8cxx /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/manual/sphinx/developer_docs/code_layout.rst:87: WARNING: unknown document: ../_breathe_autogen/file/field2d_8cxx /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/manual/sphinx/developer_docs/code_layout.rst:93: WARNING: unknown document: ../_breathe_autogen/file/field3d_8cxx /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/manual/sphinx/developer_docs/code_layout.rst:100: WARNING: unknown document: ../_breathe_autogen/file/field__data_8cxx /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/manual/sphinx/developer_docs/code_layout.rst:105: WARNING: unknown document: ../_breathe_autogen/file/fieldperp_8cxx /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/manual/sphinx/developer_docs/code_layout.rst:112: WARNING: unknown document: 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unknown document: ../_breathe_autogen/file/solverfactory_8hxx /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/manual/sphinx/developer_docs/code_layout.rst:317: WARNING: unknown document: ../_breathe_autogen/file/cvode_8cxx /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/manual/sphinx/developer_docs/code_layout.rst:321: WARNING: unknown document: ../_breathe_autogen/file/cvode_8hxx /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/manual/sphinx/developer_docs/code_layout.rst:325: WARNING: unknown document: ../_breathe_autogen/file/ida_8cxx /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/manual/sphinx/developer_docs/code_layout.rst:329: WARNING: unknown document: ../_breathe_autogen/file/ida_8hxx /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/manual/sphinx/developer_docs/code_layout.rst:333: WARNING: unknown document: ../_breathe_autogen/file/petsc_8cxx /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/manual/sphinx/developer_docs/code_layout.rst:336: WARNING: unknown document: ../_breathe_autogen/file/petsc_8hxx /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/manual/sphinx/developer_docs/code_layout.rst:340: WARNING: unknown document: ../_breathe_autogen/file/pvode_8cxx /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/manual/sphinx/developer_docs/code_layout.rst:344: WARNING: unknown document: ../_breathe_autogen/file/pvode_8hxx /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/manual/sphinx/developer_docs/code_layout.rst:348: WARNING: unknown document: ../_breathe_autogen/file/boutcomm_8cxx /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/manual/sphinx/developer_docs/code_layout.rst:350: WARNING: unknown document: ../_breathe_autogen/file/boutexception_8cxx /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/manual/sphinx/developer_docs/code_layout.rst:353: WARNING: unknown document: ../_breathe_autogen/file/derivs_8cxx /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/manual/sphinx/developer_docs/code_layout.rst:353: WARNING: unknown document: ../_breathe_autogen/file/difops_8cxx /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/manual/sphinx/developer_docs/code_layout.rst:353: WARNING: undefined label: sec-derivatives (if the link has no caption the label must precede a section header) /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/manual/sphinx/developer_docs/code_layout.rst:359: WARNING: unknown document: ../_breathe_autogen/file/msg__stack_8cxx /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/manual/sphinx/developer_docs/code_layout.rst:366: WARNING: unknown document: ../_breathe_autogen/file/options_8cxx /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/manual/sphinx/developer_docs/code_layout.rst:370: WARNING: unknown document: ../_breathe_autogen/file/optionsreader_8cxx /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/manual/sphinx/developer_docs/code_layout.rst:372: WARNING: unknown document: ../_breathe_autogen/file/output_8cxx /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/manual/sphinx/developer_docs/code_layout.rst:374: WARNING: unknown document: ../_breathe_autogen/file/range_8cxx /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/manual/sphinx/developer_docs/code_layout.rst:378: WARNING: unknown document: ../_breathe_autogen/file/stencils_8cxx /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/manual/sphinx/developer_docs/code_layout.rst:382: WARNING: unknown document: ../_breathe_autogen/file/timer_8cxx /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/manual/sphinx/developer_docs/code_layout.rst:386: WARNING: unknown document: ../_breathe_autogen/file/utils_8cxx /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/manual/sphinx/developer_docs/code_layout.rst:392: WARNING: unknown document: ../_breathe_autogen/file/optionparser_8hxx /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/manual/sphinx/developer_docs/code_layout.rst:394: WARNING: unknown document: ../_breathe_autogen/file/options__ini_8cxx /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/manual/sphinx/developer_docs/code_layout.rst:396: WARNING: unknown document: ../_breathe_autogen/file/options__ini_8hxx /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/manual/sphinx/developer_docs/data_types.rst:385: WARNING: Unparseable C++ cross-reference: 'mesh:maxregionblocksize' Error in cross-reference. If shorthand ref: Invalid C++ declaration: Expected end of definition. [error at 4] mesh:maxregionblocksize ----^ If full function ref: Error when parsing function declaration. If the function has no return type: Error in declarator or parameters-and-qualifiers Invalid C++ declaration: Expecting "(" in parameters-and-qualifiers. [error at 4] mesh:maxregionblocksize ----^ If the function has a return type: Error in declarator or parameters-and-qualifiers If pointer to member declarator: Invalid C++ declaration: Expected identifier in nested name. [error at 4] mesh:maxregionblocksize ----^ If declarator-id: Invalid C++ declaration: Expected identifier in nested name. [error at 4] mesh:maxregionblocksize ----^ /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/manual/sphinx/developer_docs/data_types.rst:385: WARNING: Unparseable C++ cross-reference: 'BOUT.inp' Error in cross-reference. If shorthand ref: Invalid C++ declaration: Expected end of definition. [error at 4] BOUT.inp ----^ If full function ref: Error when parsing function declaration. If the function has no return type: Error in declarator or parameters-and-qualifiers Invalid C++ declaration: Expecting "(" in parameters-and-qualifiers. [error at 4] BOUT.inp ----^ If the function has a return type: Error in declarator or parameters-and-qualifiers If pointer to member declarator: Invalid C++ declaration: Expected identifier in nested name. [error at 4] BOUT.inp ----^ If declarator-id: Invalid C++ declaration: Expected identifier in nested name. [error at 4] BOUT.inp ----^ /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/manual/sphinx/developer_docs/file_io.rst:4: WARNING: unknown document: ../_breathe_autogen/file/griddata_8hxx /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/manual/sphinx/developer_docs/file_io.rst:4: WARNING: unknown document: ../_breathe_autogen/file/datafile_8hxx /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/manual/sphinx/developer_docs/file_io.rst:4: WARNING: unknown document: ../_breathe_autogen/file/datafile_8cxx /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/manual/sphinx/developer_docs/file_io.rst:13: WARNING: unknown document: ../_breathe_autogen/file/dataformat_8hxx /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/manual/sphinx/developer_docs/file_io.rst:268: WARNING: Unparseable C++ cross-reference: 'restart.redistribute' Error in cross-reference. If shorthand ref: Invalid C++ declaration: Expected end of definition. [error at 7] restart.redistribute -------^ If full function ref: Error when parsing function declaration. If the function has no return type: Error in declarator or parameters-and-qualifiers Invalid C++ declaration: Expecting "(" in parameters-and-qualifiers. [error at 7] restart.redistribute -------^ If the function has a return type: Error in declarator or parameters-and-qualifiers If pointer to member declarator: Invalid C++ declaration: Expected identifier in nested name. [error at 7] restart.redistribute -------^ If declarator-id: Invalid C++ declaration: Expected identifier in nested name. [error at 7] restart.redistribute -------^ /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/manual/sphinx/developer_docs/mesh.rst:31: WARNING: unknown document: ../_breathe_autogen/file/bout_09_09_8cxx /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/manual/sphinx/user_docs/algebraic_operators.rst:8: WARNING: unknown document: ../_breathe_autogen/file/field2d_8hxx /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/manual/sphinx/user_docs/algebraic_operators.rst:8: WARNING: unknown document: ../_breathe_autogen/file/field3d_8hxx /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/manual/sphinx/user_docs/algebraic_operators.rst:8: WARNING: unknown document: ../_breathe_autogen/file/fieldperp_8hxx /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/manual/sphinx/user_docs/differential_operators.rst:182: WARNING: Unparseable C++ cross-reference: 'return\n0.5*(f.p - f.m);' Error in cross-reference. If shorthand ref: Invalid C++ declaration: Expected identifier in nested name, got keyword: return [error at 6] return 0.5*(f.p - f.m); ------^ If full function ref: Error when parsing function declaration. If the function has no return type: Error in declarator or parameters-and-qualifiers Invalid C++ declaration: Expected identifier in nested name, got keyword: return [error at 6] return 0.5*(f.p - f.m); ------^ If the function has a return type: Invalid C++ declaration: Expected identifier in nested name, got keyword: return [error at 6] return 0.5*(f.p - f.m); ------^ /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/manual/sphinx/user_docs/differential_operators.rst:192: WARNING: Unparseable C++ cross-reference: '"C2"' Error in cross-reference. If shorthand ref: Invalid C++ declaration: Expected identifier in nested name. [error at 0] "C2" ^ If full function ref: Error when parsing function declaration. If the function has no return type: Error in declarator or parameters-and-qualifiers Invalid C++ declaration: Expected identifier in nested name. [error at 0] "C2" ^ If the function has a return type: Invalid C++ declaration: Expected identifier in nested name. [error at 0] "C2" ^ /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/manual/sphinx/user_docs/differential_operators.rst:196: WARNING: Unparseable C++ cross-reference: '1' Error in cross-reference. If shorthand ref: Invalid C++ declaration: Expected identifier in nested name. [error at 0] 1 ^ If full function ref: Error when parsing function declaration. If the function has no return type: Error in declarator or parameters-and-qualifiers Invalid C++ declaration: Expected identifier in nested name. [error at 0] 1 ^ If the function has a return type: Invalid C++ declaration: Expected identifier in nested name. [error at 0] 1 ^ /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/manual/sphinx/user_docs/differential_operators.rst:221: WARNING: Unparseable C++ cross-reference: 'REGISTER_DERIVATIVE(DDX_C2)()' Error in cross-reference. If shorthand ref: Invalid C++ declaration: Expected end of definition. [error at 19] REGISTER_DERIVATIVE(DDX_C2)() -------------------^ If full function ref: Error when parsing function declaration. If the function has no return type: Invalid C++ declaration: Expected end of definition or ;. [error at 27] REGISTER_DERIVATIVE(DDX_C2)() ---------------------------^ If the function has a return type: Error in declarator If declarator-id with parameters-and-qualifiers: Invalid C++ declaration: Expected identifier in nested name. [error at 19] REGISTER_DERIVATIVE(DDX_C2)() -------------------^ If parenthesis in noptr-declarator: Error in declarator or parameters-and-qualifiers If pointer to member declarator: Invalid C++ declaration: Expected '::' in pointer to member (function). [error at 26] REGISTER_DERIVATIVE(DDX_C2)() --------------------------^ If declarator-id: Invalid C++ declaration: Expecting "(" in parameters-and-qualifiers. [error at 26] REGISTER_DERIVATIVE(DDX_C2)() --------------------------^ /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/manual/sphinx/user_docs/differential_operators.rst:238: WARNING: Unparseable C++ cross-reference: '"C2"' Error in cross-reference. If shorthand ref: Invalid C++ declaration: Expected identifier in nested name. [error at 0] "C2" ^ If full function ref: Error when parsing function declaration. If the function has no return type: Error in declarator or parameters-and-qualifiers Invalid C++ declaration: Expected identifier in nested name. [error at 0] "C2" ^ If the function has a return type: Invalid C++ declaration: Expected identifier in nested name. [error at 0] "C2" ^ /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/manual/sphinx/user_docs/differential_operators.rst:278: WARNING: Could not lex literal_block as "cpp". Highlighting skipped. /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/manual/sphinx/user_docs/installing.rst:190: WARNING: Unparseable C++ cross-reference: 'export LC_CTYPE=C.utf8' Error in cross-reference. If shorthand ref: Invalid C++ declaration: Expected identifier in nested name, got keyword: export [error at 6] export LC_CTYPE=C.utf8 ------^ If full function ref: Error when parsing function declaration. If the function has no return type: Error in declarator or parameters-and-qualifiers Invalid C++ declaration: Expected identifier in nested name, got keyword: export [error at 6] export LC_CTYPE=C.utf8 ------^ If the function has a return type: Invalid C++ declaration: Expected identifier in nested name, got keyword: export [error at 6] export LC_CTYPE=C.utf8 ------^ /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/manual/sphinx/user_docs/installing.rst:358: WARNING: undefined label: sec-install-bout (if the link has no caption the label must precede a section header) /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/manual/sphinx/user_docs/invertable_operator.rst:30: WARNING: Unparseable C++ cross-reference: 'examples/invertable_operator' Error in cross-reference. If shorthand ref: Invalid C++ declaration: Expected end of definition. [error at 8] examples/invertable_operator --------^ If full function ref: Error when parsing function declaration. If the function has no return type: Error in declarator or parameters-and-qualifiers Invalid C++ declaration: Expecting "(" in parameters-and-qualifiers. [error at 8] examples/invertable_operator --------^ If the function has a return type: Error in declarator or parameters-and-qualifiers If pointer to member declarator: Invalid C++ declaration: Expected identifier in nested name. [error at 8] examples/invertable_operator --------^ If declarator-id: Invalid C++ declaration: Expected identifier in nested name. [error at 8] examples/invertable_operator --------^ generating indices... genindex/builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/manual/sphinx/user_docs/invertable_operator.rst:98: WARNING: Unparseable C++ cross-reference: '-invertable' Error in cross-reference. If shorthand ref: Invalid C++ declaration: Expected identifier in nested name. [error at 0] -invertable ^ If full function ref: Error when parsing function declaration. If the function has no return type: Error in declarator or parameters-and-qualifiers Invalid C++ declaration: Expected identifier in nested name. [error at 0] -invertable ^ If the function has a return type: Invalid C++ declaration: Expected identifier in nested name. [error at 0] -invertable ^ /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/manual/sphinx/user_docs/invertable_operator.rst:98: WARNING: Unparseable C++ cross-reference: '-ksp_type' Error in cross-reference. If shorthand ref: Invalid C++ declaration: Expected identifier in nested name. [error at 0] -ksp_type ^ If full function ref: Error when parsing function declaration. If the function has no return type: Error in declarator or parameters-and-qualifiers Invalid C++ declaration: Expected identifier in nested name. [error at 0] -ksp_type ^ If the function has a return type: Invalid C++ declaration: Expected identifier in nested name. [error at 0] -ksp_type ^ /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/manual/sphinx/user_docs/invertable_operator.rst:98: WARNING: Unparseable C++ cross-reference: '-invertable_ksp_type' Error in cross-reference. If shorthand ref: Invalid C++ declaration: Expected identifier in nested name. [error at 0] -invertable_ksp_type ^ If full function ref: Error when parsing function declaration. If the function has no return type: Error in declarator or parameters-and-qualifiers Invalid C++ declaration: Expected identifier in nested name. [error at 0] -invertable_ksp_type ^ If the function has a return type: Invalid C++ declaration: Expected identifier in nested name. [error at 0] -invertable_ksp_type ^ /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/manual/sphinx/user_docs/laplacian.rst:186: WARNING: unknown document: ../_breathe_autogen/file/invert__laplace_8cxx /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/manual/sphinx/user_docs/nonlocal.rst:117: WARNING: undefined label: tab-snb-options /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/manual/sphinx/user_docs/output_and_post.rst:587: WARNING: Could not lex literal_block as "mathematica". Highlighting skipped. docstring of boutcore.Options.get:3: WARNING: Unparseable C++ cross-reference: 'mesh:ddx:first' Error in cross-reference. If shorthand ref: Invalid C++ declaration: Expected end of definition. [error at 4] mesh:ddx:first ----^ If full function ref: Error when parsing function declaration. If the function has no return type: Error in declarator or parameters-and-qualifiers Invalid C++ declaration: Expecting "(" in parameters-and-qualifiers. [error at 4] mesh:ddx:first ----^ If the function has a return type: Error in declarator or parameters-and-qualifiers If pointer to member declarator: Invalid C++ declaration: Expected identifier in nested name. [error at 4] mesh:ddx:first ----^ If declarator-id: Invalid C++ declaration: Expected identifier in nested name. [error at 4] mesh:ddx:first ----^ docstring of boutcore.Options.set:3: WARNING: Unparseable C++ cross-reference: 'mesh:ddx:first' Error in cross-reference. If shorthand ref: Invalid C++ declaration: Expected end of definition. [error at 4] mesh:ddx:first ----^ If full function ref: Error when parsing function declaration. If the function has no return type: Error in declarator or parameters-and-qualifiers Invalid C++ declaration: Expecting "(" in parameters-and-qualifiers. [error at 4] mesh:ddx:first ----^ If the function has a return type: Error in declarator or parameters-and-qualifiers If pointer to member declarator: Invalid C++ declaration: Expected identifier in nested name. [error at 4] mesh:ddx:first ----^ If declarator-id: Invalid C++ declaration: Expected identifier in nested name. [error at 4] mesh:ddx:first ----^ docstring of boutcore.setOption:1: WARNING: Unparseable C++ cross-reference: 'Options.set' Error in cross-reference. If shorthand ref: Invalid C++ declaration: Expected end of definition. [error at 7] Options.set -------^ If full function ref: Error when parsing function declaration. If the function has no return type: Error in declarator or parameters-and-qualifiers Invalid C++ declaration: Expecting "(" in parameters-and-qualifiers. [error at 7] Options.set -------^ If the function has a return type: Error in declarator or parameters-and-qualifiers If pointer to member declarator: Invalid C++ declaration: Expected identifier in nested name. [error at 7] Options.set -------^ If declarator-id: Invalid C++ declaration: Expected identifier in nested name. [error at 7] Options.set -------^ docstring of boutcore.setOption:5: WARNING: Unparseable C++ cross-reference: 'mesh:ddx:first' Error in cross-reference. If shorthand ref: Invalid C++ declaration: Expected end of definition. [error at 4] mesh:ddx:first ----^ If full function ref: Error when parsing function declaration. If the function has no return type: Error in declarator or parameters-and-qualifiers Invalid C++ declaration: Expecting "(" in parameters-and-qualifiers. [error at 4] mesh:ddx:first ----^ If the function has a return type: Error in declarator or parameters-and-qualifiers If pointer to member declarator: Invalid C++ declaration: Expected identifier in nested name. [error at 4] mesh:ddx:first ----^ If declarator-id: Invalid C++ declaration: Expected identifier in nested name. [error at 4] mesh:ddx:first ----^ docstring of boutcore.Options.get:3: WARNING: Unparseable C++ cross-reference: 'mesh:ddx:first' Error in cross-reference. If shorthand ref: Invalid C++ declaration: Expected end of definition. [error at 4] mesh:ddx:first ----^ If full function ref: Error when parsing function declaration. If the function has no return type: Error in declarator or parameters-and-qualifiers Invalid C++ declaration: Expecting "(" in parameters-and-qualifiers. [error at 4] mesh:ddx:first ----^ If the function has a return type: Error in declarator or parameters-and-qualifiers If pointer to member declarator: Invalid C++ declaration: Expected identifier in nested name. [error at 4] mesh:ddx:first ----^ If declarator-id: Invalid C++ declaration: Expected identifier in nested name. [error at 4] mesh:ddx:first ----^ docstring of boutcore.Options.set:3: WARNING: Unparseable C++ cross-reference: 'mesh:ddx:first' Error in cross-reference. If shorthand ref: Invalid C++ declaration: Expected end of definition. [error at 4] mesh:ddx:first ----^ If full function ref: Error when parsing function declaration. If the function has no return type: Error in declarator or parameters-and-qualifiers Invalid C++ declaration: Expecting "(" in parameters-and-qualifiers. [error at 4] mesh:ddx:first ----^ If the function has a return type: Error in declarator or parameters-and-qualifiers If pointer to member declarator: Invalid C++ declaration: Expected identifier in nested name. [error at 4] mesh:ddx:first ----^ If declarator-id: Invalid C++ declaration: Expected identifier in nested name. [error at 4] mesh:ddx:first ----^ docstring of boutcore.setOption:1: WARNING: Unparseable C++ cross-reference: 'Options.set' Error in cross-reference. If shorthand ref: Invalid C++ declaration: Expected end of definition. [error at 7] Options.set -------^ If full function ref: Error when parsing function declaration. If the function has no return type: Error in declarator or parameters-and-qualifiers Invalid C++ declaration: Expecting "(" in parameters-and-qualifiers. [error at 7] Options.set -------^ If the function has a return type: Error in declarator or parameters-and-qualifiers If pointer to member declarator: Invalid C++ declaration: Expected identifier in nested name. [error at 7] Options.set -------^ If declarator-id: Invalid C++ declaration: Expected identifier in nested name. [error at 7] Options.set -------^ docstring of boutcore.setOption:5: WARNING: Unparseable C++ cross-reference: 'mesh:ddx:first' Error in cross-reference. If shorthand ref: Invalid C++ declaration: Expected end of definition. [error at 4] mesh:ddx:first ----^ If full function ref: Error when parsing function declaration. If the function has no return type: Error in declarator or parameters-and-qualifiers Invalid C++ declaration: Expecting "(" in parameters-and-qualifiers. [error at 4] mesh:ddx:first ----^ If the function has a return type: Error in declarator or parameters-and-qualifiers If pointer to member declarator: Invalid C++ declaration: Expected identifier in nested name. [error at 4] mesh:ddx:first ----^ If declarator-id: Invalid C++ declaration: Expected identifier in nested name. [error at 4] mesh:ddx:first ----^ /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/manual/sphinx/user_docs/time_integration.rst:916: WARNING: unknown document: ../_breathe_autogen/file/bout_09_09_8cxx py-modindexdone writing additional pages... searchdone copying images... [ 4%] figs/layout1.png copying images... [ 8%] figs/layout2.png copying images... [ 13%] figs/memory.png copying images... [ 17%] user_docs/../figs/fluid_norm_mc.png copying images... [ 21%] figs/diffStencils.png copying images... [ 26%] figs/topology_cross_section.png copying images... [ 30%] figs/topology_schematic.png copying images... [ 34%] figs/boutmesh-comms.png copying images... 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Documentation available in file:///builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/manual/html/index.html make: Leaving directory '/builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/manual' + '[' openmpi = mpich ']' + '[' openmpi = openmpi ']' + . /etc/profile.d/modules.sh ++ '[' -n /bin/sh ']' ++ shell=sh ++ '[' -f /usr/share/Modules/init/sh ']' ++ . /usr/share/Modules/init/sh +++ unset _mlshdbg +++ '[' 0 = 1 ']' +++ export 'MODULES_RUN_QUARANTINE=LD_LIBRARY_PATH LD_PRELOAD' +++ MODULES_RUN_QUARANTINE='LD_LIBRARY_PATH LD_PRELOAD' +++ unset _mlre _mlIFS +++ '[' -n x ']' +++ _mlIFS=' ' +++ IFS=' ' +++ for _mlv in ${MODULES_RUN_QUARANTINE:-} +++ '[' LD_LIBRARY_PATH = LD_LIBRARY_PATH -a LD_LIBRARY_PATH = LD_LIBRARY_PATH ']' ++++ eval 'echo ${LD_LIBRARY_PATH+x}' +++++ echo x +++ '[' -n x ']' ++++ eval 'echo ${LD_LIBRARY_PATH}' +++++ echo /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/lib +++ _mlre='LD_LIBRARY_PATH_modquar='\''/builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/lib'\'' ' +++ _mlrv=MODULES_RUNENV_LD_LIBRARY_PATH ++++ eval 'echo ${MODULES_RUNENV_LD_LIBRARY_PATH:-}' +++++ echo +++ _mlre='LD_LIBRARY_PATH_modquar='\''/builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/lib'\'' LD_LIBRARY_PATH='\'''\'' ' +++ for _mlv in ${MODULES_RUN_QUARANTINE:-} +++ '[' LD_PRELOAD = LD_PRELOAD -a LD_PRELOAD = LD_PRELOAD ']' ++++ eval 'echo ${LD_PRELOAD+x}' +++++ echo +++ '[' -n '' ']' +++ _mlrv=MODULES_RUNENV_LD_PRELOAD ++++ eval 'echo ${MODULES_RUNENV_LD_PRELOAD:-}' +++++ echo +++ _mlre='LD_LIBRARY_PATH_modquar='\''/builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/lib'\'' LD_LIBRARY_PATH='\'''\'' LD_PRELOAD='\'''\'' ' +++ '[' -n 'LD_LIBRARY_PATH_modquar='\''/builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/lib'\'' LD_LIBRARY_PATH='\'''\'' LD_PRELOAD='\'''\'' ' ']' +++ _mlre='eval LD_LIBRARY_PATH_modquar='\''/builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/lib'\'' LD_LIBRARY_PATH='\'''\'' LD_PRELOAD='\'''\'' ' ++++ eval 'LD_LIBRARY_PATH_modquar='\''/builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/lib'\''' 'LD_LIBRARY_PATH='\'''\''' 'LD_PRELOAD='\'''\''' /usr/bin/tclsh /usr/share/Modules/libexec/modulecmd.tcl sh autoinit +++++ LD_LIBRARY_PATH_modquar=/builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/lib +++++ LD_LIBRARY_PATH= +++++ LD_PRELOAD= +++++ /usr/bin/tclsh /usr/share/Modules/libexec/modulecmd.tcl sh autoinit +++ _mlcode='module() { unset _mlshdbg; if [ "${MODULES_SILENT_SHELL_DEBUG:-0}" = '\''1'\'' ]; then case "$-" in *v*x*) set +vx; _mlshdbg='\''vx'\'' ;; *v*) set +v; _mlshdbg='\''v'\'' ;; *x*) set +x; _mlshdbg='\''x'\'' ;; *) _mlshdbg='\'''\'' ;; esac; fi; unset _mlre _mlIFS; if [ -n "${IFS+x}" ]; then _mlIFS=$IFS; fi; IFS='\'' '\''; for _mlv in ${MODULES_RUN_QUARANTINE:-}; do if [ "${_mlv}" = "${_mlv##*[!A-Za-z0-9_]}" -a "${_mlv}" = "${_mlv#[0-9]}" ]; then if [ -n "`eval '\''echo ${'\''$_mlv'\''+x}'\''`" ]; then _mlre="${_mlre:-}${_mlv}_modquar='\''`eval '\''echo ${'\''$_mlv'\''}'\''`'\'' "; fi; _mlrv="MODULES_RUNENV_${_mlv}"; _mlre="${_mlre:-}${_mlv}='\''`eval '\''echo ${'\''$_mlrv'\'':-}'\''`'\'' "; fi; done; if [ -n "${_mlre:-}" ]; then eval `eval ${_mlre} /usr/bin/tclsh /usr/share/Modules/libexec/modulecmd.tcl sh '\''"$@"'\''`; else eval `/usr/bin/tclsh /usr/share/Modules/libexec/modulecmd.tcl sh "$@"`; fi; _mlstatus=$?; if [ -n "${_mlIFS+x}" ]; then IFS=$_mlIFS; else unset IFS; fi; unset _mlre _mlv _mlrv _mlIFS; if [ -n "${_mlshdbg:-}" ]; then set -$_mlshdbg; fi; unset _mlshdbg; return $_mlstatus; }; ml() { module ml "$@"; }; MODULES_CMD=/usr/share/Modules/libexec/modulecmd.tcl; export MODULES_CMD; MODULESHOME=/usr/share/Modules; export MODULESHOME; test 0;' +++ _mlret=0 +++ '[' -n x ']' +++ IFS=' ' +++ unset _mlIFS +++ unset _mlre _mlv _mlrv +++ '[' 0 -eq 0 ']' +++ eval 'module() { unset _mlshdbg; if [ "${MODULES_SILENT_SHELL_DEBUG:-0}" = '\''1'\'' ]; then case "$-" in *v*x*) set +vx; _mlshdbg='\''vx'\'' ;; *v*) set +v; _mlshdbg='\''v'\'' ;; *x*) set +x; _mlshdbg='\''x'\'' ;; *) _mlshdbg='\'''\'' ;; esac; fi; unset _mlre _mlIFS; if [ -n "${IFS+x}" ]; then _mlIFS=$IFS; fi; IFS='\'' '\''; for _mlv in ${MODULES_RUN_QUARANTINE:-}; do if [ "${_mlv}" = "${_mlv##*[!A-Za-z0-9_]}" -a "${_mlv}" = "${_mlv#[0-9]}" ]; then if [ -n "`eval '\''echo ${'\''$_mlv'\''+x}'\''`" ]; then _mlre="${_mlre:-}${_mlv}_modquar='\''`eval '\''echo ${'\''$_mlv'\''}'\''`'\'' "; fi; _mlrv="MODULES_RUNENV_${_mlv}"; _mlre="${_mlre:-}${_mlv}='\''`eval '\''echo ${'\''$_mlrv'\'':-}'\''`'\'' "; fi; done; if [ -n "${_mlre:-}" ]; then eval `eval ${_mlre} /usr/bin/tclsh /usr/share/Modules/libexec/modulecmd.tcl sh '\''"$@"'\''`; else eval `/usr/bin/tclsh /usr/share/Modules/libexec/modulecmd.tcl sh "$@"`; fi; _mlstatus=$?; if [ -n "${_mlIFS+x}" ]; then IFS=$_mlIFS; else unset IFS; fi; unset _mlre _mlv _mlrv _mlIFS; if [ -n "${_mlshdbg:-}" ]; then set -$_mlshdbg; fi; unset _mlshdbg; return $_mlstatus; }; ml() { module ml "$@"; }; MODULES_CMD=/usr/share/Modules/libexec/modulecmd.tcl; export MODULES_CMD; MODULESHOME=/usr/share/Modules; export MODULESHOME; test 0;' ++++ MODULES_CMD=/usr/share/Modules/libexec/modulecmd.tcl ++++ export MODULES_CMD ++++ MODULESHOME=/usr/share/Modules ++++ export MODULESHOME ++++ test 0 +++ '[' 0 = 1 ']' +++ '[' /bin/sh '!=' '' ']' +++ '[' -t 2 ']' +++ export -f module ++++ type -t ml +++ '[' function = function ']' +++ export -f ml +++ '[' /bin/sh '!=' '' ']' +++ export -f switchml +++ case ":$PATH:" in +++ '[' '!' -n x ']' +++ case ":`manpath 2>/dev/null`:" in ++++ manpath +++ unset _mlcode _mlret +++ '[' -n '' ']' + module unload mpi/openmpi-riscv64 + unset _mlshdbg + '[' 0 = 1 ']' + unset _mlre _mlIFS + '[' -n x ']' + _mlIFS=' ' + IFS=' ' + for _mlv in ${MODULES_RUN_QUARANTINE:-} + '[' LD_LIBRARY_PATH = LD_LIBRARY_PATH -a LD_LIBRARY_PATH = LD_LIBRARY_PATH ']' ++ eval 'echo ${LD_LIBRARY_PATH+x}' +++ echo x + '[' -n x ']' ++ eval 'echo ${LD_LIBRARY_PATH}' +++ echo /builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/lib + _mlre='LD_LIBRARY_PATH_modquar='\''/builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/lib'\'' ' + _mlrv=MODULES_RUNENV_LD_LIBRARY_PATH ++ eval 'echo ${MODULES_RUNENV_LD_LIBRARY_PATH:-}' +++ echo + _mlre='LD_LIBRARY_PATH_modquar='\''/builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/lib'\'' LD_LIBRARY_PATH='\'''\'' ' + for _mlv in ${MODULES_RUN_QUARANTINE:-} + '[' LD_PRELOAD = LD_PRELOAD -a LD_PRELOAD = LD_PRELOAD ']' ++ eval 'echo ${LD_PRELOAD+x}' +++ echo + '[' -n '' ']' + _mlrv=MODULES_RUNENV_LD_PRELOAD ++ eval 'echo ${MODULES_RUNENV_LD_PRELOAD:-}' +++ echo + _mlre='LD_LIBRARY_PATH_modquar='\''/builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/lib'\'' LD_LIBRARY_PATH='\'''\'' LD_PRELOAD='\'''\'' ' + '[' -n 'LD_LIBRARY_PATH_modquar='\''/builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/lib'\'' LD_LIBRARY_PATH='\'''\'' LD_PRELOAD='\'''\'' ' ']' ++ eval 'LD_LIBRARY_PATH_modquar='\''/builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/lib'\''' 'LD_LIBRARY_PATH='\'''\''' 'LD_PRELOAD='\'''\''' /usr/bin/tclsh /usr/share/Modules/libexec/modulecmd.tcl sh '"$@"' +++ LD_LIBRARY_PATH_modquar=/builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/lib +++ LD_LIBRARY_PATH= +++ LD_PRELOAD= +++ /usr/bin/tclsh /usr/share/Modules/libexec/modulecmd.tcl sh unload mpi/openmpi-riscv64 + eval unset 'MPI_COMPILER; LD_LIBRARY_PATH=/builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/lib;' export 'LD_LIBRARY_PATH; unset' 'MPI_MAN; MANPATH=;' export 'MANPATH; unset' 'MPI_INCLUDE; unset' '_LMFILES_; unset' 'LOADEDMODULES; unset' 'MODULES_LMCONFLICT; PKG_CONFIG_PATH=:/usr/lib64/pkgconfig:/usr/share/pkgconfig;' export 'PKG_CONFIG_PATH; MANPATH_modshare=:1;' export 'MANPATH_modshare; unset' 'MPI_PYTHON3_SITEARCH; unset' 'MODULES_LMCONFLICT_modshare; PKG_CONFIG_PATH_modshare=:1:/usr/lib64/pkgconfig:1:/usr/share/pkgconfig:1;' export 'PKG_CONFIG_PATH_modshare; unset' 'MPI_HOME; unset' 'MPI_FORTRAN_MOD_DIR; unset' 'MPI_SUFFIX; LD_LIBRARY_PATH_modshare=/builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/lib:1;' export 'LD_LIBRARY_PATH_modshare; unset' 'MPI_SYSCONFIG; unset' '_LMFILES__modshare; unset' 'LOADEDMODULES_modshare; unset' 'MPI_LIB; PATH=/usr/share/Modules/bin:/usr/bin:/bin:/usr/sbin:/sbin:/usr/local/sbin;' export 'PATH; unset' 'MPI_BIN; PATH_modshare=/bin:1:/usr/sbin:1:/usr/bin:1:/usr/local/sbin:1:/usr/share/Modules/bin:1:/sbin:1;' export 'PATH_modshare; test' '0;' ++ unset MPI_COMPILER ~/build/BUILD/BOUT++-v4.3.1 ++ LD_LIBRARY_PATH=/builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/lib ++ export LD_LIBRARY_PATH ++ unset MPI_MAN ++ MANPATH= ++ export MANPATH ++ unset MPI_INCLUDE ++ unset _LMFILES_ ++ unset LOADEDMODULES ++ unset MODULES_LMCONFLICT ++ PKG_CONFIG_PATH=:/usr/lib64/pkgconfig:/usr/share/pkgconfig ++ export PKG_CONFIG_PATH ++ MANPATH_modshare=:1 ++ export MANPATH_modshare ++ unset MPI_PYTHON3_SITEARCH ++ unset MODULES_LMCONFLICT_modshare ++ PKG_CONFIG_PATH_modshare=:1:/usr/lib64/pkgconfig:1:/usr/share/pkgconfig:1 ++ export PKG_CONFIG_PATH_modshare ++ unset MPI_HOME ++ unset MPI_FORTRAN_MOD_DIR ++ unset MPI_SUFFIX ++ LD_LIBRARY_PATH_modshare=/builddir/build/BUILD/BOUT++-v4.3.1/build_openmpi/lib:1 ++ export LD_LIBRARY_PATH_modshare ++ unset MPI_SYSCONFIG ++ unset _LMFILES__modshare ++ unset LOADEDMODULES_modshare ++ unset MPI_LIB ++ PATH=/usr/share/Modules/bin:/usr/bin:/bin:/usr/sbin:/sbin:/usr/local/sbin ++ export PATH ++ unset MPI_BIN ++ PATH_modshare=/bin:1:/usr/sbin:1:/usr/bin:1:/usr/local/sbin:1:/usr/share/Modules/bin:1:/sbin:1 ++ export PATH_modshare ++ test 0 + _mlstatus=0 + '[' -n x ']' + IFS=' ' + unset _mlre _mlv _mlrv _mlIFS + '[' -n '' ']' + unset _mlshdbg + return 0 + popd + RPM_EC=0 ++ jobs -p + exit 0 Executing(%install): /bin/sh -e /var/tmp/rpm-tmp.0L1plT + umask 022 + cd /builddir/build/BUILD + '[' /builddir/build/BUILDROOT/bout++-4.3.1-5.fc33.riscv64 '!=' / ']' + rm -rf /builddir/build/BUILDROOT/bout++-4.3.1-5.fc33.riscv64 ++ dirname /builddir/build/BUILDROOT/bout++-4.3.1-5.fc33.riscv64 + mkdir -p /builddir/build/BUILDROOT + mkdir /builddir/build/BUILDROOT/bout++-4.3.1-5.fc33.riscv64 + cd BOUT++-v4.3.1 + for mpi in mpich openmpi + pushd build_mpich ~/build/BUILD/BOUT++-v4.3.1/build_mpich ~/build/BUILD/BOUT++-v4.3.1 + '[' mpich = mpich ']' + . /etc/profile.d/modules.sh ++ '[' -n /bin/sh ']' ++ shell=sh ++ '[' -f /usr/share/Modules/init/sh ']' ++ . /usr/share/Modules/init/sh +++ unset _mlshdbg +++ '[' 0 = 1 ']' +++ export 'MODULES_RUN_QUARANTINE=LD_LIBRARY_PATH LD_PRELOAD' +++ MODULES_RUN_QUARANTINE='LD_LIBRARY_PATH LD_PRELOAD' +++ unset _mlre _mlIFS +++ '[' -n x ']' +++ _mlIFS=' ' +++ IFS=' ' +++ for _mlv in ${MODULES_RUN_QUARANTINE:-} +++ '[' LD_LIBRARY_PATH = LD_LIBRARY_PATH -a LD_LIBRARY_PATH = LD_LIBRARY_PATH ']' ++++ eval 'echo ${LD_LIBRARY_PATH+x}' +++++ echo +++ '[' -n '' ']' +++ _mlrv=MODULES_RUNENV_LD_LIBRARY_PATH ++++ eval 'echo ${MODULES_RUNENV_LD_LIBRARY_PATH:-}' +++++ echo +++ _mlre='LD_LIBRARY_PATH='\'''\'' ' +++ for _mlv in ${MODULES_RUN_QUARANTINE:-} +++ '[' LD_PRELOAD = LD_PRELOAD -a LD_PRELOAD = LD_PRELOAD ']' ++++ eval 'echo ${LD_PRELOAD+x}' +++++ echo +++ '[' -n '' ']' +++ _mlrv=MODULES_RUNENV_LD_PRELOAD ++++ eval 'echo ${MODULES_RUNENV_LD_PRELOAD:-}' +++++ echo +++ _mlre='LD_LIBRARY_PATH='\'''\'' LD_PRELOAD='\'''\'' ' +++ '[' -n 'LD_LIBRARY_PATH='\'''\'' LD_PRELOAD='\'''\'' ' ']' +++ _mlre='eval LD_LIBRARY_PATH='\'''\'' LD_PRELOAD='\'''\'' ' ++++ eval 'LD_LIBRARY_PATH='\'''\''' 'LD_PRELOAD='\'''\''' /usr/bin/tclsh /usr/share/Modules/libexec/modulecmd.tcl sh autoinit +++++ LD_LIBRARY_PATH= +++++ LD_PRELOAD= +++++ /usr/bin/tclsh /usr/share/Modules/libexec/modulecmd.tcl sh autoinit +++ _mlcode='module() { unset _mlshdbg; if [ "${MODULES_SILENT_SHELL_DEBUG:-0}" = '\''1'\'' ]; then case "$-" in *v*x*) set +vx; _mlshdbg='\''vx'\'' ;; *v*) set +v; _mlshdbg='\''v'\'' ;; *x*) set +x; _mlshdbg='\''x'\'' ;; *) _mlshdbg='\'''\'' ;; esac; fi; unset _mlre _mlIFS; if [ -n "${IFS+x}" ]; then _mlIFS=$IFS; fi; IFS='\'' '\''; for _mlv in ${MODULES_RUN_QUARANTINE:-}; do if [ "${_mlv}" = "${_mlv##*[!A-Za-z0-9_]}" -a "${_mlv}" = "${_mlv#[0-9]}" ]; then if [ -n "`eval '\''echo ${'\''$_mlv'\''+x}'\''`" ]; then _mlre="${_mlre:-}${_mlv}_modquar='\''`eval '\''echo ${'\''$_mlv'\''}'\''`'\'' "; fi; _mlrv="MODULES_RUNENV_${_mlv}"; _mlre="${_mlre:-}${_mlv}='\''`eval '\''echo ${'\''$_mlrv'\'':-}'\''`'\'' "; fi; done; if [ -n "${_mlre:-}" ]; then eval `eval ${_mlre} /usr/bin/tclsh /usr/share/Modules/libexec/modulecmd.tcl sh '\''"$@"'\''`; else eval `/usr/bin/tclsh /usr/share/Modules/libexec/modulecmd.tcl sh "$@"`; fi; _mlstatus=$?; if [ -n "${_mlIFS+x}" ]; then IFS=$_mlIFS; else unset IFS; fi; unset _mlre _mlv _mlrv _mlIFS; if [ -n "${_mlshdbg:-}" ]; then set -$_mlshdbg; fi; unset _mlshdbg; return $_mlstatus; }; ml() { module ml "$@"; }; MODULES_CMD=/usr/share/Modules/libexec/modulecmd.tcl; export MODULES_CMD; MODULESHOME=/usr/share/Modules; export MODULESHOME; test 0;' +++ _mlret=0 +++ '[' -n x ']' +++ IFS=' ' +++ unset _mlIFS +++ unset _mlre _mlv _mlrv +++ '[' 0 -eq 0 ']' +++ eval 'module() { unset _mlshdbg; if [ "${MODULES_SILENT_SHELL_DEBUG:-0}" = '\''1'\'' ]; then case "$-" in *v*x*) set +vx; _mlshdbg='\''vx'\'' ;; *v*) set +v; _mlshdbg='\''v'\'' ;; *x*) set +x; _mlshdbg='\''x'\'' ;; *) _mlshdbg='\'''\'' ;; esac; fi; unset _mlre _mlIFS; if [ -n "${IFS+x}" ]; then _mlIFS=$IFS; fi; IFS='\'' '\''; for _mlv in ${MODULES_RUN_QUARANTINE:-}; do if [ "${_mlv}" = "${_mlv##*[!A-Za-z0-9_]}" -a "${_mlv}" = "${_mlv#[0-9]}" ]; then if [ -n "`eval '\''echo ${'\''$_mlv'\''+x}'\''`" ]; then _mlre="${_mlre:-}${_mlv}_modquar='\''`eval '\''echo ${'\''$_mlv'\''}'\''`'\'' "; fi; _mlrv="MODULES_RUNENV_${_mlv}"; _mlre="${_mlre:-}${_mlv}='\''`eval '\''echo ${'\''$_mlrv'\'':-}'\''`'\'' "; fi; done; if [ -n "${_mlre:-}" ]; then eval `eval ${_mlre} /usr/bin/tclsh /usr/share/Modules/libexec/modulecmd.tcl sh '\''"$@"'\''`; else eval `/usr/bin/tclsh /usr/share/Modules/libexec/modulecmd.tcl sh "$@"`; fi; _mlstatus=$?; if [ -n "${_mlIFS+x}" ]; then IFS=$_mlIFS; else unset IFS; fi; unset _mlre _mlv _mlrv _mlIFS; if [ -n "${_mlshdbg:-}" ]; then set -$_mlshdbg; fi; unset _mlshdbg; return $_mlstatus; }; ml() { module ml "$@"; }; MODULES_CMD=/usr/share/Modules/libexec/modulecmd.tcl; export MODULES_CMD; MODULESHOME=/usr/share/Modules; export MODULESHOME; test 0;' ++++ MODULES_CMD=/usr/share/Modules/libexec/modulecmd.tcl ++++ export MODULES_CMD ++++ MODULESHOME=/usr/share/Modules ++++ export MODULESHOME ++++ test 0 +++ '[' 0 = 1 ']' +++ '[' /bin/sh '!=' '' ']' +++ '[' -t 2 ']' +++ export -f module ++++ type -t ml +++ '[' function = function ']' +++ export -f ml +++ '[' /bin/sh '!=' '' ']' +++ export -f switchml +++ case ":$PATH:" in +++ '[' '!' -n x ']' +++ case ":`manpath 2>/dev/null`:" in ++++ manpath +++ unset _mlcode _mlret +++ '[' -n '' ']' + module load mpi/mpich-riscv64 + unset _mlshdbg + '[' 0 = 1 ']' + unset _mlre _mlIFS + '[' -n x ']' + _mlIFS=' ' + IFS=' ' + for _mlv in ${MODULES_RUN_QUARANTINE:-} + '[' LD_LIBRARY_PATH = LD_LIBRARY_PATH -a LD_LIBRARY_PATH = LD_LIBRARY_PATH ']' ++ eval 'echo ${LD_LIBRARY_PATH+x}' +++ echo + '[' -n '' ']' + _mlrv=MODULES_RUNENV_LD_LIBRARY_PATH ++ eval 'echo ${MODULES_RUNENV_LD_LIBRARY_PATH:-}' +++ echo + _mlre='LD_LIBRARY_PATH='\'''\'' ' + for _mlv in ${MODULES_RUN_QUARANTINE:-} + '[' LD_PRELOAD = LD_PRELOAD -a LD_PRELOAD = LD_PRELOAD ']' ++ eval 'echo ${LD_PRELOAD+x}' +++ echo + '[' -n '' ']' + _mlrv=MODULES_RUNENV_LD_PRELOAD ++ eval 'echo ${MODULES_RUNENV_LD_PRELOAD:-}' +++ echo + _mlre='LD_LIBRARY_PATH='\'''\'' LD_PRELOAD='\'''\'' ' + '[' -n 'LD_LIBRARY_PATH='\'''\'' LD_PRELOAD='\'''\'' ' ']' ++ eval 'LD_LIBRARY_PATH='\'''\''' 'LD_PRELOAD='\'''\''' /usr/bin/tclsh /usr/share/Modules/libexec/modulecmd.tcl sh '"$@"' +++ LD_LIBRARY_PATH= +++ LD_PRELOAD= +++ /usr/bin/tclsh /usr/share/Modules/libexec/modulecmd.tcl sh load mpi/mpich-riscv64 + eval 'LD_LIBRARY_PATH=/usr/lib64/mpich/lib;' export 'LD_LIBRARY_PATH; MPI_COMPILER=mpich-riscv64;' export 'MPI_COMPILER; MANPATH=/usr/share/man/mpich-riscv64::;' export 'MANPATH; MPI_INCLUDE=/usr/include/mpich-riscv64;' export 'MPI_INCLUDE; MPI_MAN=/usr/share/man/mpich-riscv64;' export 'MPI_MAN; MPI_PYTHON_SITEARCH=%\{python2_sitearch\}/mpich;' export 'MPI_PYTHON_SITEARCH; _LMFILES_=/usr/share/modulefiles/mpi/mpich-riscv64;' export '_LMFILES_; LOADEDMODULES=mpi/mpich-riscv64;' export 'LOADEDMODULES; MODULES_LMCONFLICT=mpi/mpich-riscv64\&mpi;' export 'MODULES_LMCONFLICT; PKG_CONFIG_PATH=/usr/lib64/mpich/lib/pkgconfig::/usr/lib64/pkgconfig:/usr/share/pkgconfig;' export 'PKG_CONFIG_PATH; MANPATH_modshare=/usr/share/man/mpich-riscv64:1::2;' export 'MANPATH_modshare; MPI_PYTHON3_SITEARCH=/usr/lib64/python3.9/site-packages/mpich;' export 'MPI_PYTHON3_SITEARCH; MODULES_LMCONFLICT_modshare=mpi/mpich-riscv64\&mpi:1;' export 'MODULES_LMCONFLICT_modshare; PKG_CONFIG_PATH_modshare=:1:/usr/lib64/pkgconfig:1:/usr/lib64/mpich/lib/pkgconfig:1:/usr/share/pkgconfig:1;' export 'PKG_CONFIG_PATH_modshare; MPI_FORTRAN_MOD_DIR=/usr/lib64/gfortran/modules/mpich;' export 'MPI_FORTRAN_MOD_DIR; MPI_HOME=/usr/lib64/mpich;' export 'MPI_HOME; LD_LIBRARY_PATH_modshare=/usr/lib64/mpich/lib:1;' export 'LD_LIBRARY_PATH_modshare; MPI_SYSCONFIG=/etc/mpich-riscv64;' export 'MPI_SYSCONFIG; MPI_SUFFIX=_mpich;' export 'MPI_SUFFIX; MPI_PYTHON2_SITEARCH=%\{python2_sitearch\}/mpich;' export 'MPI_PYTHON2_SITEARCH; _LMFILES__modshare=/usr/share/modulefiles/mpi/mpich-riscv64:1;' export '_LMFILES__modshare; LOADEDMODULES_modshare=mpi/mpich-riscv64:1;' export 'LOADEDMODULES_modshare; MPI_LIB=/usr/lib64/mpich/lib;' export 'MPI_LIB; PATH=/usr/lib64/mpich/bin:/usr/share/Modules/bin:/usr/bin:/bin:/usr/sbin:/sbin:/usr/local/sbin;' export 'PATH; MPI_BIN=/usr/lib64/mpich/bin;' export 'MPI_BIN; PATH_modshare=/bin:1:/usr/sbin:1:/usr/lib64/mpich/bin:1:/usr/bin:1:/usr/local/sbin:1:/usr/share/Modules/bin:1:/sbin:1;' export 'PATH_modshare; test' '0;' ++ LD_LIBRARY_PATH=/usr/lib64/mpich/lib ++ export LD_LIBRARY_PATH ++ MPI_COMPILER=mpich-riscv64 ++ export MPI_COMPILER ++ MANPATH=/usr/share/man/mpich-riscv64:: ++ export MANPATH ++ MPI_INCLUDE=/usr/include/mpich-riscv64 ++ export MPI_INCLUDE ++ MPI_MAN=/usr/share/man/mpich-riscv64 ++ export MPI_MAN ++ MPI_PYTHON_SITEARCH='%{python2_sitearch}/mpich' ++ export MPI_PYTHON_SITEARCH ++ _LMFILES_=/usr/share/modulefiles/mpi/mpich-riscv64 ++ export _LMFILES_ ++ LOADEDMODULES=mpi/mpich-riscv64 ++ export LOADEDMODULES ++ MODULES_LMCONFLICT='mpi/mpich-riscv64&mpi' ++ export MODULES_LMCONFLICT ++ PKG_CONFIG_PATH=/usr/lib64/mpich/lib/pkgconfig::/usr/lib64/pkgconfig:/usr/share/pkgconfig ++ export PKG_CONFIG_PATH ++ MANPATH_modshare=/usr/share/man/mpich-riscv64:1::2 ++ export MANPATH_modshare ++ MPI_PYTHON3_SITEARCH=/usr/lib64/python3.9/site-packages/mpich ++ export MPI_PYTHON3_SITEARCH ++ MODULES_LMCONFLICT_modshare='mpi/mpich-riscv64&mpi:1' ++ export MODULES_LMCONFLICT_modshare ++ PKG_CONFIG_PATH_modshare=:1:/usr/lib64/pkgconfig:1:/usr/lib64/mpich/lib/pkgconfig:1:/usr/share/pkgconfig:1 ++ export PKG_CONFIG_PATH_modshare ++ MPI_FORTRAN_MOD_DIR=/usr/lib64/gfortran/modules/mpich ++ export MPI_FORTRAN_MOD_DIR ++ MPI_HOME=/usr/lib64/mpich ++ export MPI_HOME ++ LD_LIBRARY_PATH_modshare=/usr/lib64/mpich/lib:1 ++ export LD_LIBRARY_PATH_modshare ++ MPI_SYSCONFIG=/etc/mpich-riscv64 ++ export MPI_SYSCONFIG ++ MPI_SUFFIX=_mpich ++ export MPI_SUFFIX ++ MPI_PYTHON2_SITEARCH='%{python2_sitearch}/mpich' ++ export MPI_PYTHON2_SITEARCH ++ _LMFILES__modshare=/usr/share/modulefiles/mpi/mpich-riscv64:1 ++ export _LMFILES__modshare ++ LOADEDMODULES_modshare=mpi/mpich-riscv64:1 ++ export LOADEDMODULES_modshare ++ MPI_LIB=/usr/lib64/mpich/lib ++ export MPI_LIB ++ PATH=/usr/lib64/mpich/bin:/usr/share/Modules/bin:/usr/bin:/bin:/usr/sbin:/sbin:/usr/local/sbin ++ export PATH ++ MPI_BIN=/usr/lib64/mpich/bin ++ export MPI_BIN ++ PATH_modshare=/bin:1:/usr/sbin:1:/usr/lib64/mpich/bin:1:/usr/bin:1:/usr/local/sbin:1:/usr/share/Modules/bin:1:/sbin:1 ++ export PATH_modshare ++ test 0 + _mlstatus=0 + '[' -n x ']' + IFS=' ' + unset _mlre _mlv _mlrv _mlIFS + '[' -n '' ']' + unset _mlshdbg + return 0 + export 'CFLAGS= -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection' + CFLAGS=' -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection' + make install DESTDIR=/builddir/build/BUILDROOT/bout++-4.3.1-5.fc33.riscv64 # Pre-install commands follow. # Normal commands follow. /usr/bin/mkdir -p /builddir/build/BUILDROOT/bout++-4.3.1-5.fc33.riscv64/usr/include/mpich-riscv64/bout++//{,pvode,bout/sys,bout/invert} /usr/bin/mkdir -p /builddir/build/BUILDROOT/bout++-4.3.1-5.fc33.riscv64/{/usr/lib64/mpich/lib,/usr/lib64/mpich/bin,/usr/share/bout++/idllib} /usr/bin/mkdir -p /builddir/build/BUILDROOT/bout++-4.3.1-5.fc33.riscv64//usr/share/bout++/pylib/{boutdata,boututils} /usr/bin/install -c -m 644 include/*.hxx /builddir/build/BUILDROOT/bout++-4.3.1-5.fc33.riscv64/usr/include/mpich-riscv64/bout++/ /usr/bin/install -c -m 644 include/pvode/*.h /builddir/build/BUILDROOT/bout++-4.3.1-5.fc33.riscv64/usr/include/mpich-riscv64/bout++//pvode/ /usr/bin/install -c -m 644 include/bout/*.hxx /builddir/build/BUILDROOT/bout++-4.3.1-5.fc33.riscv64/usr/include/mpich-riscv64/bout++//bout/ /usr/bin/install -c -m 644 include/bout/sys/*.hxx /builddir/build/BUILDROOT/bout++-4.3.1-5.fc33.riscv64/usr/include/mpich-riscv64/bout++//bout/sys/ /usr/bin/install -c -m 644 include/bout/invert/*.hxx /builddir/build/BUILDROOT/bout++-4.3.1-5.fc33.riscv64/usr/include/mpich-riscv64/bout++//bout/invert/ /usr/bin/install -c -m 644 lib/libbout++.a /builddir/build/BUILDROOT/bout++-4.3.1-5.fc33.riscv64/usr/lib64/mpich/lib /usr/bin/install -c -m 644 lib/libpvode.a /builddir/build/BUILDROOT/bout++-4.3.1-5.fc33.riscv64/usr/lib64/mpich/lib /usr/bin/install -c -m 644 lib/libpvpre.a /builddir/build/BUILDROOT/bout++-4.3.1-5.fc33.riscv64/usr/lib64/mpich/lib /usr/bin/install -c bin/bout-config /builddir/build/BUILDROOT/bout++-4.3.1-5.fc33.riscv64/usr/lib64/mpich/bin /usr/bin/install -c bin/bout-log-color /builddir/build/BUILDROOT/bout++-4.3.1-5.fc33.riscv64/usr/lib64/mpich/bin /usr/bin/install -c -m 644 tools/idllib/*.pro /builddir/build/BUILDROOT/bout++-4.3.1-5.fc33.riscv64/usr/share/bout++/idllib/ /usr/bin/install -c -m 644 tools/idllib/README /builddir/build/BUILDROOT/bout++-4.3.1-5.fc33.riscv64/usr/share/bout++/idllib/ /usr/bin/install -c -m 644 tools/pylib/boutdata/*.py /builddir/build/BUILDROOT/bout++-4.3.1-5.fc33.riscv64/usr/share/bout++/pylib/boutdata/ /usr/bin/install -c -m 644 tools/pylib/boututils/*.py /builddir/build/BUILDROOT/bout++-4.3.1-5.fc33.riscv64/usr/share/bout++/pylib/boututils/ /usr/bin/install -c -m 644 make.config /builddir/build/BUILDROOT/bout++-4.3.1-5.fc33.riscv64/usr/include/mpich-riscv64/bout++/ for mo in de/LC_MESSAGES/libbout.mo es/LC_MESSAGES/libbout.mo fr/LC_MESSAGES/libbout.mo zh_CN/LC_MESSAGES/libbout.mo zh_TW/LC_MESSAGES/libbout.mo; do /usr/bin/mkdir -p /builddir/build/BUILDROOT/bout++-4.3.1-5.fc33.riscv64/usr/share/locale/`dirname $mo`; /usr/bin/install -c -m 644 locale/$mo /builddir/build/BUILDROOT/bout++-4.3.1-5.fc33.riscv64/usr/share/locale/$mo; done # Post-install commands follow. sed -i "s|^BOUT_INCLUDE_PATH=.*|BOUT_INCLUDE_PATH=/usr/include/mpich-riscv64/bout++|" /builddir/build/BUILDROOT/bout++-4.3.1-5.fc33.riscv64/usr/lib64/mpich/bin/bout-config sed -i "s|^BOUT_LIB_PATH=.*|BOUT_LIB_PATH=/usr/lib64/mpich/lib|" /builddir/build/BUILDROOT/bout++-4.3.1-5.fc33.riscv64/usr/lib64/mpich/bin/bout-config sed -i "s|^BOUT_CONFIG_FILE=.*|BOUT_CONFIG_FILE=/usr/include/mpich-riscv64/bout++/make.config|" /builddir/build/BUILDROOT/bout++-4.3.1-5.fc33.riscv64/usr/lib64/mpich/bin/bout-config sed -i "s|^idlpath=.*|idlpath=/usr/share/bout++/idllib/|" /builddir/build/BUILDROOT/bout++-4.3.1-5.fc33.riscv64/usr/lib64/mpich/bin/bout-config sed -i "s|^pythonpath=.*|pythonpath=/usr/share/bout++/pylib/|" /builddir/build/BUILDROOT/bout++-4.3.1-5.fc33.riscv64/usr/lib64/mpich/bin/bout-config sed -i "s|^BOUT_INCLUDE_PATH=.*|BOUT_INCLUDE_PATH=/usr/include/mpich-riscv64/bout++|" /builddir/build/BUILDROOT/bout++-4.3.1-5.fc33.riscv64/usr/include/mpich-riscv64/bout++//make.config sed -i "s|^BOUT_LIB_PATH=.*|BOUT_LIB_PATH=/usr/lib64/mpich/lib|" /builddir/build/BUILDROOT/bout++-4.3.1-5.fc33.riscv64/usr/include/mpich-riscv64/bout++//make.config sed -i "s|^BOUT_CONFIG_FILE=.*|BOUT_CONFIG_FILE=/usr/include/mpich-riscv64/bout++/make.config|" /builddir/build/BUILDROOT/bout++-4.3.1-5.fc33.riscv64/usr/include/mpich-riscv64/bout++//make.config sed -i '26 i RELEASED = yes' /builddir/build/BUILDROOT/bout++-4.3.1-5.fc33.riscv64/usr/include/mpich-riscv64/bout++//make.config + sed -i '26 i RELEASED = 4.3.1-5.fc33' /builddir/build/BUILDROOT/bout++-4.3.1-5.fc33.riscv64//usr/include/mpich-riscv64/bout++/make.config + rm -rf /builddir/build/BUILDROOT/bout++-4.3.1-5.fc33.riscv64/usr/share/bout++ + rm -f /builddir/build/BUILDROOT/bout++-4.3.1-5.fc33.riscv64//usr/lib64/mpich/lib/libbout++.a /builddir/build/BUILDROOT/bout++-4.3.1-5.fc33.riscv64//usr/lib64/mpich/lib/libpvode.a /builddir/build/BUILDROOT/bout++-4.3.1-5.fc33.riscv64//usr/lib64/mpich/lib/libpvpre.a + install lib/libbout++.so.4.3.1 lib/libpvode.so.1.0.0 lib/libpvpre.so.1.0.0 /builddir/build/BUILDROOT/bout++-4.3.1-5.fc33.riscv64//usr/lib64/mpich/lib/ ~/build/BUILDROOT/bout++-4.3.1-5.fc33.riscv64/usr/lib64/mpich/lib ~/build/BUILD/BOUT++-v4.3.1/build_mpich ~/build/BUILD/BOUT++-v4.3.1 + pushd /builddir/build/BUILDROOT/bout++-4.3.1-5.fc33.riscv64//usr/lib64/mpich/lib/ + for f in *.so.* + ln -s libbout++.so.4.3.1 libbout++.so + for f in *.so.* + ln -s libpvode.so.1.0.0 libpvode.so + for f in *.so.* + ln -s libpvpre.so.1.0.0 libpvpre.so + popd ~/build/BUILD/BOUT++-v4.3.1/build_mpich ~/build/BUILD/BOUT++-v4.3.1 ~/build/BUILD/BOUT++-v4.3.1 + popd + '[' mpich = mpich ']' + . /etc/profile.d/modules.sh ++ '[' -n /bin/sh ']' ++ shell=sh ++ '[' -f /usr/share/Modules/init/sh ']' ++ . /usr/share/Modules/init/sh +++ unset _mlshdbg +++ '[' 0 = 1 ']' +++ export 'MODULES_RUN_QUARANTINE=LD_LIBRARY_PATH LD_PRELOAD' +++ MODULES_RUN_QUARANTINE='LD_LIBRARY_PATH LD_PRELOAD' +++ unset _mlre _mlIFS +++ '[' -n x ']' +++ _mlIFS=' ' +++ IFS=' ' +++ for _mlv in ${MODULES_RUN_QUARANTINE:-} +++ '[' LD_LIBRARY_PATH = LD_LIBRARY_PATH -a LD_LIBRARY_PATH = LD_LIBRARY_PATH ']' ++++ eval 'echo ${LD_LIBRARY_PATH+x}' +++++ echo x +++ '[' -n x ']' ++++ eval 'echo ${LD_LIBRARY_PATH}' +++++ echo /usr/lib64/mpich/lib +++ _mlre='LD_LIBRARY_PATH_modquar='\''/usr/lib64/mpich/lib'\'' ' +++ _mlrv=MODULES_RUNENV_LD_LIBRARY_PATH ++++ eval 'echo ${MODULES_RUNENV_LD_LIBRARY_PATH:-}' +++++ echo +++ _mlre='LD_LIBRARY_PATH_modquar='\''/usr/lib64/mpich/lib'\'' LD_LIBRARY_PATH='\'''\'' ' +++ for _mlv in ${MODULES_RUN_QUARANTINE:-} +++ '[' LD_PRELOAD = LD_PRELOAD -a LD_PRELOAD = LD_PRELOAD ']' ++++ eval 'echo ${LD_PRELOAD+x}' +++++ echo +++ '[' -n '' ']' +++ _mlrv=MODULES_RUNENV_LD_PRELOAD ++++ eval 'echo ${MODULES_RUNENV_LD_PRELOAD:-}' +++++ echo +++ _mlre='LD_LIBRARY_PATH_modquar='\''/usr/lib64/mpich/lib'\'' LD_LIBRARY_PATH='\'''\'' LD_PRELOAD='\'''\'' ' +++ '[' -n 'LD_LIBRARY_PATH_modquar='\''/usr/lib64/mpich/lib'\'' LD_LIBRARY_PATH='\'''\'' LD_PRELOAD='\'''\'' ' ']' +++ _mlre='eval LD_LIBRARY_PATH_modquar='\''/usr/lib64/mpich/lib'\'' LD_LIBRARY_PATH='\'''\'' LD_PRELOAD='\'''\'' ' ++++ eval 'LD_LIBRARY_PATH_modquar='\''/usr/lib64/mpich/lib'\''' 'LD_LIBRARY_PATH='\'''\''' 'LD_PRELOAD='\'''\''' /usr/bin/tclsh /usr/share/Modules/libexec/modulecmd.tcl sh autoinit +++++ LD_LIBRARY_PATH_modquar=/usr/lib64/mpich/lib +++++ LD_LIBRARY_PATH= +++++ LD_PRELOAD= +++++ /usr/bin/tclsh /usr/share/Modules/libexec/modulecmd.tcl sh autoinit +++ _mlcode='module() { unset _mlshdbg; if [ "${MODULES_SILENT_SHELL_DEBUG:-0}" = '\''1'\'' ]; then case "$-" in *v*x*) set +vx; _mlshdbg='\''vx'\'' ;; *v*) set +v; _mlshdbg='\''v'\'' ;; *x*) set +x; _mlshdbg='\''x'\'' ;; *) _mlshdbg='\'''\'' ;; esac; fi; unset _mlre _mlIFS; if [ -n "${IFS+x}" ]; then _mlIFS=$IFS; fi; IFS='\'' '\''; for _mlv in ${MODULES_RUN_QUARANTINE:-}; do if [ "${_mlv}" = "${_mlv##*[!A-Za-z0-9_]}" -a "${_mlv}" = "${_mlv#[0-9]}" ]; then if [ -n "`eval '\''echo ${'\''$_mlv'\''+x}'\''`" ]; then _mlre="${_mlre:-}${_mlv}_modquar='\''`eval '\''echo ${'\''$_mlv'\''}'\''`'\'' "; fi; _mlrv="MODULES_RUNENV_${_mlv}"; _mlre="${_mlre:-}${_mlv}='\''`eval '\''echo ${'\''$_mlrv'\'':-}'\''`'\'' "; fi; done; if [ -n "${_mlre:-}" ]; then eval `eval ${_mlre} /usr/bin/tclsh /usr/share/Modules/libexec/modulecmd.tcl sh '\''"$@"'\''`; else eval `/usr/bin/tclsh /usr/share/Modules/libexec/modulecmd.tcl sh "$@"`; fi; _mlstatus=$?; if [ -n "${_mlIFS+x}" ]; then IFS=$_mlIFS; else unset IFS; fi; unset _mlre _mlv _mlrv _mlIFS; if [ -n "${_mlshdbg:-}" ]; then set -$_mlshdbg; fi; unset _mlshdbg; return $_mlstatus; }; ml() { module ml "$@"; }; MODULES_CMD=/usr/share/Modules/libexec/modulecmd.tcl; export MODULES_CMD; MODULESHOME=/usr/share/Modules; export MODULESHOME; test 0;' +++ _mlret=0 +++ '[' -n x ']' +++ IFS=' ' +++ unset _mlIFS +++ unset _mlre _mlv _mlrv +++ '[' 0 -eq 0 ']' +++ eval 'module() { unset _mlshdbg; if [ "${MODULES_SILENT_SHELL_DEBUG:-0}" = '\''1'\'' ]; then case "$-" in *v*x*) set +vx; _mlshdbg='\''vx'\'' ;; *v*) set +v; _mlshdbg='\''v'\'' ;; *x*) set +x; _mlshdbg='\''x'\'' ;; *) _mlshdbg='\'''\'' ;; esac; fi; unset _mlre _mlIFS; if [ -n "${IFS+x}" ]; then _mlIFS=$IFS; fi; IFS='\'' '\''; for _mlv in ${MODULES_RUN_QUARANTINE:-}; do if [ "${_mlv}" = "${_mlv##*[!A-Za-z0-9_]}" -a "${_mlv}" = "${_mlv#[0-9]}" ]; then if [ -n "`eval '\''echo ${'\''$_mlv'\''+x}'\''`" ]; then _mlre="${_mlre:-}${_mlv}_modquar='\''`eval '\''echo ${'\''$_mlv'\''}'\''`'\'' "; fi; _mlrv="MODULES_RUNENV_${_mlv}"; _mlre="${_mlre:-}${_mlv}='\''`eval '\''echo ${'\''$_mlrv'\'':-}'\''`'\'' "; fi; done; if [ -n "${_mlre:-}" ]; then eval `eval ${_mlre} /usr/bin/tclsh /usr/share/Modules/libexec/modulecmd.tcl sh '\''"$@"'\''`; else eval `/usr/bin/tclsh /usr/share/Modules/libexec/modulecmd.tcl sh "$@"`; fi; _mlstatus=$?; if [ -n "${_mlIFS+x}" ]; then IFS=$_mlIFS; else unset IFS; fi; unset _mlre _mlv _mlrv _mlIFS; if [ -n "${_mlshdbg:-}" ]; then set -$_mlshdbg; fi; unset _mlshdbg; return $_mlstatus; }; ml() { module ml "$@"; }; MODULES_CMD=/usr/share/Modules/libexec/modulecmd.tcl; export MODULES_CMD; MODULESHOME=/usr/share/Modules; export MODULESHOME; test 0;' ++++ MODULES_CMD=/usr/share/Modules/libexec/modulecmd.tcl ++++ export MODULES_CMD ++++ MODULESHOME=/usr/share/Modules ++++ export MODULESHOME ++++ test 0 +++ '[' 0 = 1 ']' +++ '[' /bin/sh '!=' '' ']' +++ '[' -t 2 ']' +++ export -f module ++++ type -t ml +++ '[' function = function ']' +++ export -f ml +++ '[' /bin/sh '!=' '' ']' +++ export -f switchml +++ case ":$PATH:" in +++ '[' '!' -n x ']' +++ case ":`manpath 2>/dev/null`:" in ++++ manpath +++ unset _mlcode _mlret +++ '[' -n '' ']' + module unload mpi/mpich-riscv64 + unset _mlshdbg + '[' 0 = 1 ']' + unset _mlre _mlIFS + '[' -n x ']' + _mlIFS=' ' + IFS=' ' + for _mlv in ${MODULES_RUN_QUARANTINE:-} + '[' LD_LIBRARY_PATH = LD_LIBRARY_PATH -a LD_LIBRARY_PATH = LD_LIBRARY_PATH ']' ++ eval 'echo ${LD_LIBRARY_PATH+x}' +++ echo x + '[' -n x ']' ++ eval 'echo ${LD_LIBRARY_PATH}' +++ echo /usr/lib64/mpich/lib + _mlre='LD_LIBRARY_PATH_modquar='\''/usr/lib64/mpich/lib'\'' ' + _mlrv=MODULES_RUNENV_LD_LIBRARY_PATH ++ eval 'echo ${MODULES_RUNENV_LD_LIBRARY_PATH:-}' +++ echo + _mlre='LD_LIBRARY_PATH_modquar='\''/usr/lib64/mpich/lib'\'' LD_LIBRARY_PATH='\'''\'' ' + for _mlv in ${MODULES_RUN_QUARANTINE:-} + '[' LD_PRELOAD = LD_PRELOAD -a LD_PRELOAD = LD_PRELOAD ']' ++ eval 'echo ${LD_PRELOAD+x}' +++ echo + '[' -n '' ']' + _mlrv=MODULES_RUNENV_LD_PRELOAD ++ eval 'echo ${MODULES_RUNENV_LD_PRELOAD:-}' +++ echo + _mlre='LD_LIBRARY_PATH_modquar='\''/usr/lib64/mpich/lib'\'' LD_LIBRARY_PATH='\'''\'' LD_PRELOAD='\'''\'' ' + '[' -n 'LD_LIBRARY_PATH_modquar='\''/usr/lib64/mpich/lib'\'' LD_LIBRARY_PATH='\'''\'' LD_PRELOAD='\'''\'' ' ']' ++ eval 'LD_LIBRARY_PATH_modquar='\''/usr/lib64/mpich/lib'\''' 'LD_LIBRARY_PATH='\'''\''' 'LD_PRELOAD='\'''\''' /usr/bin/tclsh /usr/share/Modules/libexec/modulecmd.tcl sh '"$@"' +++ LD_LIBRARY_PATH_modquar=/usr/lib64/mpich/lib +++ LD_LIBRARY_PATH= +++ LD_PRELOAD= +++ /usr/bin/tclsh /usr/share/Modules/libexec/modulecmd.tcl sh unload mpi/mpich-riscv64 + eval unset 'LD_LIBRARY_PATH; unset' 'MPI_COMPILER; MANPATH=;' export 'MANPATH; unset' 'MPI_INCLUDE; unset' 'MPI_MAN; unset' 'MPI_PYTHON_SITEARCH; unset' '_LMFILES_; unset' 'LOADEDMODULES; unset' 'MODULES_LMCONFLICT; PKG_CONFIG_PATH=:/usr/lib64/pkgconfig:/usr/share/pkgconfig;' export 'PKG_CONFIG_PATH; MANPATH_modshare=:1;' export 'MANPATH_modshare; unset' 'MPI_PYTHON3_SITEARCH; unset' 'MODULES_LMCONFLICT_modshare; PKG_CONFIG_PATH_modshare=:1:/usr/lib64/pkgconfig:1:/usr/share/pkgconfig:1;' export 'PKG_CONFIG_PATH_modshare; unset' 'MPI_FORTRAN_MOD_DIR; unset' 'MPI_HOME; unset' 'LD_LIBRARY_PATH_modshare; ~/build/BUILD/BOUT++-v4.3.1/build_openmpi ~/build/BUILD/BOUT++-v4.3.1 unset' 'MPI_SYSCONFIG; unset' 'MPI_SUFFIX; unset' 'MPI_PYTHON2_SITEARCH; unset' '_LMFILES__modshare; unset' 'LOADEDMODULES_modshare; unset' 'MPI_LIB; PATH=/usr/share/Modules/bin:/usr/bin:/bin:/usr/sbin:/sbin:/usr/local/sbin;' export 'PATH; unset' 'MPI_BIN; PATH_modshare=/bin:1:/usr/sbin:1:/usr/bin:1:/usr/local/sbin:1:/usr/share/Modules/bin:1:/sbin:1;' export 'PATH_modshare; test' '0;' ++ unset LD_LIBRARY_PATH ++ unset MPI_COMPILER ++ MANPATH= ++ export MANPATH ++ unset MPI_INCLUDE ++ unset MPI_MAN ++ unset MPI_PYTHON_SITEARCH ++ unset _LMFILES_ ++ unset LOADEDMODULES ++ unset MODULES_LMCONFLICT ++ PKG_CONFIG_PATH=:/usr/lib64/pkgconfig:/usr/share/pkgconfig ++ export PKG_CONFIG_PATH ++ MANPATH_modshare=:1 ++ export MANPATH_modshare ++ unset MPI_PYTHON3_SITEARCH ++ unset MODULES_LMCONFLICT_modshare ++ PKG_CONFIG_PATH_modshare=:1:/usr/lib64/pkgconfig:1:/usr/share/pkgconfig:1 ++ export PKG_CONFIG_PATH_modshare ++ unset MPI_FORTRAN_MOD_DIR ++ unset MPI_HOME ++ unset LD_LIBRARY_PATH_modshare ++ unset MPI_SYSCONFIG ++ unset MPI_SUFFIX ++ unset MPI_PYTHON2_SITEARCH ++ unset _LMFILES__modshare ++ unset LOADEDMODULES_modshare ++ unset MPI_LIB ++ PATH=/usr/share/Modules/bin:/usr/bin:/bin:/usr/sbin:/sbin:/usr/local/sbin ++ export PATH ++ unset MPI_BIN ++ PATH_modshare=/bin:1:/usr/sbin:1:/usr/bin:1:/usr/local/sbin:1:/usr/share/Modules/bin:1:/sbin:1 ++ export PATH_modshare ++ test 0 + _mlstatus=0 + '[' -n x ']' + IFS=' ' + unset _mlre _mlv _mlrv _mlIFS + '[' -n '' ']' + unset _mlshdbg + return 0 + for mpi in mpich openmpi + pushd build_openmpi + '[' openmpi = mpich ']' + . /etc/profile.d/modules.sh ++ '[' -n /bin/sh ']' ++ shell=sh ++ '[' -f /usr/share/Modules/init/sh ']' ++ . /usr/share/Modules/init/sh +++ unset _mlshdbg +++ '[' 0 = 1 ']' +++ export 'MODULES_RUN_QUARANTINE=LD_LIBRARY_PATH LD_PRELOAD' +++ MODULES_RUN_QUARANTINE='LD_LIBRARY_PATH LD_PRELOAD' +++ unset _mlre _mlIFS +++ '[' -n x ']' +++ _mlIFS=' ' +++ IFS=' ' +++ for _mlv in ${MODULES_RUN_QUARANTINE:-} +++ '[' LD_LIBRARY_PATH = LD_LIBRARY_PATH -a LD_LIBRARY_PATH = LD_LIBRARY_PATH ']' ++++ eval 'echo ${LD_LIBRARY_PATH+x}' +++++ echo +++ '[' -n '' ']' +++ _mlrv=MODULES_RUNENV_LD_LIBRARY_PATH ++++ eval 'echo ${MODULES_RUNENV_LD_LIBRARY_PATH:-}' +++++ echo +++ _mlre='LD_LIBRARY_PATH='\'''\'' ' +++ for _mlv in ${MODULES_RUN_QUARANTINE:-} +++ '[' LD_PRELOAD = LD_PRELOAD -a LD_PRELOAD = LD_PRELOAD ']' ++++ eval 'echo ${LD_PRELOAD+x}' +++++ echo +++ '[' -n '' ']' +++ _mlrv=MODULES_RUNENV_LD_PRELOAD ++++ eval 'echo ${MODULES_RUNENV_LD_PRELOAD:-}' +++++ echo +++ _mlre='LD_LIBRARY_PATH='\'''\'' LD_PRELOAD='\'''\'' ' +++ '[' -n 'LD_LIBRARY_PATH='\'''\'' LD_PRELOAD='\'''\'' ' ']' +++ _mlre='eval LD_LIBRARY_PATH='\'''\'' LD_PRELOAD='\'''\'' ' ++++ eval 'LD_LIBRARY_PATH='\'''\''' 'LD_PRELOAD='\'''\''' /usr/bin/tclsh /usr/share/Modules/libexec/modulecmd.tcl sh autoinit +++++ LD_LIBRARY_PATH= +++++ LD_PRELOAD= +++++ /usr/bin/tclsh /usr/share/Modules/libexec/modulecmd.tcl sh autoinit +++ _mlcode='module() { unset _mlshdbg; if [ "${MODULES_SILENT_SHELL_DEBUG:-0}" = '\''1'\'' ]; then case "$-" in *v*x*) set +vx; _mlshdbg='\''vx'\'' ;; *v*) set +v; _mlshdbg='\''v'\'' ;; *x*) set +x; _mlshdbg='\''x'\'' ;; *) _mlshdbg='\'''\'' ;; esac; fi; unset _mlre _mlIFS; if [ -n "${IFS+x}" ]; then _mlIFS=$IFS; fi; IFS='\'' '\''; for _mlv in ${MODULES_RUN_QUARANTINE:-}; do if [ "${_mlv}" = "${_mlv##*[!A-Za-z0-9_]}" -a "${_mlv}" = "${_mlv#[0-9]}" ]; then if [ -n "`eval '\''echo ${'\''$_mlv'\''+x}'\''`" ]; then _mlre="${_mlre:-}${_mlv}_modquar='\''`eval '\''echo ${'\''$_mlv'\''}'\''`'\'' "; fi; _mlrv="MODULES_RUNENV_${_mlv}"; _mlre="${_mlre:-}${_mlv}='\''`eval '\''echo ${'\''$_mlrv'\'':-}'\''`'\'' "; fi; done; if [ -n "${_mlre:-}" ]; then eval `eval ${_mlre} /usr/bin/tclsh /usr/share/Modules/libexec/modulecmd.tcl sh '\''"$@"'\''`; else eval `/usr/bin/tclsh /usr/share/Modules/libexec/modulecmd.tcl sh "$@"`; fi; _mlstatus=$?; if [ -n "${_mlIFS+x}" ]; then IFS=$_mlIFS; else unset IFS; fi; unset _mlre _mlv _mlrv _mlIFS; if [ -n "${_mlshdbg:-}" ]; then set -$_mlshdbg; fi; unset _mlshdbg; return $_mlstatus; }; ml() { module ml "$@"; }; MODULES_CMD=/usr/share/Modules/libexec/modulecmd.tcl; export MODULES_CMD; MODULESHOME=/usr/share/Modules; export MODULESHOME; LOADEDMODULES=; export LOADEDMODULES; test 0;' +++ _mlret=0 +++ '[' -n x ']' +++ IFS=' ' +++ unset _mlIFS +++ unset _mlre _mlv _mlrv +++ '[' 0 -eq 0 ']' +++ eval 'module() { unset _mlshdbg; if [ "${MODULES_SILENT_SHELL_DEBUG:-0}" = '\''1'\'' ]; then case "$-" in *v*x*) set +vx; _mlshdbg='\''vx'\'' ;; *v*) set +v; _mlshdbg='\''v'\'' ;; *x*) set +x; _mlshdbg='\''x'\'' ;; *) _mlshdbg='\'''\'' ;; esac; fi; unset _mlre _mlIFS; if [ -n "${IFS+x}" ]; then _mlIFS=$IFS; fi; IFS='\'' '\''; for _mlv in ${MODULES_RUN_QUARANTINE:-}; do if [ "${_mlv}" = "${_mlv##*[!A-Za-z0-9_]}" -a "${_mlv}" = "${_mlv#[0-9]}" ]; then if [ -n "`eval '\''echo ${'\''$_mlv'\''+x}'\''`" ]; then _mlre="${_mlre:-}${_mlv}_modquar='\''`eval '\''echo ${'\''$_mlv'\''}'\''`'\'' "; fi; _mlrv="MODULES_RUNENV_${_mlv}"; _mlre="${_mlre:-}${_mlv}='\''`eval '\''echo ${'\''$_mlrv'\'':-}'\''`'\'' "; fi; done; if [ -n "${_mlre:-}" ]; then eval `eval ${_mlre} /usr/bin/tclsh /usr/share/Modules/libexec/modulecmd.tcl sh '\''"$@"'\''`; else eval `/usr/bin/tclsh /usr/share/Modules/libexec/modulecmd.tcl sh "$@"`; fi; _mlstatus=$?; if [ -n "${_mlIFS+x}" ]; then IFS=$_mlIFS; else unset IFS; fi; unset _mlre _mlv _mlrv _mlIFS; if [ -n "${_mlshdbg:-}" ]; then set -$_mlshdbg; fi; unset _mlshdbg; return $_mlstatus; }; ml() { module ml "$@"; }; MODULES_CMD=/usr/share/Modules/libexec/modulecmd.tcl; export MODULES_CMD; MODULESHOME=/usr/share/Modules; export MODULESHOME; LOADEDMODULES=; export LOADEDMODULES; test 0;' ++++ MODULES_CMD=/usr/share/Modules/libexec/modulecmd.tcl ++++ export MODULES_CMD ++++ MODULESHOME=/usr/share/Modules ++++ export MODULESHOME ++++ LOADEDMODULES= ++++ export LOADEDMODULES ++++ test 0 +++ '[' 0 = 1 ']' +++ '[' /bin/sh '!=' '' ']' +++ '[' -t 2 ']' +++ export -f module ++++ type -t ml +++ '[' function = function ']' +++ export -f ml +++ '[' /bin/sh '!=' '' ']' +++ export -f switchml +++ case ":$PATH:" in +++ '[' '!' -n x ']' +++ case ":`manpath 2>/dev/null`:" in ++++ manpath +++ unset _mlcode _mlret +++ '[' -n '' ']' + module load mpi/openmpi-riscv64 + unset _mlshdbg + '[' 0 = 1 ']' + unset _mlre _mlIFS + '[' -n x ']' + _mlIFS=' ' + IFS=' ' + for _mlv in ${MODULES_RUN_QUARANTINE:-} + '[' LD_LIBRARY_PATH = LD_LIBRARY_PATH -a LD_LIBRARY_PATH = LD_LIBRARY_PATH ']' ++ eval 'echo ${LD_LIBRARY_PATH+x}' +++ echo + '[' -n '' ']' + _mlrv=MODULES_RUNENV_LD_LIBRARY_PATH ++ eval 'echo ${MODULES_RUNENV_LD_LIBRARY_PATH:-}' +++ echo + _mlre='LD_LIBRARY_PATH='\'''\'' ' + for _mlv in ${MODULES_RUN_QUARANTINE:-} + '[' LD_PRELOAD = LD_PRELOAD -a LD_PRELOAD = LD_PRELOAD ']' ++ eval 'echo ${LD_PRELOAD+x}' +++ echo + '[' -n '' ']' + _mlrv=MODULES_RUNENV_LD_PRELOAD ++ eval 'echo ${MODULES_RUNENV_LD_PRELOAD:-}' +++ echo + _mlre='LD_LIBRARY_PATH='\'''\'' LD_PRELOAD='\'''\'' ' + '[' -n 'LD_LIBRARY_PATH='\'''\'' LD_PRELOAD='\'''\'' ' ']' ++ eval 'LD_LIBRARY_PATH='\'''\''' 'LD_PRELOAD='\'''\''' /usr/bin/tclsh /usr/share/Modules/libexec/modulecmd.tcl sh '"$@"' +++ LD_LIBRARY_PATH= +++ LD_PRELOAD= +++ /usr/bin/tclsh /usr/share/Modules/libexec/modulecmd.tcl sh load mpi/openmpi-riscv64 + eval 'MPI_COMPILER=openmpi-riscv64;' export 'MPI_COMPILER; LD_LIBRARY_PATH=/usr/lib64/openmpi/lib;' export 'LD_LIBRARY_PATH; MPI_MAN=/usr/share/man/openmpi-riscv64;' export 'MPI_MAN; MANPATH=/usr/share/man/openmpi-riscv64:;' export 'MANPATH; MPI_INCLUDE=/usr/include/openmpi-riscv64;' export 'MPI_INCLUDE; _LMFILES_=/usr/share/modulefiles/mpi/openmpi-riscv64;' export '_LMFILES_; LOADEDMODULES=mpi/openmpi-riscv64;' export 'LOADEDMODULES; MODULES_LMCONFLICT=mpi/openmpi-riscv64\&mpi;' export 'MODULES_LMCONFLICT; PKG_CONFIG_PATH=/usr/lib64/openmpi/lib/pkgconfig::/usr/lib64/pkgconfig:/usr/share/pkgconfig;' export 'PKG_CONFIG_PATH; MANPATH_modshare=:2:/usr/share/man/openmpi-riscv64:1;' export 'MANPATH_modshare; MPI_PYTHON3_SITEARCH=/usr/lib64/python3.9/site-packages/openmpi;' export 'MPI_PYTHON3_SITEARCH; MODULES_LMCONFLICT_modshare=mpi/openmpi-riscv64\&mpi:1;' export 'MODULES_LMCONFLICT_modshare; PKG_CONFIG_PATH_modshare=:1:/usr/lib64/pkgconfig:1:/usr/lib64/openmpi/lib/pkgconfig:1:/usr/share/pkgconfig:1;' export 'PKG_CONFIG_PATH_modshare; MPI_HOME=/usr/lib64/openmpi;' export 'MPI_HOME; MPI_FORTRAN_MOD_DIR=/usr/lib64/gfortran/modules/openmpi;' export 'MPI_FORTRAN_MOD_DIR; MPI_SUFFIX=_openmpi;' export 'MPI_SUFFIX; LD_LIBRARY_PATH_modshare=/usr/lib64/openmpi/lib:1;' export 'LD_LIBRARY_PATH_modshare; MPI_SYSCONFIG=/etc/openmpi-riscv64;' export 'MPI_SYSCONFIG; _LMFILES__modshare=/usr/share/modulefiles/mpi/openmpi-riscv64:1;' export '_LMFILES__modshare; LOADEDMODULES_modshare=mpi/openmpi-riscv64:1;' export 'LOADEDMODULES_modshare; MPI_LIB=/usr/lib64/openmpi/lib;' export 'MPI_LIB; PATH=/usr/lib64/openmpi/bin:/usr/share/Modules/bin:/usr/bin:/bin:/usr/sbin:/sbin:/usr/local/sbin;' export 'PATH; MPI_BIN=/usr/lib64/openmpi/bin;' export 'MPI_BIN; PATH_modshare=/usr/lib64/openmpi/bin:1:/bin:1:/usr/sbin:1:/usr/bin:1:/usr/local/sbin:1:/usr/share/Modules/bin:1:/sbin:1;' export 'PATH_modshare; test' '0;' ++ MPI_COMPILER=openmpi-riscv64 ++ export MPI_COMPILER ++ LD_LIBRARY_PATH=/usr/lib64/openmpi/lib ++ export LD_LIBRARY_PATH ++ MPI_MAN=/usr/share/man/openmpi-riscv64 ++ export MPI_MAN ++ MANPATH=/usr/share/man/openmpi-riscv64: ++ export MANPATH ++ MPI_INCLUDE=/usr/include/openmpi-riscv64 ++ export MPI_INCLUDE ++ _LMFILES_=/usr/share/modulefiles/mpi/openmpi-riscv64 ++ export _LMFILES_ ++ LOADEDMODULES=mpi/openmpi-riscv64 ++ export LOADEDMODULES ++ MODULES_LMCONFLICT='mpi/openmpi-riscv64&mpi' ++ export MODULES_LMCONFLICT ++ PKG_CONFIG_PATH=/usr/lib64/openmpi/lib/pkgconfig::/usr/lib64/pkgconfig:/usr/share/pkgconfig ++ export PKG_CONFIG_PATH ++ MANPATH_modshare=:2:/usr/share/man/openmpi-riscv64:1 ++ export MANPATH_modshare ++ MPI_PYTHON3_SITEARCH=/usr/lib64/python3.9/site-packages/openmpi ++ export MPI_PYTHON3_SITEARCH ++ MODULES_LMCONFLICT_modshare='mpi/openmpi-riscv64&mpi:1' ++ export MODULES_LMCONFLICT_modshare ++ PKG_CONFIG_PATH_modshare=:1:/usr/lib64/pkgconfig:1:/usr/lib64/openmpi/lib/pkgconfig:1:/usr/share/pkgconfig:1 ++ export PKG_CONFIG_PATH_modshare ++ MPI_HOME=/usr/lib64/openmpi ++ export MPI_HOME ++ MPI_FORTRAN_MOD_DIR=/usr/lib64/gfortran/modules/openmpi ++ export MPI_FORTRAN_MOD_DIR ++ MPI_SUFFIX=_openmpi ++ export MPI_SUFFIX ++ LD_LIBRARY_PATH_modshare=/usr/lib64/openmpi/lib:1 ++ export LD_LIBRARY_PATH_modshare ++ MPI_SYSCONFIG=/etc/openmpi-riscv64 ++ export MPI_SYSCONFIG ++ _LMFILES__modshare=/usr/share/modulefiles/mpi/openmpi-riscv64:1 ++ export _LMFILES__modshare ++ LOADEDMODULES_modshare=mpi/openmpi-riscv64:1 ++ export LOADEDMODULES_modshare ++ MPI_LIB=/usr/lib64/openmpi/lib ++ export MPI_LIB ++ PATH=/usr/lib64/openmpi/bin:/usr/share/Modules/bin:/usr/bin:/bin:/usr/sbin:/sbin:/usr/local/sbin ++ export PATH ++ MPI_BIN=/usr/lib64/openmpi/bin ++ export MPI_BIN ++ PATH_modshare=/usr/lib64/openmpi/bin:1:/bin:1:/usr/sbin:1:/usr/bin:1:/usr/local/sbin:1:/usr/share/Modules/bin:1:/sbin:1 ++ export PATH_modshare ++ test 0 + _mlstatus=0 + '[' -n x ']' + IFS=' ' + unset _mlre _mlv _mlrv _mlIFS + '[' -n '' ']' + unset _mlshdbg + return 0 + export OMPI_MCA_rmaps_base_oversubscribe=1 + OMPI_MCA_rmaps_base_oversubscribe=1 + make install DESTDIR=/builddir/build/BUILDROOT/bout++-4.3.1-5.fc33.riscv64 # Pre-install commands follow. # Normal commands follow. /usr/bin/mkdir -p /builddir/build/BUILDROOT/bout++-4.3.1-5.fc33.riscv64/usr/include/openmpi-riscv64/bout++//{,pvode,bout/sys,bout/invert} /usr/bin/mkdir -p /builddir/build/BUILDROOT/bout++-4.3.1-5.fc33.riscv64/{/usr/lib64/openmpi/lib,/usr/lib64/openmpi/bin,/usr/share/bout++/idllib} /usr/bin/mkdir -p /builddir/build/BUILDROOT/bout++-4.3.1-5.fc33.riscv64//usr/share/bout++/pylib/{boutdata,boututils} /usr/bin/install -c -m 644 include/*.hxx /builddir/build/BUILDROOT/bout++-4.3.1-5.fc33.riscv64/usr/include/openmpi-riscv64/bout++/ /usr/bin/install -c -m 644 include/pvode/*.h /builddir/build/BUILDROOT/bout++-4.3.1-5.fc33.riscv64/usr/include/openmpi-riscv64/bout++//pvode/ /usr/bin/install -c -m 644 include/bout/*.hxx /builddir/build/BUILDROOT/bout++-4.3.1-5.fc33.riscv64/usr/include/openmpi-riscv64/bout++//bout/ /usr/bin/install -c -m 644 include/bout/sys/*.hxx /builddir/build/BUILDROOT/bout++-4.3.1-5.fc33.riscv64/usr/include/openmpi-riscv64/bout++//bout/sys/ /usr/bin/install -c -m 644 include/bout/invert/*.hxx /builddir/build/BUILDROOT/bout++-4.3.1-5.fc33.riscv64/usr/include/openmpi-riscv64/bout++//bout/invert/ /usr/bin/install -c -m 644 lib/libbout++.a /builddir/build/BUILDROOT/bout++-4.3.1-5.fc33.riscv64/usr/lib64/openmpi/lib /usr/bin/install -c -m 644 lib/libpvode.a /builddir/build/BUILDROOT/bout++-4.3.1-5.fc33.riscv64/usr/lib64/openmpi/lib /usr/bin/install -c -m 644 lib/libpvpre.a /builddir/build/BUILDROOT/bout++-4.3.1-5.fc33.riscv64/usr/lib64/openmpi/lib /usr/bin/install -c bin/bout-config /builddir/build/BUILDROOT/bout++-4.3.1-5.fc33.riscv64/usr/lib64/openmpi/bin /usr/bin/install -c bin/bout-log-color /builddir/build/BUILDROOT/bout++-4.3.1-5.fc33.riscv64/usr/lib64/openmpi/bin /usr/bin/install -c -m 644 tools/idllib/*.pro /builddir/build/BUILDROOT/bout++-4.3.1-5.fc33.riscv64/usr/share/bout++/idllib/ /usr/bin/install -c -m 644 tools/idllib/README /builddir/build/BUILDROOT/bout++-4.3.1-5.fc33.riscv64/usr/share/bout++/idllib/ /usr/bin/install -c -m 644 tools/pylib/boutdata/*.py /builddir/build/BUILDROOT/bout++-4.3.1-5.fc33.riscv64/usr/share/bout++/pylib/boutdata/ /usr/bin/install -c -m 644 tools/pylib/boututils/*.py /builddir/build/BUILDROOT/bout++-4.3.1-5.fc33.riscv64/usr/share/bout++/pylib/boututils/ /usr/bin/install -c -m 644 make.config /builddir/build/BUILDROOT/bout++-4.3.1-5.fc33.riscv64/usr/include/openmpi-riscv64/bout++/ for mo in de/LC_MESSAGES/libbout.mo es/LC_MESSAGES/libbout.mo fr/LC_MESSAGES/libbout.mo zh_CN/LC_MESSAGES/libbout.mo zh_TW/LC_MESSAGES/libbout.mo; do /usr/bin/mkdir -p /builddir/build/BUILDROOT/bout++-4.3.1-5.fc33.riscv64/usr/share/locale/`dirname $mo`; /usr/bin/install -c -m 644 locale/$mo /builddir/build/BUILDROOT/bout++-4.3.1-5.fc33.riscv64/usr/share/locale/$mo; done # Post-install commands follow. sed -i "s|^BOUT_INCLUDE_PATH=.*|BOUT_INCLUDE_PATH=/usr/include/openmpi-riscv64/bout++|" /builddir/build/BUILDROOT/bout++-4.3.1-5.fc33.riscv64/usr/lib64/openmpi/bin/bout-config sed -i "s|^BOUT_LIB_PATH=.*|BOUT_LIB_PATH=/usr/lib64/openmpi/lib|" /builddir/build/BUILDROOT/bout++-4.3.1-5.fc33.riscv64/usr/lib64/openmpi/bin/bout-config sed -i "s|^BOUT_CONFIG_FILE=.*|BOUT_CONFIG_FILE=/usr/include/openmpi-riscv64/bout++/make.config|" /builddir/build/BUILDROOT/bout++-4.3.1-5.fc33.riscv64/usr/lib64/openmpi/bin/bout-config sed -i "s|^idlpath=.*|idlpath=/usr/share/bout++/idllib/|" /builddir/build/BUILDROOT/bout++-4.3.1-5.fc33.riscv64/usr/lib64/openmpi/bin/bout-config sed -i "s|^pythonpath=.*|pythonpath=/usr/share/bout++/pylib/|" /builddir/build/BUILDROOT/bout++-4.3.1-5.fc33.riscv64/usr/lib64/openmpi/bin/bout-config sed -i "s|^BOUT_INCLUDE_PATH=.*|BOUT_INCLUDE_PATH=/usr/include/openmpi-riscv64/bout++|" /builddir/build/BUILDROOT/bout++-4.3.1-5.fc33.riscv64/usr/include/openmpi-riscv64/bout++//make.config sed -i "s|^BOUT_LIB_PATH=.*|BOUT_LIB_PATH=/usr/lib64/openmpi/lib|" /builddir/build/BUILDROOT/bout++-4.3.1-5.fc33.riscv64/usr/include/openmpi-riscv64/bout++//make.config sed -i "s|^BOUT_CONFIG_FILE=.*|BOUT_CONFIG_FILE=/usr/include/openmpi-riscv64/bout++/make.config|" /builddir/build/BUILDROOT/bout++-4.3.1-5.fc33.riscv64/usr/include/openmpi-riscv64/bout++//make.config sed -i '26 i RELEASED = yes' /builddir/build/BUILDROOT/bout++-4.3.1-5.fc33.riscv64/usr/include/openmpi-riscv64/bout++//make.config + sed -i '26 i RELEASED = 4.3.1-5.fc33' /builddir/build/BUILDROOT/bout++-4.3.1-5.fc33.riscv64//usr/include/openmpi-riscv64/bout++/make.config + rm -rf /builddir/build/BUILDROOT/bout++-4.3.1-5.fc33.riscv64/usr/share/bout++ + rm -f /builddir/build/BUILDROOT/bout++-4.3.1-5.fc33.riscv64//usr/lib64/openmpi/lib/libbout++.a /builddir/build/BUILDROOT/bout++-4.3.1-5.fc33.riscv64//usr/lib64/openmpi/lib/libpvode.a /builddir/build/BUILDROOT/bout++-4.3.1-5.fc33.riscv64//usr/lib64/openmpi/lib/libpvpre.a + install lib/libbout++.so.4.3.1 lib/libpvode.so.1.0.0 lib/libpvpre.so.1.0.0 /builddir/build/BUILDROOT/bout++-4.3.1-5.fc33.riscv64//usr/lib64/openmpi/lib/ + pushd /builddir/build/BUILDROOT/bout++-4.3.1-5.fc33.riscv64//usr/lib64/openmpi/lib/ ~/build/BUILDROOT/bout++-4.3.1-5.fc33.riscv64/usr/lib64/openmpi/lib ~/build/BUILD/BOUT++-v4.3.1/build_openmpi ~/build/BUILD/BOUT++-v4.3.1 + for f in *.so.* + ln -s libbout++.so.4.3.1 libbout++.so + for f in *.so.* + ln -s libpvode.so.1.0.0 libpvode.so + for f in *.so.* + ln -s libpvpre.so.1.0.0 libpvpre.so + popd ~/build/BUILD/BOUT++-v4.3.1/build_openmpi ~/build/BUILD/BOUT++-v4.3.1 ~/build/BUILD/BOUT++-v4.3.1 + popd + '[' openmpi = mpich ']' + . /etc/profile.d/modules.sh ++ '[' -n /bin/sh ']' ++ shell=sh ++ '[' -f /usr/share/Modules/init/sh ']' ++ . /usr/share/Modules/init/sh +++ unset _mlshdbg +++ '[' 0 = 1 ']' +++ export 'MODULES_RUN_QUARANTINE=LD_LIBRARY_PATH LD_PRELOAD' +++ MODULES_RUN_QUARANTINE='LD_LIBRARY_PATH LD_PRELOAD' +++ unset _mlre _mlIFS +++ '[' -n x ']' +++ _mlIFS=' ' +++ IFS=' ' +++ for _mlv in ${MODULES_RUN_QUARANTINE:-} +++ '[' LD_LIBRARY_PATH = LD_LIBRARY_PATH -a LD_LIBRARY_PATH = LD_LIBRARY_PATH ']' ++++ eval 'echo ${LD_LIBRARY_PATH+x}' +++++ echo x +++ '[' -n x ']' ++++ eval 'echo ${LD_LIBRARY_PATH}' +++++ echo /usr/lib64/openmpi/lib +++ _mlre='LD_LIBRARY_PATH_modquar='\''/usr/lib64/openmpi/lib'\'' ' +++ _mlrv=MODULES_RUNENV_LD_LIBRARY_PATH ++++ eval 'echo ${MODULES_RUNENV_LD_LIBRARY_PATH:-}' +++++ echo +++ _mlre='LD_LIBRARY_PATH_modquar='\''/usr/lib64/openmpi/lib'\'' LD_LIBRARY_PATH='\'''\'' ' +++ for _mlv in ${MODULES_RUN_QUARANTINE:-} +++ '[' LD_PRELOAD = LD_PRELOAD -a LD_PRELOAD = LD_PRELOAD ']' ++++ eval 'echo ${LD_PRELOAD+x}' +++++ echo +++ '[' -n '' ']' +++ _mlrv=MODULES_RUNENV_LD_PRELOAD ++++ eval 'echo ${MODULES_RUNENV_LD_PRELOAD:-}' +++++ echo +++ _mlre='LD_LIBRARY_PATH_modquar='\''/usr/lib64/openmpi/lib'\'' LD_LIBRARY_PATH='\'''\'' LD_PRELOAD='\'''\'' ' +++ '[' -n 'LD_LIBRARY_PATH_modquar='\''/usr/lib64/openmpi/lib'\'' LD_LIBRARY_PATH='\'''\'' LD_PRELOAD='\'''\'' ' ']' +++ _mlre='eval LD_LIBRARY_PATH_modquar='\''/usr/lib64/openmpi/lib'\'' LD_LIBRARY_PATH='\'''\'' LD_PRELOAD='\'''\'' ' ++++ eval 'LD_LIBRARY_PATH_modquar='\''/usr/lib64/openmpi/lib'\''' 'LD_LIBRARY_PATH='\'''\''' 'LD_PRELOAD='\'''\''' /usr/bin/tclsh /usr/share/Modules/libexec/modulecmd.tcl sh autoinit +++++ LD_LIBRARY_PATH_modquar=/usr/lib64/openmpi/lib +++++ LD_LIBRARY_PATH= +++++ LD_PRELOAD= +++++ /usr/bin/tclsh /usr/share/Modules/libexec/modulecmd.tcl sh autoinit +++ _mlcode='module() { unset _mlshdbg; if [ "${MODULES_SILENT_SHELL_DEBUG:-0}" = '\''1'\'' ]; then case "$-" in *v*x*) set +vx; _mlshdbg='\''vx'\'' ;; *v*) set +v; _mlshdbg='\''v'\'' ;; *x*) set +x; _mlshdbg='\''x'\'' ;; *) _mlshdbg='\'''\'' ;; esac; fi; unset _mlre _mlIFS; if [ -n "${IFS+x}" ]; then _mlIFS=$IFS; fi; IFS='\'' '\''; for _mlv in ${MODULES_RUN_QUARANTINE:-}; do if [ "${_mlv}" = "${_mlv##*[!A-Za-z0-9_]}" -a "${_mlv}" = "${_mlv#[0-9]}" ]; then if [ -n "`eval '\''echo ${'\''$_mlv'\''+x}'\''`" ]; then _mlre="${_mlre:-}${_mlv}_modquar='\''`eval '\''echo ${'\''$_mlv'\''}'\''`'\'' "; fi; _mlrv="MODULES_RUNENV_${_mlv}"; _mlre="${_mlre:-}${_mlv}='\''`eval '\''echo ${'\''$_mlrv'\'':-}'\''`'\'' "; fi; done; if [ -n "${_mlre:-}" ]; then eval `eval ${_mlre} /usr/bin/tclsh /usr/share/Modules/libexec/modulecmd.tcl sh '\''"$@"'\''`; else eval `/usr/bin/tclsh /usr/share/Modules/libexec/modulecmd.tcl sh "$@"`; fi; _mlstatus=$?; if [ -n "${_mlIFS+x}" ]; then IFS=$_mlIFS; else unset IFS; fi; unset _mlre _mlv _mlrv _mlIFS; if [ -n "${_mlshdbg:-}" ]; then set -$_mlshdbg; fi; unset _mlshdbg; return $_mlstatus; }; ml() { module ml "$@"; }; MODULES_CMD=/usr/share/Modules/libexec/modulecmd.tcl; export MODULES_CMD; MODULESHOME=/usr/share/Modules; export MODULESHOME; test 0;' +++ _mlret=0 +++ '[' -n x ']' +++ IFS=' ' +++ unset _mlIFS +++ unset _mlre _mlv _mlrv +++ '[' 0 -eq 0 ']' +++ eval 'module() { unset _mlshdbg; if [ "${MODULES_SILENT_SHELL_DEBUG:-0}" = '\''1'\'' ]; then case "$-" in *v*x*) set +vx; _mlshdbg='\''vx'\'' ;; *v*) set +v; _mlshdbg='\''v'\'' ;; *x*) set +x; _mlshdbg='\''x'\'' ;; *) _mlshdbg='\'''\'' ;; esac; fi; unset _mlre _mlIFS; if [ -n "${IFS+x}" ]; then _mlIFS=$IFS; fi; IFS='\'' '\''; for _mlv in ${MODULES_RUN_QUARANTINE:-}; do if [ "${_mlv}" = "${_mlv##*[!A-Za-z0-9_]}" -a "${_mlv}" = "${_mlv#[0-9]}" ]; then if [ -n "`eval '\''echo ${'\''$_mlv'\''+x}'\''`" ]; then _mlre="${_mlre:-}${_mlv}_modquar='\''`eval '\''echo ${'\''$_mlv'\''}'\''`'\'' "; fi; _mlrv="MODULES_RUNENV_${_mlv}"; _mlre="${_mlre:-}${_mlv}='\''`eval '\''echo ${'\''$_mlrv'\'':-}'\''`'\'' "; fi; done; if [ -n "${_mlre:-}" ]; then eval `eval ${_mlre} /usr/bin/tclsh /usr/share/Modules/libexec/modulecmd.tcl sh '\''"$@"'\''`; else eval `/usr/bin/tclsh /usr/share/Modules/libexec/modulecmd.tcl sh "$@"`; fi; _mlstatus=$?; if [ -n "${_mlIFS+x}" ]; then IFS=$_mlIFS; else unset IFS; fi; unset _mlre _mlv _mlrv _mlIFS; if [ -n "${_mlshdbg:-}" ]; then set -$_mlshdbg; fi; unset _mlshdbg; return $_mlstatus; }; ml() { module ml "$@"; }; MODULES_CMD=/usr/share/Modules/libexec/modulecmd.tcl; export MODULES_CMD; MODULESHOME=/usr/share/Modules; export MODULESHOME; test 0;' ++++ MODULES_CMD=/usr/share/Modules/libexec/modulecmd.tcl ++++ export MODULES_CMD ++++ MODULESHOME=/usr/share/Modules ++++ export MODULESHOME ++++ test 0 +++ '[' 0 = 1 ']' +++ '[' /bin/sh '!=' '' ']' +++ '[' -t 2 ']' +++ export -f module ++++ type -t ml +++ '[' function = function ']' +++ export -f ml +++ '[' /bin/sh '!=' '' ']' +++ export -f switchml +++ case ":$PATH:" in +++ '[' '!' -n x ']' +++ case ":`manpath 2>/dev/null`:" in ++++ manpath +++ unset _mlcode _mlret +++ '[' -n '' ']' + module unload mpi/openmpi-riscv64 + unset _mlshdbg + '[' 0 = 1 ']' + unset _mlre _mlIFS + '[' -n x ']' + _mlIFS=' ' + IFS=' ' + for _mlv in ${MODULES_RUN_QUARANTINE:-} + '[' LD_LIBRARY_PATH = LD_LIBRARY_PATH -a LD_LIBRARY_PATH = LD_LIBRARY_PATH ']' ++ eval 'echo ${LD_LIBRARY_PATH+x}' +++ echo x + '[' -n x ']' ++ eval 'echo ${LD_LIBRARY_PATH}' +++ echo /usr/lib64/openmpi/lib + _mlre='LD_LIBRARY_PATH_modquar='\''/usr/lib64/openmpi/lib'\'' ' + _mlrv=MODULES_RUNENV_LD_LIBRARY_PATH ++ eval 'echo ${MODULES_RUNENV_LD_LIBRARY_PATH:-}' +++ echo + _mlre='LD_LIBRARY_PATH_modquar='\''/usr/lib64/openmpi/lib'\'' LD_LIBRARY_PATH='\'''\'' ' + for _mlv in ${MODULES_RUN_QUARANTINE:-} + '[' LD_PRELOAD = LD_PRELOAD -a LD_PRELOAD = LD_PRELOAD ']' ++ eval 'echo ${LD_PRELOAD+x}' +++ echo + '[' -n '' ']' + _mlrv=MODULES_RUNENV_LD_PRELOAD ++ eval 'echo ${MODULES_RUNENV_LD_PRELOAD:-}' +++ echo + _mlre='LD_LIBRARY_PATH_modquar='\''/usr/lib64/openmpi/lib'\'' LD_LIBRARY_PATH='\'''\'' LD_PRELOAD='\'''\'' ' + '[' -n 'LD_LIBRARY_PATH_modquar='\''/usr/lib64/openmpi/lib'\'' LD_LIBRARY_PATH='\'''\'' LD_PRELOAD='\'''\'' ' ']' ++ eval 'LD_LIBRARY_PATH_modquar='\''/usr/lib64/openmpi/lib'\''' 'LD_LIBRARY_PATH='\'''\''' 'LD_PRELOAD='\'''\''' /usr/bin/tclsh /usr/share/Modules/libexec/modulecmd.tcl sh '"$@"' +++ LD_LIBRARY_PATH_modquar=/usr/lib64/openmpi/lib +++ LD_LIBRARY_PATH= +++ LD_PRELOAD= +++ /usr/bin/tclsh /usr/share/Modules/libexec/modulecmd.tcl sh unload mpi/openmpi-riscv64 + eval unset 'MPI_COMPILER; unset' 'LD_LIBRARY_PATH; unset' 'MPI_MAN; MANPATH=;' export 'MANPATH; unset' 'MPI_INCLUDE; unset' '_LMFILES_; unset' 'LOADEDMODULES; unset' 'MODULES_LMCONFLICT; PKG_CONFIG_PATH=:/usr/lib64/pkgconfig:/usr/share/pkgconfig;' export 'PKG_CONFIG_PATH; MANPATH_modshare=:1;' export 'MANPATH_modshare; unset' 'MPI_PYTHON3_SITEARCH; unset' 'MODULES_LMCONFLICT_modshare; PKG_CONFIG_PATH_modshare=:1:/usr/lib64/pkgconfig:1:/usr/share/pkgconfig:1;' export 'PKG_CONFIG_PATH_modshare; unset' 'MPI_HOME; unset' 'MPI_FORTRAN_MOD_DIR; unset' 'MPI_SUFFIX; unset' 'LD_LIBRARY_PATH_modshare; unset' 'MPI_SYSCONFIG; unset' '_LMFILES__modshare; unset' 'LOADEDMODULES_modshare; unset' 'MPI_LIB; PATH=/usr/share/Modules/bin:/usr/bin:/bin:/usr/sbin:/sbin:/usr/local/sbin;' export 'PATH; unset' 'MPI_BIN; PATH_modshare=/bin:1:/usr/sbin:1:/usr/bin:1:/usr/local/sbin:1:/usr/share/Modules/bin:1:/sbin:1;' export 'PATH_modshare; test' '0;' ++ unset MPI_COMPILER ++ unset LD_LIBRARY_PATH ++ unset MPI_MAN ++ MANPATH= ++ export MANPATH ++ unset MPI_INCLUDE ++ unset _LMFILES_ ++ unset LOADEDMODULES ++ unset MODULES_LMCONFLICT ++ PKG_CONFIG_PATH=:/usr/lib64/pkgconfig:/usr/share/pkgconfig ++ export PKG_CONFIG_PATH ++ MANPATH_modshare=:1 ++ export MANPATH_modshare ++ unset MPI_PYTHON3_SITEARCH ++ unset MODULES_LMCONFLICT_modshare ++ PKG_CONFIG_PATH_modshare=:1:/usr/lib64/pkgconfig:1:/usr/share/pkgconfig:1 ++ export PKG_CONFIG_PATH_modshare ++ unset MPI_HOME ++ unset MPI_FORTRAN_MOD_DIR ++ unset MPI_SUFFIX ++ unset LD_LIBRARY_PATH_modshare ++ unset MPI_SYSCONFIG ++ unset _LMFILES__modshare ++ unset LOADEDMODULES_modshare ++ unset MPI_LIB ++ PATH=/usr/share/Modules/bin:/usr/bin:/bin:/usr/sbin:/sbin:/usr/local/sbin ++ export PATH ++ unset MPI_BIN ++ PATH_modshare=/bin:1:/usr/sbin:1:/usr/bin:1:/usr/local/sbin:1:/usr/share/Modules/bin:1:/sbin:1 ++ export PATH_modshare ++ test 0 + _mlstatus=0 + '[' -n x ']' + IFS=' ' + unset _mlre _mlv _mlrv _mlIFS + '[' -n '' ']' + unset _mlshdbg + return 0 ~/build/BUILD/BOUT++-v4.3.1/tools/pylib ~/build/BUILD/BOUT++-v4.3.1 + pushd tools/pylib + for d in boutdata bout_runners boututils post_bout zoidberg + mkdir -p /builddir/build/BUILDROOT/bout++-4.3.1-5.fc33.riscv64//usr/lib/python3.9/site-packages/boutdata + cp boutdata/__init__.py boutdata/cbdtoeqdsk.py boutdata/collect.py boutdata/data.py boutdata/gen_surface.py boutdata/griddata.py boutdata/input.py boutdata/mayavi2.py boutdata/mms.py boutdata/pol_slice.py boutdata/processor_rearrange.py boutdata/restart.py boutdata/settings.py boutdata/shiftz.py boutdata/squashoutput.py /builddir/build/BUILDROOT/bout++-4.3.1-5.fc33.riscv64//usr/lib/python3.9/site-packages/boutdata/ + for d in boutdata bout_runners boututils post_bout zoidberg + mkdir -p /builddir/build/BUILDROOT/bout++-4.3.1-5.fc33.riscv64//usr/lib/python3.9/site-packages/bout_runners + cp bout_runners/__init__.py bout_runners/bout_runners.py /builddir/build/BUILDROOT/bout++-4.3.1-5.fc33.riscv64//usr/lib/python3.9/site-packages/bout_runners/ + for d in boutdata bout_runners boututils post_bout zoidberg + mkdir -p /builddir/build/BUILDROOT/bout++-4.3.1-5.fc33.riscv64//usr/lib/python3.9/site-packages/boututils + cp boututils/View3D.py boututils/__init__.py boututils/analyse_equil_2.py boututils/anim.py boututils/ask.py boututils/boutarray.py boututils/boutgrid.py boututils/boutwarnings.py boututils/calculus.py boututils/check_scaling.py boututils/closest_line.py boututils/contour.py boututils/crosslines.py boututils/datafile.py boututils/efit_analyzer.py boututils/fft_deriv.py boututils/fft_integrate.py boututils/file_import.py boututils/geqdsk.py boututils/idl_tabulate.py boututils/int_func.py boututils/linear_regression.py boututils/local_min_max.py boututils/mode_structure.py boututils/moment_xyzt.py boututils/options.py boututils/plotdata.py boututils/plotpolslice.py boututils/radial_grid.py boututils/read_geqdsk.py boututils/run_wrapper.py boututils/showdata.py boututils/spectrogram.py boututils/surface_average.py boututils/volume_integral.py boututils/watch.py /builddir/build/BUILDROOT/bout++-4.3.1-5.fc33.riscv64//usr/lib/python3.9/site-packages/boututils/ + for d in boutdata bout_runners boututils post_bout zoidberg + mkdir -p /builddir/build/BUILDROOT/bout++-4.3.1-5.fc33.riscv64//usr/lib/python3.9/site-packages/post_bout + cp post_bout/ListDict.py post_bout/__init__.py post_bout/basic_info.py post_bout/grate2.py post_bout/pb_corral.py post_bout/pb_draw.py post_bout/pb_nonlinear.py post_bout/pb_present.py post_bout/read_cxx.py post_bout/read_inp.py post_bout/rms.py /builddir/build/BUILDROOT/bout++-4.3.1-5.fc33.riscv64//usr/lib/python3.9/site-packages/post_bout/ + for d in boutdata bout_runners boututils post_bout zoidberg + mkdir -p /builddir/build/BUILDROOT/bout++-4.3.1-5.fc33.riscv64//usr/lib/python3.9/site-packages/zoidberg + cp zoidberg/__init__.py zoidberg/boundary.py zoidberg/field.py zoidberg/fieldtracer.py zoidberg/grid.py zoidberg/plot.py zoidberg/poloidal_grid.py zoidberg/progress.py zoidberg/rzline.py zoidberg/test_field.py zoidberg/test_fieldtracer.py zoidberg/test_grid.py zoidberg/test_poloidal_grid.py zoidberg/test_rzline.py zoidberg/test_zoidberg.py zoidberg/zoidberg.py /builddir/build/BUILDROOT/bout++-4.3.1-5.fc33.riscv64//usr/lib/python3.9/site-packages/zoidberg/ + popd ~/build/BUILD/BOUT++-v4.3.1 ++ head -n1 ++ ls build_mpich/manual build_openmpi/manual -d + mandir=build_mpich/manual + mkdir -p /builddir/build/BUILDROOT/bout++-4.3.1-5.fc33.riscv64//usr/share/doc/bout++/ + rm -rf build_mpich/manual/html/.buildinfo + rm -rf build_mpich/manual/html/.doctrees + rm -rf build_mpich/manual/html/_sources + cp -r build_mpich/manual/html /builddir/build/BUILDROOT/bout++-4.3.1-5.fc33.riscv64//usr/share/doc/bout++/ + for mpi in mpich openmpi + mkdir -p /builddir/build/BUILDROOT/bout++-4.3.1-5.fc33.riscv64//usr/lib64/python3.9/site-packages/mpich/ + install build_mpich/tools/pylib/boutcore.cpython-39-riscv64-linux-gnu.so /builddir/build/BUILDROOT/bout++-4.3.1-5.fc33.riscv64//usr/lib64/python3.9/site-packages/mpich/ + for mpi in mpich openmpi + mkdir -p /builddir/build/BUILDROOT/bout++-4.3.1-5.fc33.riscv64//usr/lib64/python3.9/site-packages/openmpi/ + install build_openmpi/tools/pylib/boutcore.cpython-39-riscv64-linux-gnu.so /builddir/build/BUILDROOT/bout++-4.3.1-5.fc33.riscv64//usr/lib64/python3.9/site-packages/openmpi/ + /usr/lib/rpm/find-lang.sh /builddir/build/BUILDROOT/bout++-4.3.1-5.fc33.riscv64 libbout + /usr/lib/rpm/find-debuginfo.sh -j4 --strict-build-id -m -i --build-id-seed 4.3.1-5.fc33 --unique-debug-suffix -4.3.1-5.fc33.riscv64 --unique-debug-src-base bout++-4.3.1-5.fc33.riscv64 --run-dwz --dwz-low-mem-die-limit 10000000 --dwz-max-die-limit 50000000 -S debugsourcefiles.list /builddir/build/BUILD/BOUT++-v4.3.1 explicitly decompress any DWARF compressed ELF sections in /builddir/build/BUILDROOT/bout++-4.3.1-5.fc33.riscv64/usr/lib64/mpich/lib/libpvode.so.1.0.0 explicitly decompress any DWARF compressed ELF sections in /builddir/build/BUILDROOT/bout++-4.3.1-5.fc33.riscv64/usr/lib64/mpich/lib/libpvpre.so.1.0.0 explicitly decompress any DWARF compressed ELF sections in /builddir/build/BUILDROOT/bout++-4.3.1-5.fc33.riscv64/usr/lib64/mpich/lib/libbout++.so.4.3.1 explicitly decompress any DWARF compressed ELF sections in /builddir/build/BUILDROOT/bout++-4.3.1-5.fc33.riscv64/usr/lib64/openmpi/lib/libbout++.so.4.3.1 extracting debug info from /builddir/build/BUILDROOT/bout++-4.3.1-5.fc33.riscv64/usr/lib64/mpich/lib/libpvpre.so.1.0.0 extracting debug info from /builddir/build/BUILDROOT/bout++-4.3.1-5.fc33.riscv64/usr/lib64/mpich/lib/libpvode.so.1.0.0 extracting debug info from /builddir/build/BUILDROOT/bout++-4.3.1-5.fc33.riscv64/usr/lib64/mpich/lib/libbout++.so.4.3.1 extracting debug info from /builddir/build/BUILDROOT/bout++-4.3.1-5.fc33.riscv64/usr/lib64/openmpi/lib/libbout++.so.4.3.1 explicitly decompress any DWARF compressed ELF sections in /builddir/build/BUILDROOT/bout++-4.3.1-5.fc33.riscv64/usr/lib64/openmpi/lib/libpvode.so.1.0.0 extracting debug info from /builddir/build/BUILDROOT/bout++-4.3.1-5.fc33.riscv64/usr/lib64/openmpi/lib/libpvode.so.1.0.0 explicitly decompress any DWARF compressed ELF sections in /builddir/build/BUILDROOT/bout++-4.3.1-5.fc33.riscv64/usr/lib64/openmpi/lib/libpvpre.so.1.0.0 extracting debug info from /builddir/build/BUILDROOT/bout++-4.3.1-5.fc33.riscv64/usr/lib64/openmpi/lib/libpvpre.so.1.0.0 explicitly decompress any DWARF compressed ELF sections in /builddir/build/BUILDROOT/bout++-4.3.1-5.fc33.riscv64/usr/lib64/python3.9/site-packages/mpich/boutcore.cpython-39-riscv64-linux-gnu.so extracting debug info from /builddir/build/BUILDROOT/bout++-4.3.1-5.fc33.riscv64/usr/lib64/python3.9/site-packages/mpich/boutcore.cpython-39-riscv64-linux-gnu.so explicitly decompress any DWARF compressed ELF sections in /builddir/build/BUILDROOT/bout++-4.3.1-5.fc33.riscv64/usr/lib64/python3.9/site-packages/openmpi/boutcore.cpython-39-riscv64-linux-gnu.so extracting debug info from /builddir/build/BUILDROOT/bout++-4.3.1-5.fc33.riscv64/usr/lib64/python3.9/site-packages/openmpi/boutcore.cpython-39-riscv64-linux-gnu.so original 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Cannot stat: No such file or directory cpio: build_openmpi/tools/pylib/_boutcore_build/solverfactory.cxx: Cannot stat: No such file or directory cpio: build_openmpi/tools/pylib/_boutcore_build/spgmr.cpp: Cannot stat: No such file or directory cpio: build_openmpi/tools/pylib/_boutcore_build/split-rk.cxx: Cannot stat: No such file or directory cpio: build_openmpi/tools/pylib/_boutcore_build/split-rk.hxx: Cannot stat: No such file or directory cpio: build_openmpi/tools/pylib/_boutcore_build/spt.cxx: Cannot stat: No such file or directory cpio: build_openmpi/tools/pylib/_boutcore_build/spt.hxx: Cannot stat: No such file or directory cpio: build_openmpi/tools/pylib/_boutcore_build/timer.cxx: Cannot stat: No such file or directory cpio: build_openmpi/tools/pylib/_boutcore_build/type_name.cxx: Cannot stat: No such file or directory cpio: build_openmpi/tools/pylib/_boutcore_build/utils.cxx: Cannot stat: No such file or directory cpio: build_openmpi/tools/pylib/_boutcore_build/vecops.cxx: Cannot stat: No such file or directory cpio: build_openmpi/tools/pylib/_boutcore_build/vector2d.cxx: Cannot stat: No such file or directory cpio: build_openmpi/tools/pylib/_boutcore_build/vector3d.cxx: Cannot stat: No such file or directory cpio: build_openmpi/tools/pylib/include/bout.hxx: Cannot stat: No such file or directory cpio: build_openmpi/tools/pylib/include/bout/array.hxx: Cannot stat: No such file or directory cpio: build_openmpi/tools/pylib/include/bout/solver.hxx: Cannot stat: No such file or directory cpio: build_openmpi/tools/pylib/include/bout/sys/timer.hxx: Cannot stat: No such file or directory cpio: build_openmpi/tools/pylib/include/msg_stack.hxx: Cannot stat: No such file or directory cpio: build_openmpi/tools/pylib/include/options.hxx: Cannot stat: No such file or directory cpio: build_openmpi/tools/pylib/include/optionsreader.hxx: Cannot stat: No such file or directory cpio: build_openmpi/tools/pylib/include/output.hxx: Cannot stat: No such file or directory cpio: build_openmpi/type_name.cxx: Cannot stat: No such file or directory cpio: build_openmpi/utils.cxx: Cannot stat: No such file or directory cpio: build_openmpi/vecops.cxx: Cannot stat: No such file or directory cpio: build_openmpi/vector2d.cxx: Cannot stat: No such file or directory cpio: build_openmpi/vector3d.cxx: Cannot stat: No such file or directory 16425 blocks + /usr/lib/rpm/check-buildroot + /usr/lib/rpm/redhat/brp-ldconfig + /usr/lib/rpm/brp-compress + /usr/lib/rpm/redhat/brp-strip-lto /usr/bin/strip + /usr/lib/rpm/brp-strip-static-archive /usr/bin/strip + /usr/lib/rpm/redhat/brp-python-bytecompile '' 1 0 Bytecompiling .py files below /builddir/build/BUILDROOT/bout++-4.3.1-5.fc33.riscv64/usr/lib/debug/usr/lib64/python3.9 using /usr/bin/python3.9 Bytecompiling .py files below /builddir/build/BUILDROOT/bout++-4.3.1-5.fc33.riscv64/usr/lib/python3.9 using /usr/bin/python3.9 /usr/lib/python3.9/site-packages/boutdata/data.py:191: SyntaxWarning: "is" with a literal. Did you mean "=="? /usr/lib/python3.9/site-packages/boutdata/data.py:206: SyntaxWarning: "is not" with a literal. Did you mean "!="? /usr/lib/python3.9/site-packages/boutdata/data.py:217: SyntaxWarning: "is not" with a literal. Did you mean "!="? /usr/lib/python3.9/site-packages/boututils/options.py:94: SyntaxWarning: "is not" with a literal. Did you mean "!="? /usr/lib/python3.9/site-packages/boutdata/data.py:191: SyntaxWarning: "is" with a literal. Did you mean "=="? /usr/lib/python3.9/site-packages/boutdata/data.py:206: SyntaxWarning: "is not" with a literal. Did you mean "!="? /usr/lib/python3.9/site-packages/boutdata/data.py:217: SyntaxWarning: "is not" with a literal. Did you mean "!="? /usr/lib/python3.9/site-packages/boututils/options.py:94: SyntaxWarning: "is not" with a literal. Did you mean "!="? Bytecompiling .py files below /builddir/build/BUILDROOT/bout++-4.3.1-5.fc33.riscv64/usr/lib64/python3.9 using /usr/bin/python3.9 + /usr/lib/rpm/brp-python-hardlink + /usr/lib/rpm/redhat/brp-mangle-shebangs *** WARNING: ./usr/lib/python3.9/site-packages/boututils/anim.py is executable but has no shebang, removing executable bit *** WARNING: ./usr/lib/python3.9/site-packages/boututils/boutgrid.py is executable but has no shebang, removing executable bit *** WARNING: ./usr/lib/python3.9/site-packages/boututils/geqdsk.py is executable but has no shebang, removing executable bit *** WARNING: ./usr/lib/python3.9/site-packages/bout_runners/bout_runners.py is executable but has no shebang, removing executable bit mangling shebang in /usr/lib64/openmpi/bin/bout-config from /bin/sh to #!/usr/bin/sh mangling shebang in /usr/lib64/openmpi/bin/bout-log-color from /bin/sh to #!/usr/bin/sh mangling shebang in /usr/lib64/mpich/bin/bout-config from /bin/sh to #!/usr/bin/sh mangling shebang in /usr/lib64/mpich/bin/bout-log-color from /bin/sh to #!/usr/bin/sh Executing(%check): /bin/sh -e /var/tmp/rpm-tmp.rhYhCU + umask 022 + cd /builddir/build/BUILD + cd BOUT++-v4.3.1 + for mpi in mpich openmpi + '[' mpich = mpich ']' + . /etc/profile.d/modules.sh ++ '[' -n /bin/sh ']' ++ shell=sh ++ '[' -f /usr/share/Modules/init/sh ']' ++ . /usr/share/Modules/init/sh +++ unset _mlshdbg +++ '[' 0 = 1 ']' +++ export 'MODULES_RUN_QUARANTINE=LD_LIBRARY_PATH LD_PRELOAD' +++ MODULES_RUN_QUARANTINE='LD_LIBRARY_PATH LD_PRELOAD' +++ unset _mlre _mlIFS +++ '[' -n x ']' +++ _mlIFS=' ' +++ IFS=' ' +++ for _mlv in ${MODULES_RUN_QUARANTINE:-} +++ '[' LD_LIBRARY_PATH = LD_LIBRARY_PATH -a LD_LIBRARY_PATH = LD_LIBRARY_PATH ']' ++++ eval 'echo ${LD_LIBRARY_PATH+x}' +++++ echo +++ '[' -n '' ']' +++ _mlrv=MODULES_RUNENV_LD_LIBRARY_PATH ++++ eval 'echo ${MODULES_RUNENV_LD_LIBRARY_PATH:-}' +++++ echo +++ _mlre='LD_LIBRARY_PATH='\'''\'' ' +++ for _mlv in ${MODULES_RUN_QUARANTINE:-} +++ '[' LD_PRELOAD = LD_PRELOAD -a LD_PRELOAD = LD_PRELOAD ']' ++++ eval 'echo ${LD_PRELOAD+x}' +++++ echo +++ '[' -n '' ']' +++ _mlrv=MODULES_RUNENV_LD_PRELOAD ++++ eval 'echo ${MODULES_RUNENV_LD_PRELOAD:-}' +++++ echo +++ _mlre='LD_LIBRARY_PATH='\'''\'' LD_PRELOAD='\'''\'' ' +++ '[' -n 'LD_LIBRARY_PATH='\'''\'' LD_PRELOAD='\'''\'' ' ']' +++ _mlre='eval LD_LIBRARY_PATH='\'''\'' LD_PRELOAD='\'''\'' ' ++++ eval 'LD_LIBRARY_PATH='\'''\''' 'LD_PRELOAD='\'''\''' /usr/bin/tclsh /usr/share/Modules/libexec/modulecmd.tcl sh autoinit +++++ LD_LIBRARY_PATH= +++++ LD_PRELOAD= +++++ /usr/bin/tclsh /usr/share/Modules/libexec/modulecmd.tcl sh autoinit +++ _mlcode='module() { unset _mlshdbg; if [ "${MODULES_SILENT_SHELL_DEBUG:-0}" = '\''1'\'' ]; then case "$-" in *v*x*) set +vx; _mlshdbg='\''vx'\'' ;; *v*) set +v; _mlshdbg='\''v'\'' ;; *x*) set +x; _mlshdbg='\''x'\'' ;; *) _mlshdbg='\'''\'' ;; esac; fi; unset _mlre _mlIFS; if [ -n "${IFS+x}" ]; then _mlIFS=$IFS; fi; IFS='\'' '\''; for _mlv in ${MODULES_RUN_QUARANTINE:-}; do if [ "${_mlv}" = "${_mlv##*[!A-Za-z0-9_]}" -a "${_mlv}" = "${_mlv#[0-9]}" ]; then if [ -n "`eval '\''echo ${'\''$_mlv'\''+x}'\''`" ]; then _mlre="${_mlre:-}${_mlv}_modquar='\''`eval '\''echo ${'\''$_mlv'\''}'\''`'\'' "; fi; _mlrv="MODULES_RUNENV_${_mlv}"; _mlre="${_mlre:-}${_mlv}='\''`eval '\''echo ${'\''$_mlrv'\'':-}'\''`'\'' "; fi; done; if [ -n "${_mlre:-}" ]; then eval `eval ${_mlre} /usr/bin/tclsh /usr/share/Modules/libexec/modulecmd.tcl sh '\''"$@"'\''`; else eval `/usr/bin/tclsh /usr/share/Modules/libexec/modulecmd.tcl sh "$@"`; fi; _mlstatus=$?; if [ -n "${_mlIFS+x}" ]; then IFS=$_mlIFS; else unset IFS; fi; unset _mlre _mlv _mlrv _mlIFS; if [ -n "${_mlshdbg:-}" ]; then set -$_mlshdbg; fi; unset _mlshdbg; return $_mlstatus; }; ml() { module ml "$@"; }; MODULES_CMD=/usr/share/Modules/libexec/modulecmd.tcl; export MODULES_CMD; MODULESHOME=/usr/share/Modules; export MODULESHOME; test 0;' +++ _mlret=0 +++ '[' -n x ']' +++ IFS=' ' +++ unset _mlIFS +++ unset _mlre _mlv _mlrv +++ '[' 0 -eq 0 ']' +++ eval 'module() { unset _mlshdbg; if [ "${MODULES_SILENT_SHELL_DEBUG:-0}" = '\''1'\'' ]; then case "$-" in *v*x*) set +vx; _mlshdbg='\''vx'\'' ;; *v*) set +v; _mlshdbg='\''v'\'' ;; *x*) set +x; _mlshdbg='\''x'\'' ;; *) _mlshdbg='\'''\'' ;; esac; fi; unset _mlre _mlIFS; if [ -n "${IFS+x}" ]; then _mlIFS=$IFS; fi; IFS='\'' '\''; for _mlv in ${MODULES_RUN_QUARANTINE:-}; do if [ "${_mlv}" = "${_mlv##*[!A-Za-z0-9_]}" -a "${_mlv}" = "${_mlv#[0-9]}" ]; then if [ -n "`eval '\''echo ${'\''$_mlv'\''+x}'\''`" ]; then _mlre="${_mlre:-}${_mlv}_modquar='\''`eval '\''echo ${'\''$_mlv'\''}'\''`'\'' "; fi; _mlrv="MODULES_RUNENV_${_mlv}"; _mlre="${_mlre:-}${_mlv}='\''`eval '\''echo ${'\''$_mlrv'\'':-}'\''`'\'' "; fi; done; if [ -n "${_mlre:-}" ]; then eval `eval ${_mlre} /usr/bin/tclsh /usr/share/Modules/libexec/modulecmd.tcl sh '\''"$@"'\''`; else eval `/usr/bin/tclsh /usr/share/Modules/libexec/modulecmd.tcl sh "$@"`; fi; _mlstatus=$?; if [ -n "${_mlIFS+x}" ]; then IFS=$_mlIFS; else unset IFS; fi; unset _mlre _mlv _mlrv _mlIFS; if [ -n "${_mlshdbg:-}" ]; then set -$_mlshdbg; fi; unset _mlshdbg; return $_mlstatus; }; ml() { module ml "$@"; }; MODULES_CMD=/usr/share/Modules/libexec/modulecmd.tcl; export MODULES_CMD; MODULESHOME=/usr/share/Modules; export MODULESHOME; test 0;' ++++ MODULES_CMD=/usr/share/Modules/libexec/modulecmd.tcl ++++ export MODULES_CMD ++++ MODULESHOME=/usr/share/Modules ++++ export MODULESHOME ++++ test 0 +++ '[' 0 = 1 ']' +++ '[' /bin/sh '!=' '' ']' +++ '[' -t 2 ']' +++ export -f module ++++ type -t ml +++ '[' function = function ']' +++ export -f ml +++ '[' /bin/sh '!=' '' ']' +++ export -f switchml +++ case ":$PATH:" in +++ '[' '!' -n x ']' +++ case ":`manpath 2>/dev/null`:" in ++++ manpath +++ unset _mlcode _mlret +++ '[' -n '' ']' + module load mpi/mpich-riscv64 + unset _mlshdbg + '[' 0 = 1 ']' + unset _mlre _mlIFS + '[' -n x ']' + _mlIFS=' ' + IFS=' ' + for _mlv in ${MODULES_RUN_QUARANTINE:-} + '[' LD_LIBRARY_PATH = LD_LIBRARY_PATH -a LD_LIBRARY_PATH = LD_LIBRARY_PATH ']' ++ eval 'echo ${LD_LIBRARY_PATH+x}' +++ echo + '[' -n '' ']' + _mlrv=MODULES_RUNENV_LD_LIBRARY_PATH ++ eval 'echo ${MODULES_RUNENV_LD_LIBRARY_PATH:-}' +++ echo + _mlre='LD_LIBRARY_PATH='\'''\'' ' + for _mlv in ${MODULES_RUN_QUARANTINE:-} + '[' LD_PRELOAD = LD_PRELOAD -a LD_PRELOAD = LD_PRELOAD ']' ++ eval 'echo ${LD_PRELOAD+x}' +++ echo + '[' -n '' ']' + _mlrv=MODULES_RUNENV_LD_PRELOAD ++ eval 'echo ${MODULES_RUNENV_LD_PRELOAD:-}' +++ echo + _mlre='LD_LIBRARY_PATH='\'''\'' LD_PRELOAD='\'''\'' ' + '[' -n 'LD_LIBRARY_PATH='\'''\'' LD_PRELOAD='\'''\'' ' ']' ++ eval 'LD_LIBRARY_PATH='\'''\''' 'LD_PRELOAD='\'''\''' /usr/bin/tclsh /usr/share/Modules/libexec/modulecmd.tcl sh '"$@"' +++ LD_LIBRARY_PATH= +++ LD_PRELOAD= +++ /usr/bin/tclsh /usr/share/Modules/libexec/modulecmd.tcl sh load mpi/mpich-riscv64 + eval 'LD_LIBRARY_PATH=/usr/lib64/mpich/lib;' export 'LD_LIBRARY_PATH; MPI_COMPILER=mpich-riscv64;' export 'MPI_COMPILER; MANPATH=/usr/share/man/mpich-riscv64::;' export 'MANPATH; MPI_INCLUDE=/usr/include/mpich-riscv64;' export 'MPI_INCLUDE; MPI_MAN=/usr/share/man/mpich-riscv64;' export 'MPI_MAN; MPI_PYTHON_SITEARCH=%\{python2_sitearch\}/mpich;' export 'MPI_PYTHON_SITEARCH; _LMFILES_=/usr/share/modulefiles/mpi/mpich-riscv64;' export '_LMFILES_; LOADEDMODULES=mpi/mpich-riscv64;' export 'LOADEDMODULES; MODULES_LMCONFLICT=mpi/mpich-riscv64\&mpi;' export 'MODULES_LMCONFLICT; PKG_CONFIG_PATH=/usr/lib64/mpich/lib/pkgconfig::/usr/lib64/pkgconfig:/usr/share/pkgconfig;' export 'PKG_CONFIG_PATH; MANPATH_modshare=/usr/share/man/mpich-riscv64:1::2;' export 'MANPATH_modshare; MPI_PYTHON3_SITEARCH=/usr/lib64/python3.9/site-packages/mpich;' export 'MPI_PYTHON3_SITEARCH; MODULES_LMCONFLICT_modshare=mpi/mpich-riscv64\&mpi:1;' export 'MODULES_LMCONFLICT_modshare; PKG_CONFIG_PATH_modshare=:1:/usr/lib64/pkgconfig:1:/usr/lib64/mpich/lib/pkgconfig:1:/usr/share/pkgconfig:1;' export 'PKG_CONFIG_PATH_modshare; MPI_FORTRAN_MOD_DIR=/usr/lib64/gfortran/modules/mpich;' export 'MPI_FORTRAN_MOD_DIR; MPI_HOME=/usr/lib64/mpich;' export 'MPI_HOME; LD_LIBRARY_PATH_modshare=/usr/lib64/mpich/lib:1;' export 'LD_LIBRARY_PATH_modshare; MPI_SYSCONFIG=/etc/mpich-riscv64;' export 'MPI_SYSCONFIG; MPI_SUFFIX=_mpich;' export 'MPI_SUFFIX; MPI_PYTHON2_SITEARCH=%\{python2_sitearch\}/mpich;' export 'MPI_PYTHON2_SITEARCH; _LMFILES__modshare=/usr/share/modulefiles/mpi/mpich-riscv64:1;' export '_LMFILES__modshare; LOADEDMODULES_modshare=mpi/mpich-riscv64:1;' export 'LOADEDMODULES_modshare; MPI_LIB=/usr/lib64/mpich/lib;' export 'MPI_LIB; PATH=/usr/lib64/mpich/bin:/usr/share/Modules/bin:/usr/bin:/bin:/usr/sbin:/sbin:/usr/local/sbin;' export 'PATH; MPI_BIN=/usr/lib64/mpich/bin;' export 'MPI_BIN; PATH_modshare=/bin:1:/usr/sbin:1:/usr/lib64/mpich/bin:1:/usr/bin:1:/usr/local/sbin:1:/usr/share/Modules/bin:1:/sbin:1;' export 'PATH_modshare; test' '0;' ++ LD_LIBRARY_PATH=/usr/lib64/mpich/lib ++ export LD_LIBRARY_PATH ++ MPI_COMPILER=mpich-riscv64 ++ export MPI_COMPILER ++ MANPATH=/usr/share/man/mpich-riscv64:: ++ export MANPATH ++ MPI_INCLUDE=/usr/include/mpich-riscv64 ++ export MPI_INCLUDE ++ MPI_MAN=/usr/share/man/mpich-riscv64 ++ export MPI_MAN ++ MPI_PYTHON_SITEARCH='%{python2_sitearch}/mpich' ++ export MPI_PYTHON_SITEARCH ++ _LMFILES_=/usr/share/modulefiles/mpi/mpich-riscv64 ++ export _LMFILES_ ++ LOADEDMODULES=mpi/mpich-riscv64 ++ export LOADEDMODULES ++ MODULES_LMCONFLICT='mpi/mpich-riscv64&mpi' ++ export MODULES_LMCONFLICT ++ PKG_CONFIG_PATH=/usr/lib64/mpich/lib/pkgconfig::/usr/lib64/pkgconfig:/usr/share/pkgconfig ++ export PKG_CONFIG_PATH ++ MANPATH_modshare=/usr/share/man/mpich-riscv64:1::2 ++ export MANPATH_modshare ++ MPI_PYTHON3_SITEARCH=/usr/lib64/python3.9/site-packages/mpich ++ export MPI_PYTHON3_SITEARCH ++ MODULES_LMCONFLICT_modshare='mpi/mpich-riscv64&mpi:1' ++ export MODULES_LMCONFLICT_modshare ++ PKG_CONFIG_PATH_modshare=:1:/usr/lib64/pkgconfig:1:/usr/lib64/mpich/lib/pkgconfig:1:/usr/share/pkgconfig:1 ++ export PKG_CONFIG_PATH_modshare ++ MPI_FORTRAN_MOD_DIR=/usr/lib64/gfortran/modules/mpich ++ export MPI_FORTRAN_MOD_DIR ++ MPI_HOME=/usr/lib64/mpich ++ export MPI_HOME ++ LD_LIBRARY_PATH_modshare=/usr/lib64/mpich/lib:1 ++ export LD_LIBRARY_PATH_modshare ++ MPI_SYSCONFIG=/etc/mpich-riscv64 ++ export MPI_SYSCONFIG ++ MPI_SUFFIX=_mpich ++ export MPI_SUFFIX ++ MPI_PYTHON2_SITEARCH='%{python2_sitearch}/mpich' ++ export MPI_PYTHON2_SITEARCH ++ _LMFILES__modshare=/usr/share/modulefiles/mpi/mpich-riscv64:1 ++ export _LMFILES__modshare ++ LOADEDMODULES_modshare=mpi/mpich-riscv64:1 ++ export LOADEDMODULES_modshare ++ MPI_LIB=/usr/lib64/mpich/lib ++ export MPI_LIB ++ PATH=/usr/lib64/mpich/bin:/usr/share/Modules/bin:/usr/bin:/bin:/usr/sbin:/sbin:/usr/local/sbin ~/build/BUILD/BOUT++-v4.3.1/build_mpich ~/build/BUILD/BOUT++-v4.3.1 ++ export PATH ++ MPI_BIN=/usr/lib64/mpich/bin ++ export MPI_BIN ++ PATH_modshare=/bin:1:/usr/sbin:1:/usr/lib64/mpich/bin:1:/usr/bin:1:/usr/local/sbin:1:/usr/share/Modules/bin:1:/sbin:1 ++ export PATH_modshare ++ test 0 + _mlstatus=0 + '[' -n x ']' + IFS=' ' + unset _mlre _mlv _mlrv _mlIFS + '[' -n '' ']' + unset _mlshdbg + return 0 + export 'CFLAGS= -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection' + CFLAGS=' -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection' + export OMPI_MCA_rmaps_base_oversubscribe=yes + OMPI_MCA_rmaps_base_oversubscribe=yes + pushd build_mpich + make -j4 build-check make --no-print-directory -C tests/integrated make --no-print-directory -C tests/MMS Compiling mesh/test_boundary_factory.cxx Compiling mesh/test_interpolation.cxx Compiling wave.cxx Compiling test_stopCheck.cxx Linking test_stopCheck Compiling test_multigrid_laplace.cxx Compiling test_naulin_laplace.cxx Linking wave Compiling wave.cxx Compiling mesh/test_coordinates.cxx Linking test_multigrid_laplace Linking test_naulin_laplace Compiling mesh/parallel/test_shiftedmetric.cxx Linking wave Compiling test_griddata.cxx Compiling diffusion.cxx Linking test_griddata Compiling 2fluid.cxx Compiling mesh/test_mesh.cxx Linking cyto Compiling fci_mms.cxx Compiling 2fluid.cxx Linking 2fluid Linking fci_mms Compiling mesh/test_boutmesh.cxx Compiling mesh/test_paralleltransform.cxx Compiling mesh/data/test_gridfromoptions.cxx Linking 2fluid Compiling test_snb.cxx Compiling test_solver.cxx Compiling test_smooth.cxx Linking test_smooth Linking test_snb Compiling test-twistshift.cxx Compiling solver/test_fakesolver.cxx Linking test_solver Compiling solver/test_solverfactory.cxx Compiling test_fieldfactory.cxx Linking test-twistshift Compiling test-coordinates-initialization.cxx Linking test_fieldfactory Compiling test_delp2.cxx Compiling solver/test_solver.cxx Linking test-coordinates-initialization Compiling test_laplace.cxx Compiling test_extras.cxx test_laplace.cxx: In function 'int main(int, char**)': test_laplace.cxx:23:42: warning: 'const Field3D invert_laplace(const Field3D&, int, const Field2D*, const Field2D*, const Field2D*)' is deprecated [-Wdeprecated-declarations] 23 | Field3D flag0 = invert_laplace(input, 0); | ^ In file included from ../../../include/bout_types.hxx:25, from ../../../include/datafile.hxx:17, from ../../../include/bout.hxx:40, from test_laplace.cxx:6: ../../../include/invert_laplace.hxx:284:26: note: declared here 284 | DEPRECATED(const Field3D invert_laplace(const Field3D &b, int flags, const Field2D *a = nullptr, | ^~~~~~~~~~~~~~ ../../../include/bout/deprecated.hxx:18:55: note: in definition of macro 'DEPRECATED' 18 | #define DEPRECATED(func) __attribute__ ((deprecated)) func | ^~~~ test_laplace.cxx:24:42: warning: 'const Field3D invert_laplace(const Field3D&, int, const Field2D*, const Field2D*, const Field2D*)' is deprecated [-Wdeprecated-declarations] 24 | Field3D flag3 = invert_laplace(input, 3); | ^ In file included from ../../../include/bout_types.hxx:25, from ../../../include/datafile.hxx:17, from ../../../include/bout.hxx:40, from test_laplace.cxx:6: ../../../include/invert_laplace.hxx:284:26: note: declared here 284 | DEPRECATED(const Field3D invert_laplace(const Field3D &b, int flags, const Field2D *a = nullptr, | ^~~~~~~~~~~~~~ ../../../include/bout/deprecated.hxx:18:55: note: in definition of macro 'DEPRECATED' 18 | #define DEPRECATED(func) __attribute__ ((deprecated)) func | ^~~~ test_laplace.cxx:27:47: warning: 'const Field3D invert_laplace(const Field3D&, int, const Field2D*, const Field2D*, const Field2D*)' is deprecated [-Wdeprecated-declarations] 27 | Field3D flag0a = invert_laplace(input, 0, &a); | ^ In file included from ../../../include/bout_types.hxx:25, from ../../../include/datafile.hxx:17, from ../../../include/bout.hxx:40, from test_laplace.cxx:6: ../../../include/invert_laplace.hxx:284:26: note: declared here 284 | DEPRECATED(const Field3D invert_laplace(const Field3D &b, int flags, const Field2D *a = nullptr, | ^~~~~~~~~~~~~~ ../../../include/bout/deprecated.hxx:18:55: note: in definition of macro 'DEPRECATED' 18 | #define DEPRECATED(func) __attribute__ ((deprecated)) func | ^~~~ test_laplace.cxx:28:47: warning: 'const Field3D invert_laplace(const Field3D&, int, const Field2D*, const Field2D*, const Field2D*)' is deprecated [-Wdeprecated-declarations] 28 | Field3D flag3a = invert_laplace(input, 3, &a); | ^ In file included from ../../../include/bout_types.hxx:25, from ../../../include/datafile.hxx:17, from ../../../include/bout.hxx:40, from test_laplace.cxx:6: ../../../include/invert_laplace.hxx:284:26: note: declared here 284 | DEPRECATED(const Field3D invert_laplace(const Field3D &b, int flags, const Field2D *a = nullptr, | ^~~~~~~~~~~~~~ ../../../include/bout/deprecated.hxx:18:55: note: in definition of macro 'DEPRECATED' 18 | #define DEPRECATED(func) __attribute__ ((deprecated)) func | ^~~~ test_laplace.cxx:31:52: warning: 'const Field3D invert_laplace(const Field3D&, int, const Field2D*, const Field2D*, const Field2D*)' is deprecated [-Wdeprecated-declarations] 31 | Field3D flag0ac = invert_laplace(input, 0, &a, &c); | ^ In file included from ../../../include/bout_types.hxx:25, from ../../../include/datafile.hxx:17, from ../../../include/bout.hxx:40, from test_laplace.cxx:6: ../../../include/invert_laplace.hxx:284:26: note: declared here 284 | DEPRECATED(const Field3D invert_laplace(const Field3D &b, int flags, const Field2D *a = nullptr, | ^~~~~~~~~~~~~~ ../../../include/bout/deprecated.hxx:18:55: note: in definition of macro 'DEPRECATED' 18 | #define DEPRECATED(func) __attribute__ ((deprecated)) func | ^~~~ test_laplace.cxx:32:52: warning: 'const Field3D invert_laplace(const Field3D&, int, const Field2D*, const Field2D*, const Field2D*)' is deprecated [-Wdeprecated-declarations] 32 | Field3D flag3ac = invert_laplace(input, 3, &a, &c); | ^ In file included from ../../../include/bout_types.hxx:25, from ../../../include/datafile.hxx:17, from ../../../include/bout.hxx:40, from test_laplace.cxx:6: ../../../include/invert_laplace.hxx:284:26: note: declared here 284 | DEPRECATED(const Field3D invert_laplace(const Field3D &b, int flags, const Field2D *a = nullptr, | ^~~~~~~~~~~~~~ ../../../include/bout/deprecated.hxx:18:55: note: in definition of macro 'DEPRECATED' 18 | #define DEPRECATED(func) __attribute__ ((deprecated)) func | ^~~~ test_laplace.cxx:35:61: warning: 'const Field3D invert_laplace(const Field3D&, int, const Field2D*, const Field2D*, const Field2D*)' is deprecated [-Wdeprecated-declarations] 35 | Field3D flag0ad = invert_laplace(input, 0, &a, nullptr, &d); | ^ In file included from ../../../include/bout_types.hxx:25, from ../../../include/datafile.hxx:17, from ../../../include/bout.hxx:40, from test_laplace.cxx:6: ../../../include/invert_laplace.hxx:284:26: note: declared here 284 | DEPRECATED(const Field3D invert_laplace(const Field3D &b, int flags, const Field2D *a = nullptr, | ^~~~~~~~~~~~~~ ../../../include/bout/deprecated.hxx:18:55: note: in definition of macro 'DEPRECATED' 18 | #define DEPRECATED(func) __attribute__ ((deprecated)) func | ^~~~ test_laplace.cxx:36:61: warning: 'const Field3D invert_laplace(const Field3D&, int, const Field2D*, const Field2D*, const Field2D*)' is deprecated [-Wdeprecated-declarations] 36 | Field3D flag3ad = invert_laplace(input, 3, &a, nullptr, &d); | ^ In file included from ../../../include/bout_types.hxx:25, from ../../../include/datafile.hxx:17, from ../../../include/bout.hxx:40, from test_laplace.cxx:6: ../../../include/invert_laplace.hxx:284:26: note: declared here 284 | DEPRECATED(const Field3D invert_laplace(const Field3D &b, int flags, const Field2D *a = nullptr, | ^~~~~~~~~~~~~~ ../../../include/bout/deprecated.hxx:18:55: note: in definition of macro 'DEPRECATED' 18 | #define DEPRECATED(func) __attribute__ ((deprecated)) func | ^~~~ test_laplace.cxx:45:21: warning: 'virtual void Laplacian::setFlags(int)' is deprecated: Please use setGlobalFlags, setInnerBoundaryFlags and setOuterBoundaryFlags methods instead [-Wdeprecated-declarations] 45 | lap->setFlags(4096); | ^ In file included from test_laplace.cxx:7: ../../../include/invert_laplace.hxx:189:16: note: declared here 189 | virtual void setFlags(int f); | ^~~~~~~~ test_laplace.cxx:47:21: warning: 'virtual void Laplacian::setFlags(int)' is deprecated: Please use setGlobalFlags, setInnerBoundaryFlags and setOuterBoundaryFlags methods instead [-Wdeprecated-declarations] 47 | lap->setFlags(8192); | ^ In file included from test_laplace.cxx:7: ../../../include/invert_laplace.hxx:189:16: note: declared here 189 | virtual void setFlags(int f); | ^~~~~~~~ test_laplace.cxx:52:21: warning: 'virtual void Laplacian::setFlags(int)' is deprecated: Please use setGlobalFlags, setInnerBoundaryFlags and setOuterBoundaryFlags methods instead [-Wdeprecated-declarations] 52 | lap->setFlags(4096); | ^ In file included from test_laplace.cxx:7: ../../../include/invert_laplace.hxx:189:16: note: declared here 189 | virtual void setFlags(int f); | ^~~~~~~~ test_laplace.cxx:54:21: warning: 'virtual void Laplacian::setFlags(int)' is deprecated: Please use setGlobalFlags, setInnerBoundaryFlags and setOuterBoundaryFlags methods instead [-Wdeprecated-declarations] 54 | lap->setFlags(8192); | ^ In file included from test_laplace.cxx:7: ../../../include/invert_laplace.hxx:189:16: note: declared here 189 | virtual void setFlags(int f); | ^~~~~~~~ test_laplace.cxx:59:21: warning: 'virtual void Laplacian::setFlags(int)' is deprecated: Please use setGlobalFlags, setInnerBoundaryFlags and setOuterBoundaryFlags methods instead [-Wdeprecated-declarations] 59 | lap->setFlags(4096); | ^ In file included from test_laplace.cxx:7: ../../../include/invert_laplace.hxx:189:16: note: declared here 189 | virtual void setFlags(int f); | ^~~~~~~~ test_laplace.cxx:61:21: warning: 'virtual void Laplacian::setFlags(int)' is deprecated: Please use setGlobalFlags, setInnerBoundaryFlags and setOuterBoundaryFlags methods instead [-Wdeprecated-declarations] 61 | lap->setFlags(8192); | ^ In file included from test_laplace.cxx:7: ../../../include/invert_laplace.hxx:189:16: note: declared here 189 | virtual void setFlags(int f); | ^~~~~~~~ test_laplace.cxx:67:21: warning: 'virtual void Laplacian::setFlags(int)' is deprecated: Please use setGlobalFlags, setInnerBoundaryFlags and setOuterBoundaryFlags methods instead [-Wdeprecated-declarations] 67 | lap->setFlags(4096); | ^ In file included from test_laplace.cxx:7: ../../../include/invert_laplace.hxx:189:16: note: declared here 189 | virtual void setFlags(int f); | ^~~~~~~~ test_laplace.cxx:69:21: warning: 'virtual void Laplacian::setFlags(int)' is deprecated: Please use setGlobalFlags, setInnerBoundaryFlags and setOuterBoundaryFlags methods instead [-Wdeprecated-declarations] 69 | lap->setFlags(8192); | ^ In file included from test_laplace.cxx:7: ../../../include/invert_laplace.hxx:189:16: note: declared here 189 | virtual void setFlags(int f); | ^~~~~~~~ Linking test_laplace Linking test_delp2 Compiling test-restart-io.cxx Compiling sys/test_utils.cxx Compiling command-args.cxx Linking test-restart-io Linking command-args Compiling test_griddata.cxx Compiling test_yupdown.cxx Linking test_griddata Compiling test_region_iterator.cxx Compiling test_stopCheck.cxx Compiling sys/test_variant.cxx Linking test_yupdown Compiling sys/test_range.cxx Compiling test_restarting.cxx Linking test_region_iterator Linking test_stopCheck Compiling testVec.cxx Compiling test-twistshift.cxx Compiling sys/test_msg_stack.cxx Linking test_restarting In file included from ../../externalpackages/googletest/googletest/include/gtest/gtest.h:390, from sys/test_msg_stack.cxx:4: sys/test_msg_stack.cxx: In member function 'virtual void MsgStackTest_SetPointTest_Test::TestBody()': sys/test_msg_stack.cxx:77:34: warning: 'int MsgStack::setPoint()' is deprecated: Please use `MsgStack::push` with an empty message instead [-Wdeprecated-declarations] 77 | EXPECT_EQ(msg_stack.setPoint(), i); | ^ In file included from sys/test_msg_stack.cxx:5: ../../include/msg_stack.hxx:76:7: note: declared here 76 | int setPoint(); ///< get a message point | ^~~~~~~~ Compiling fuu.cxx Linking test-twistshift Linking testVec Compiling test_interpolate.cxx Compiling test_cyclic.cxx Compiling sys/test_optionsreader.cxx Adding fuu.o to /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/tests/integrated/test-subdir/fuu.a Compiling bar.cxx Adding bar.o to /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/tests/integrated/test-subdir/bar.a Compiling subdirs.cxx Linking test_interpolate Linking test_cyclic Compiling sys/test_options.cxx Compiling sys/test_output.cxx Linking subdirs Compiling test_io.cxx Compiling test_gyro.cxx Compiling sys/test_timer.cxx Linking test_gyro Compiling test_invpar.cxx Linking test_io Compiling sys/test_boutexception.cxx Compiling sys/test_options_netcdf.cxx Linking test_invpar Compiling sys/test_type_name.cxx Compiling sys/test_options_fields.cxx Compiling sys/test_expressionparser.cxx Compiling invert/test_fft.cxx Compiling field/test_field_factory.cxx Compiling field/test_field.cxx Compiling field/test_fieldgroup.cxx Compiling field/test_field2d.cxx Compiling field/test_vector2d.cxx Compiling field/test_field3d.cxx Compiling field/test_fieldperp.cxx Compiling field/test_where.cxx Compiling field/test_vector3d.cxx Compiling field/test_initialprofiles.cxx Compiling src/test_bout++.cxx Compiling include/bout/test_generic_factory.cxx Compiling include/bout/test_traits.cxx Compiling include/bout/test_macro_for_each.cxx Compiling include/bout/test_assert.cxx Compiling include/bout/test_deriv_store.cxx Compiling include/bout/test_template_combinations.cxx Compiling include/bout/test_array.cxx Compiling include/bout/test_monitor.cxx Compiling include/bout/test_region.cxx Compiling include/test_interpolation_factory.cxx Compiling include/test_cyclic_reduction.cxx Compiling include/test_derivs.cxx Compiling include/test_mask.cxx Compiling gtest-all.o Compiling bout_test_main.o In file included from ../../externalpackages/googletest/googletest/src/gtest-all.cc:41: ../../externalpackages/googletest/googletest/src/gtest.cc: In member function 'testing::UnitTest::AddTestPartResult(testing::TestPartResult::Type, char const*, int, std::__cxx11::basic_string, std::allocator > const&, std::__cxx11::basic_string, std::allocator > const&)': ../../externalpackages/googletest/googletest/src/gtest.cc:4749:44: warning: null pointer dereference [-Wnull-dereference] 4749 | *static_cast(nullptr) = 1; | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~ Linking bout_test_main.a Linking tests /usr/bin/ld: /tmp/serial_tests.egiiuq.ltrans12.ltrans.o: in function `.L0 ': /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/tests/unit/sys/test_optionsreader.cxx:18: warning: the use of `tmpnam' is dangerous, better use `mkstemp' + SEGFAULT_SIGNALS=segv + LD_PRELOAD=/usr/lib64/libSegFault.so + make check Linking tests /usr/bin/ld: /tmp/serial_tests.z4ytnv.ltrans12.ltrans.o: in function `.L0 ': /builddir/build/BUILD/BOUT++-v4.3.1/build_mpich/tests/unit/sys/test_optionsreader.cxx:18: warning: the use of `tmpnam' is dangerous, better use `mkstemp' Running unit test Running main() from bout_test_main.cxx [==========] Running 1510 tests from 103 test suites. [----------] Global test environment set-up. [----------] 11 tests from MaskTest [----------] 11 tests from MaskTest (119 ms total) [----------] 3 tests from CyclicReduction (343 ms total) [----------] 9 tests from InterpolationFactoryTest (56 ms total) [----------] 33 tests from RegionTest (181 ms total) [----------] 6 tests from RegionIndexConversionTest (4 ms total) [----------] 2 tests from RegionIndex2DTest (2 ms total) [----------] 2 tests from RegionIndex3DTest (3 ms total) [----------] 21 tests from RegionIndexTest/0 (22 ms total) [----------] 21 tests from RegionIndexTest/1 (21 ms total) [----------] 21 tests from RegionIndexTest/2 (21 ms total) [----------] 23 tests from FieldIndexTest/0 (18 ms total) [----------] 23 tests from FieldIndexTest/1 (18 ms total) [----------] 48 tests from IndexOffsetTest (103 ms total) [----------] 2 tests from MonitorTest (6 ms total) [----------] 12 tests from ArrayTest (15 ms total) [----------] 5 tests from TemplateCombinationsTest (15 ms total) [----------] 25 tests from DerivativeStoreTest (191 ms total) [----------] 4 tests from AssertTest (5 ms total) [----------] 3 tests from MacroForEachTest (3 ms total) [----------] 3 tests from MacroForEachFnTest (3 ms total) [----------] 6 tests from BoutTraitsTest (6 ms total) [----------] 6 tests from GenericFactory (10 ms total) [----------] 22 tests from ParseCommandLineArgs (255 ms total) [----------] 3 tests from PrintStartupTest (6 ms total) [----------] 1 test from SignalHandlerTest (2197 ms total) [----------] 4 tests from BoutInitialiseFunctions (28 ms total) [----------] 10 tests from InitialProfileTest (96 ms total) [----------] 49 tests from Vector3DTest (310 ms total) [----------] 10 tests from WhereTest (64 ms total) [----------] 96 tests from FieldPerpTest (637 ms total) [----------] 126 tests from Field3DTest (887 ms total) [----------] 46 tests from Vector2DTest (251 ms total) [----------] 78 tests from Field2DTest (417 ms total) [----------] 26 tests from FieldGroupTest (30 ms total) [----------] 10 tests from FieldTest (46 ms total) [----------] 47 tests from FieldFactoryCreationTest/0 (257 ms total) [----------] 47 tests from FieldFactoryCreationTest/1 (251 ms total) [----------] 28 tests from FieldFactoryTest (153 ms total) [----------] 6 tests from FieldFactoryCreateAndTransformTest (31 ms total) [----------] 29 tests from ExpressionParserTest (67 ms total) [----------] 1 test from ParseExceptionTest (1 ms total) [----------] 12 tests from OptionsFieldTest (56 ms total) [----------] 6 tests from TypeNameTest (6 ms total) [----------] 12 tests from OptionsNetCDFTest (763 ms total) [----------] 3 tests from BoutExceptionTest (128980 ms total) [----------] 1 test from BoutRhsFailTest (7 ms total) [----------] 2 tests from BoutParallelRhsFailTest (8 ms total) [----------] 1 test from BoutIterationFailTest (4 ms total) [ RUN ] TimerTest.GetTimeLabelRepeat sys/test_timer.cxx:107: Failure The difference between Timer::getTime("GetTimeLabelRepeat test") and elapsed2.count() is 0.00061319999999999951, which exceeds bout::testing::TimerTolerance, where Timer::getTime("GetTimeLabelRepeat test") evaluates to 0.0029765010000000003, elapsed2.count() evaluates to 0.0035897009999999998, and bout::testing::TimerTolerance evaluates to 0.00050000000000000001. [ FAILED ] TimerTest.GetTimeLabelRepeat (11 ms) [----------] 10 tests from TimerTest (66 ms total) [----------] 20 tests from OutputTest (57 ms total) [----------] 95 tests from OptionsTest (448 ms total) [----------] 20 tests from OptionsReaderTest (77 ms total) [----------] 11 tests from MsgStackTest (14 ms total) [----------] 25 tests from RangeTest (27 ms total) [----------] 3 tests from VariantTest (3 ms total) [----------] 14 tests from MatrixTest (20 ms total) [----------] 14 tests from TensorTest (20 ms total) [----------] 4 tests from Invert3x3Test (7 ms total) [----------] 13 tests from NumberUtilitiesTest (14 ms total) [----------] 18 tests from StringUtilitiesTest (25 ms total) [----------] 4 tests from FunctionTraitsTest (2 ms total) [----------] 46 tests from SolverTest (324 ms total) [----------] 12 tests from SolverFactoryTest (22 ms total) [----------] 34 tests from GridFromOptionsTest (2399 ms total) [----------] 6 tests from ParallelTransformTest (33 ms total) [----------] 2 tests from BoutMeshTest (117 ms total) [----------] 24 tests from MeshTest (77 ms total) [----------] 9 tests from ShiftedMetricTest (69 ms total) [----------] 4 tests from CoordinatesTest (32 ms total) [----------] 16 tests from Field3DInterpToTest (25 ms total) [----------] 8 tests from Field2DInterpToTest (14 ms total) [----------] 5 tests from BoundaryFactoryTest (15 ms total) [----------] 5 tests from FirstX/DerivativesTest (51 ms total) [----------] 5 tests from FirstY/DerivativesTest (46 ms total) [----------] 6 tests from FirstZ/DerivativesTest (101 ms total) [----------] 2 tests from SecondX/DerivativesTest (18 ms total) [----------] 2 tests from SecondY/DerivativesTest (18 ms total) [----------] 3 tests from SecondZ/DerivativesTest (35 ms total) [----------] 1 test from FourthX/DerivativesTest (14 ms total) [----------] 1 test from FourthY/DerivativesTest (12 ms total) [----------] 1 test from FourthZ/DerivativesTest (18 ms total) [----------] 6 tests from UpwindX/DerivativesTestAdvection (55 ms total) [----------] 6 tests from UpwindY/DerivativesTestAdvection (52 ms total) [----------] 6 tests from UpwindZ/DerivativesTestAdvection (68 ms total) [----------] 5 tests from FluxX/DerivativesTestAdvection (47 ms total) [----------] 5 tests from FluxY/DerivativesTestAdvection (45 ms total) [----------] 5 tests from FluxZ/DerivativesTestAdvection (56 ms total) [----------] 5 tests from X/FirstDerivativesInterfaceTest (41 ms total) [----------] 5 tests from FirstY/FirstDerivativesInterfaceTest (42 ms total) [----------] 6 tests from FirstZ/FirstDerivativesInterfaceTest (62 ms total) [----------] 2 tests from X/SecondDerivativesInterfaceTest (17 ms total) [----------] 2 tests from Y/SecondDerivativesInterfaceTest (18 ms total) [----------] 3 tests from Z/SecondDerivativesInterfaceTest (32 ms total) [----------] 1 test from X/FourthDerivativesInterfaceTest (13 ms total) [----------] 1 test from Y/FourthDerivativesInterfaceTest (14 ms total) [----------] 1 test from Z/FourthDerivativesInterfaceTest (16 ms total) [----------] 6 tests from X/UpwindDerivativesInterfaceTest (50 ms total) [----------] 6 tests from Y/UpwindDerivativesInterfaceTest (53 ms total) [----------] 6 tests from Z/UpwindDerivativesInterfaceTest (63 ms total) [----------] 5 tests from X/FluxDerivativesInterfaceTest (42 ms total) [----------] 5 tests from Y/FluxDerivativesInterfaceTest (44 ms total) [----------] 5 tests from Z/FluxDerivativesInterfaceTest (52 ms total) [----------] 10 tests from FFTEvenAndOddSamples/FFTTest (15 ms total) [==========] 1510 tests from 103 test suites ran. (142208 ms total) [ PASSED ] 1509 tests. [ FAILED ] 1 test, listed below: [ FAILED ] TimerTest.GetTimeLabelRepeat 1 FAILED TEST RPM build errors: make[1]: *** [makefile:98: check] Error 1 make: *** [makefile:29: check-unit-tests] Error 2 error: Bad exit status from /var/tmp/rpm-tmp.rhYhCU (%check) Bad exit status from /var/tmp/rpm-tmp.rhYhCU (%check) Child return code was: 1 EXCEPTION: [Error()] Traceback (most recent call last): File "/usr/lib/python3.8/site-packages/mockbuild/trace_decorator.py", line 95, in trace result = func(*args, **kw) File "/usr/lib/python3.8/site-packages/mockbuild/util.py", line 746, in do_with_status raise exception.Error("Command failed: \n # %s\n%s" % (command, output), child.returncode) mockbuild.exception.Error: Command failed: # bash --login -c /usr/bin/rpmbuild -bb --target riscv64 --nodeps /builddir/build/SPECS/bout++.spec