Mock Version: 1.4.14
Mock Version: 1.4.14
ENTER ['do'](['bash', '--login', '-c', '/usr/bin/rpmbuild -bs --target riscv64 --nodeps /builddir/build/SPECS/glimmer.spec'], chrootPath='/var/lib/mock/f31-build-55646-28134/root'env={'TERM': 'vt100', 'SHELL': '/bin/bash', 'HOME': '/builddir', 'HOSTNAME': 'mock', 'PATH': '/usr/bin:/bin:/usr/sbin:/sbin', 'PROMPT_COMMAND': 'printf "\\033]0;<mock-chroot>\\007"', 'PS1': '<mock-chroot> \\s-\\v\\$ ', 'LANG': 'en_US.UTF-8'}shell=Falselogger=<mockbuild.trace_decorator.getLog object at 0x15580c07b8>timeout=345600uid=986gid=135user='mockbuild'nspawn_args=[]unshare_net=TrueprintOutput=False)
Executing command: ['bash', '--login', '-c', '/usr/bin/rpmbuild -bs --target riscv64 --nodeps /builddir/build/SPECS/glimmer.spec'] with env {'TERM': 'vt100', 'SHELL': '/bin/bash', 'HOME': '/builddir', 'HOSTNAME': 'mock', 'PATH': '/usr/bin:/bin:/usr/sbin:/sbin', 'PROMPT_COMMAND': 'printf "\\033]0;<mock-chroot>\\007"', 'PS1': '<mock-chroot> \\s-\\v\\$ ', 'LANG': 'en_US.UTF-8'} and shell False
Building target platforms: riscv64
Building for target riscv64
setting SOURCE_DATE_EPOCH=1548892800
Wrote: /builddir/build/SRPMS/glimmer-3.02b-13.fc31.src.rpm
Child return code was: 0
ENTER ['do'](['bash', '--login', '-c', '/usr/bin/rpmbuild -bb --target riscv64 --nodeps /builddir/build/SPECS/glimmer.spec'], chrootPath='/var/lib/mock/f31-build-55646-28134/root'env={'TERM': 'vt100', 'SHELL': '/bin/bash', 'HOME': '/builddir', 'HOSTNAME': 'mock', 'PATH': '/usr/bin:/bin:/usr/sbin:/sbin', 'PROMPT_COMMAND': 'printf "\\033]0;<mock-chroot>\\007"', 'PS1': '<mock-chroot> \\s-\\v\\$ ', 'LANG': 'en_US.UTF-8'}shell=Falselogger=<mockbuild.trace_decorator.getLog object at 0x15580c07b8>timeout=345600uid=986gid=135user='mockbuild'nspawn_args=[]unshare_net=TrueprintOutput=False)
Executing command: ['bash', '--login', '-c', '/usr/bin/rpmbuild -bb --target riscv64 --nodeps /builddir/build/SPECS/glimmer.spec'] with env {'TERM': 'vt100', 'SHELL': '/bin/bash', 'HOME': '/builddir', 'HOSTNAME': 'mock', 'PATH': '/usr/bin:/bin:/usr/sbin:/sbin', 'PROMPT_COMMAND': 'printf "\\033]0;<mock-chroot>\\007"', 'PS1': '<mock-chroot> \\s-\\v\\$ ', 'LANG': 'en_US.UTF-8'} and shell False
Building target platforms: riscv64
Building for target riscv64
setting SOURCE_DATE_EPOCH=1548892800
Executing(%prep): /bin/sh -e /var/tmp/rpm-tmp.A3zyah
+ umask 022
+ cd /builddir/build/BUILD
+ cd /builddir/build/BUILD
+ rm -rf glimmer3.02
+ /usr/bin/gzip -dc /builddir/build/SOURCES/glimmer302b.tar.gz
+ /usr/bin/tar -xof -
+ STATUS=0
+ '[' 0 -ne 0 ']'
+ cd glimmer3.02
+ /usr/bin/chmod -Rf a+rX,u+w,g-w,o-w .
+ rm -f sample-run/g3-from-scratch.csh sample-run/g3-from-training.csh sample-run/g3-iterated.csh
+ sed -i s+/fs/szgenefinding/Glimmer3/bin+/usr/libexec/glimmer3+ scripts/g3-from-scratch.csh scripts/g3-from-training.csh scripts/g3-iterated.csh
+ sed -i s+/fs/szgenefinding/Glimmer3/scripts+/usr/share/glimmer3+ scripts/g3-from-scratch.csh scripts/g3-from-training.csh scripts/g3-iterated.csh
+ sed -i s+/nfshomes/adelcher/bin/elph+/usr/bin/elph+ scripts/g3-from-scratch.csh scripts/g3-from-training.csh scripts/g3-iterated.csh
+ sed -i 's/@ if/if/' src/c_make.gen
+ RPM_EC=0
BUILDSTDERR: ++ jobs -p
+ exit 0
Executing(%build): /bin/sh -e /var/tmp/rpm-tmp.ctRV1e
+ umask 022
+ cd /builddir/build/BUILD
+ cd glimmer3.02
+ make -C src -j4 'CXXFLAGS=-O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection'
BUILDSTDERR: make[1]: warning: jobserver unavailable: using -j1.  Add '+' to parent make rule.
BUILDSTDERR: make[1]: warning: jobserver unavailable: using -j1.  Add '+' to parent make rule.
BUILDSTDERR: <command-line>: warning: "__cplusplus" redefined
BUILDSTDERR: <built-in>: note: this is the location of the previous definition
BUILDSTDERR: <command-line>: warning: "__cplusplus" redefined
BUILDSTDERR: <built-in>: note: this is the location of the previous definition
make: Entering directory '/builddir/build/BUILD/glimmer3.02/src'
* Make Target is  all
#####    Making Directory  /builddir/build/BUILD/glimmer3.02/src/Common   all  #####
make[1]: Entering directory '/builddir/build/BUILD/glimmer3.02/src/Common'
if [ -e gene.cc ] ; then \
  /bin/sh -ec 'g++ -M   -I/builddir/build/BUILD/glimmer3.02/inc  -I/../SYS/inc  -I/builddir/build/BUILD/glimmer3.02/src/Common  -I/builddir/build/BUILD/glimmer3.02/src/ICM  -I/builddir/build/BUILD/glimmer3.02/src/Glimmer  -I/builddir/build/BUILD/glimmer3.02/src/Util  -I/builddir/build/BUILD/glimmer3.02/inc gene.cc \
    | sed '\''s/gene\\.o[ :]*/& gene.d/g'\'' > gene.d' ; \
        fi ;
if [ -e fasta.cc ] ; then \
  /bin/sh -ec 'g++ -M   -I/builddir/build/BUILD/glimmer3.02/inc  -I/../SYS/inc  -I/builddir/build/BUILD/glimmer3.02/src/Common  -I/builddir/build/BUILD/glimmer3.02/src/ICM  -I/builddir/build/BUILD/glimmer3.02/src/Glimmer  -I/builddir/build/BUILD/glimmer3.02/src/Util  -I/builddir/build/BUILD/glimmer3.02/inc fasta.cc \
    | sed '\''s/fasta\\.o[ :]*/& fasta.d/g'\'' > fasta.d' ; \
        fi ;
if [ -e delcher.cc ] ; then \
  /bin/sh -ec 'g++ -M   -I/builddir/build/BUILD/glimmer3.02/inc  -I/../SYS/inc  -I/builddir/build/BUILD/glimmer3.02/src/Common  -I/builddir/build/BUILD/glimmer3.02/src/ICM  -I/builddir/build/BUILD/glimmer3.02/src/Glimmer  -I/builddir/build/BUILD/glimmer3.02/src/Util  -I/builddir/build/BUILD/glimmer3.02/inc delcher.cc \
    | sed '\''s/delcher\\.o[ :]*/& delcher.d/g'\'' > delcher.d' ; \
        fi ;
@@@@@@@@@@@@@@@@@@@  delcher.cc @@@@@@@@@@@@@@@@@@@@@
if [ -e delcher.cc ] ; then \
  g++  -D__cplusplus -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection -c \
	 -I/builddir/build/BUILD/glimmer3.02/inc  -I/../SYS/inc  -I/builddir/build/BUILD/glimmer3.02/src/Common  -I/builddir/build/BUILD/glimmer3.02/src/ICM  -I/builddir/build/BUILD/glimmer3.02/src/Glimmer  -I/builddir/build/BUILD/glimmer3.02/src/Util  -I/builddir/build/BUILD/glimmer3.02/inc -o /builddir/build/BUILD/glimmer3.02/obj/delcher.o delcher.cc ; \
else \
  /cm/cmtools/bin/links.pl /builddir/build/BUILD/glimmer3.02/obj \
            " :/builddir/build/BUILD/glimmer3.02/obj" delcher.o ; \
fi ;
@@@@@@@@@@@@@@@@@@@  fasta.cc @@@@@@@@@@@@@@@@@@@@@
if [ -e fasta.cc ] ; then \
  g++  -D__cplusplus -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection -c \
	 -I/builddir/build/BUILD/glimmer3.02/inc  -I/../SYS/inc  -I/builddir/build/BUILD/glimmer3.02/src/Common  -I/builddir/build/BUILD/glimmer3.02/src/ICM  -I/builddir/build/BUILD/glimmer3.02/src/Glimmer  -I/builddir/build/BUILD/glimmer3.02/src/Util  -I/builddir/build/BUILD/glimmer3.02/inc -o /builddir/build/BUILD/glimmer3.02/obj/fasta.o fasta.cc ; \
else \
  /cm/cmtools/bin/links.pl /builddir/build/BUILD/glimmer3.02/obj \
            " :/builddir/build/BUILD/glimmer3.02/obj" fasta.o ; \
fi ;
@@@@@@@@@@@@@@@@@@@  gene.cc @@@@@@@@@@@@@@@@@@@@@
if [ -e gene.cc ] ; then \
  g++  -D__cplusplus -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection -c \
	 -I/builddir/build/BUILD/glimmer3.02/inc  -I/../SYS/inc  -I/builddir/build/BUILD/glimmer3.02/src/Common  -I/builddir/build/BUILD/glimmer3.02/src/ICM  -I/builddir/build/BUILD/glimmer3.02/src/Glimmer  -I/builddir/build/BUILD/glimmer3.02/src/Util  -I/builddir/build/BUILD/glimmer3.02/inc -o /builddir/build/BUILD/glimmer3.02/obj/gene.o gene.cc ; \
else \
BUILDSTDERR:   /cm/cmtools<command-line>: warning: "__cplusplus" redefined
BUILDSTDERR: <built-in>: note: this is the location of the previous definition
BUILDSTDERR: gene.cc: In member function 'bool PWM_t::Read(FILE*)':
BUILDSTDERR: gene.cc:318:11: warning: ignoring return value of 'int fscanf(FILE*, const char*, ...)', declared with attribute warn_unused_result [-Wunused-result]
BUILDSTDERR:   318 |    fscanf (fp, "%d", & width);
BUILDSTDERR:       |    ~~~~~~~^~~~~~~~~~~~~~~~~~~
BUILDSTDERR: gene.cc:331:14: warning: ignoring return value of 'int fscanf(FILE*, const char*, ...)', declared with attribute warn_unused_result [-Wunused-result]
BUILDSTDERR:   331 |       fscanf (fp, "%s", tag);   // skip tag in first column
BUILDSTDERR:       |       ~~~~~~~^~~~~~~~~~~~~~~
BUILDSTDERR: gene.cc:334:17: warning: ignoring return value of 'int fscanf(FILE*, const char*, ...)', declared with attribute warn_unused_result [-Wunused-result]
BUILDSTDERR:   334 |          fscanf (fp, "%lf", & x);
BUILDSTDERR:       |          ~~~~~~~^~~~~~~~~~~~~~~~
BUILDSTDERR: gene.cc: In function 'int Read_String(FILE*, char*&, long int&, char*, int)':
BUILDSTDERR: gene.cc:847:10: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result]
BUILDSTDERR:   847 |    fgets (Line, MAX_LINE, fp);
BUILDSTDERR:       |    ~~~~~~^~~~~~~~~~~~~~~~~~~~
BUILDSTDERR: ar: creating /builddir/build/BUILD/glimmer3.02/lib/libGLMcommon.a
BUILDSTDERR: make[1]: warning: jobserver unavailable: using -j1.  Add '+' to parent make rule.
BUILDSTDERR: make[1]: warning: jobserver unavailable: using -j1.  Add '+' to parent make rule.
BUILDSTDERR: <command-line>: warning: "__cplusplus" redefined
BUILDSTDERR: <built-in>: note: this is the location of the previous definition
BUILDSTDERR: icm.cc: In member function 'void Fixed_Length_ICM_t::read(const char*)':
BUILDSTDERR: icm.cc:1489:10: warning: ignoring return value of 'size_t fread(void*, size_t, size_t, FILE*)', declared with attribute warn_unused_result [-Wunused-result]
BUILDSTDERR:  1489 |    fread (line, sizeof (char), ID_STRING_LEN, fp);    // skip the text header line
BUILDSTDERR:       |    ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
BUILDSTDERR: icm.cc:1517:10: warning: ignoring return value of 'size_t fread(void*, size_t, size_t, FILE*)', declared with attribute warn_unused_result [-Wunused-result]
BUILDSTDERR:  1517 |    fread (permutation, sizeof (int), length, fp);
BUILDSTDERR:       |    ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
BUILDSTDERR: <command-line>: warning: "__cplusplus" redefined
BUILDSTDERR: <built-in>: note: this is the location of the previous definition
/bin/links.pl /builddir/build/BUILD/glimmer3.02/obj \
            " :/builddir/build/BUILD/glimmer3.02/obj" gene.o ; \
fi ;
###################  libGLMcommon.a #####################
a - delcher.o
a - fasta.o
a - gene.o
make[1]: Leaving directory '/builddir/build/BUILD/glimmer3.02/src/Common'
#####    Making Directory  /builddir/build/BUILD/glimmer3.02/src/ICM   all  #####
make[1]: Entering directory '/builddir/build/BUILD/glimmer3.02/src/ICM'
if [ -e score-fixed.cc ] ; then \
  /bin/sh -ec 'g++ -M   -I/builddir/build/BUILD/glimmer3.02/inc  -I/../SYS/inc  -I/builddir/build/BUILD/glimmer3.02/src/Common  -I/builddir/build/BUILD/glimmer3.02/src/ICM  -I/builddir/build/BUILD/glimmer3.02/src/Glimmer  -I/builddir/build/BUILD/glimmer3.02/src/Util  -I/builddir/build/BUILD/glimmer3.02/inc score-fixed.cc \
    | sed '\''s/score-fixed\\.o[ :]*/& score-fixed.d/g'\'' > score-fixed.d' ; \
        fi ;
if [ -e build-fixed.cc ] ; then \
  /bin/sh -ec 'g++ -M   -I/builddir/build/BUILD/glimmer3.02/inc  -I/../SYS/inc  -I/builddir/build/BUILD/glimmer3.02/src/Common  -I/builddir/build/BUILD/glimmer3.02/src/ICM  -I/builddir/build/BUILD/glimmer3.02/src/Glimmer  -I/builddir/build/BUILD/glimmer3.02/src/Util  -I/builddir/build/BUILD/glimmer3.02/inc build-fixed.cc \
    | sed '\''s/build-fixed\\.o[ :]*/& build-fixed.d/g'\'' > build-fixed.d' ; \
        fi ;
if [ -e build-icm.cc ] ; then \
  /bin/sh -ec 'g++ -M   -I/builddir/build/BUILD/glimmer3.02/inc  -I/../SYS/inc  -I/builddir/build/BUILD/glimmer3.02/src/Common  -I/builddir/build/BUILD/glimmer3.02/src/ICM  -I/builddir/build/BUILD/glimmer3.02/src/Glimmer  -I/builddir/build/BUILD/glimmer3.02/src/Util  -I/builddir/build/BUILD/glimmer3.02/inc build-icm.cc \
    | sed '\''s/build-icm\\.o[ :]*/& build-icm.d/g'\'' > build-icm.d' ; \
        fi ;
if [ -e icm.cc ] ; then \
  /bin/sh -ec 'g++ -M   -I/builddir/build/BUILD/glimmer3.02/inc  -I/../SYS/inc  -I/builddir/build/BUILD/glimmer3.02/src/Common  -I/builddir/build/BUILD/glimmer3.02/src/ICM  -I/builddir/build/BUILD/glimmer3.02/src/Glimmer  -I/builddir/build/BUILD/glimmer3.02/src/Util  -I/builddir/build/BUILD/glimmer3.02/inc icm.cc \
    | sed '\''s/icm\\.o[ :]*/& icm.d/g'\'' > icm.d' ; \
        fi ;
@@@@@@@@@@@@@@@@@@@  icm.cc @@@@@@@@@@@@@@@@@@@@@
if [ -e icm.cc ] ; then \
  g++  -D__cplusplus -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection -c \
	 -I/builddir/build/BUILD/glimmer3.02/inc  -I/../SYS/inc  -I/builddir/build/BUILD/glimmer3.02/src/Common  -I/builddir/build/BUILD/glimmer3.02/src/ICM  -I/builddir/build/BUILD/glimmer3.02/src/Glimmer  -I/builddir/build/BUILD/glimmer3.02/src/Util  -I/builddir/build/BUILD/glimmer3.02/inc -o /builddir/build/BUILD/glimmer3.02/obj/icm.o icm.cc ; \
else \
  /cm/cmtools/bin/links.pl /builddir/build/BUILD/glimmer3.02/obj \
            " :/builddir/build/BUILD/glimmer3.02/obj" icm.o ; \
fi ;
@@@@@@@@@@@@@@@@@@@  build-icm.cc @@@@@@@@@@@@@@@@@@@@@
if [ -e build-icm.cc ] ; then \
  g++  -D__cplusplus -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection -c \
	 -I/builddir/build/BUILD/glimmer3.02/inc  -I/../SYS/inc  -I/builddir/build/BUILD/glimmer3.02/src/Common  -I/builddir/build/BUILD/glimmer3.02/src/ICM  -I/builddir/build/BUILD/glimmer3.02/src/Glimmer  -I/builddir/build/BUILD/glimmer3.02/src/Util  -I/builddir/build/BUILD/glimmer3.02/inc -o /builddir/build/BUILD/glimmer3.02/obj/build-icm.o build-icm.cc ; \
else \
  /cm/cmtools/bin/links.pl /builddir/build/BUILD/glimmer3.02/obj \
            " :/builddir/build/BUILD/glimmer3.02/obj" build-icm.o ; \
fi ;
@@@@@@@@@@@@@@@@@@@  build-fixed.cc @@@@@@@@@@@@@@@@@@@@@
BUILDSTDERR: if [ -e build-fixed.cc ] <command-line>: warning: "__cplusplus" redefined
BUILDSTDERR: <built-in>: note: this is the location of the previous definition
BUILDSTDERR: <command-line>: warning: "__cplusplus" redefined
BUILDSTDERR: <built-in>: note: this is the location of the previous definition
BUILDSTDERR: ar: creating /builddir/build/BUILD/glimmer3.02/lib/libGLMicm.a
; then \
  g++  -D__cplusplus -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection -c \
	 -I/builddir/build/BUILD/glimmer3.02/inc  -I/../SYS/inc  -I/builddir/build/BUILD/glimmer3.02/src/Common  -I/builddir/build/BUILD/glimmer3.02/src/ICM  -I/builddir/build/BUILD/glimmer3.02/src/Glimmer  -I/builddir/build/BUILD/glimmer3.02/src/Util  -I/builddir/build/BUILD/glimmer3.02/inc -o /builddir/build/BUILD/glimmer3.02/obj/build-fixed.o build-fixed.cc ; \
else \
  /cm/cmtools/bin/links.pl /builddir/build/BUILD/glimmer3.02/obj \
            " :/builddir/build/BUILD/glimmer3.02/obj" build-fixed.o ; \
fi ;
@@@@@@@@@@@@@@@@@@@  score-fixed.cc @@@@@@@@@@@@@@@@@@@@@
if [ -e score-fixed.cc ] ; then \
  g++  -D__cplusplus -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection -c \
	 -I/builddir/build/BUILD/glimmer3.02/inc  -I/../SYS/inc  -I/builddir/build/BUILD/glimmer3.02/src/Common  -I/builddir/build/BUILD/glimmer3.02/src/ICM  -I/builddir/build/BUILD/glimmer3.02/src/Glimmer  -I/builddir/build/BUILD/glimmer3.02/src/Util  -I/builddir/build/BUILD/glimmer3.02/inc -o /builddir/build/BUILD/glimmer3.02/obj/score-fixed.o score-fixed.cc ; \
else \
  /cm/cmtools/bin/links.pl /builddir/build/BUILD/glimmer3.02/obj \
            " :/builddir/build/BUILD/glimmer3.02/obj" score-fixed.o ; \
fi ;
###################  libGLMicm.a #####################
a - icm.o
a - build-icm.o
a - build-fixed.o
a - score-fixed.o
++++++++++++++++++++  build-icm ++++++++++++++++++++++
if [ -z "build-icm.o" ] ; then \
  cd /builddir/build/BUILD/glimmer3.02/obj; \
    if cc -o /builddir/build/BUILD/glimmer3.02/bin/build-icm -g -lm \
                -L/builddir/build/BUILD/glimmer3.02/lib  -L/builddir/build/BUILD/glimmer3.02/lib  -L/usr/lib  -L/usr/shlib  -L/usr/X11R6/lib  -L/lib build-icm.o /builddir/build/BUILD/glimmer3.02/lib/libGLMcommon.a \
        -lGLMicm ; then \
		true; else rm -f /builddir/build/BUILD/glimmer3.02/bin/build-icm; fi; \
else \
  cd /builddir/build/BUILD/glimmer3.02/obj; \
    if g++ -o /builddir/build/BUILD/glimmer3.02/bin/build-icm -g -lm \
                -L/builddir/build/BUILD/glimmer3.02/lib  -L/builddir/build/BUILD/glimmer3.02/lib  -L/usr/lib  -L/usr/shlib  -L/usr/X11R6/lib  -L/lib build-icm.o /builddir/build/BUILD/glimmer3.02/lib/libGLMcommon.a \
        -lGLMicm ; then \
		true; else rm -f /builddir/build/BUILD/glimmer3.02/bin/build-icm; fi; \
fi ;
++++++++++++++++++++  build-fixed ++++++++++++++++++++++
if [ -z "build-fixed.o" ] ; then \
  cd /builddir/build/BUILD/glimmer3.02/obj; \
    if cc -o /builddir/build/BUILD/glimmer3.02/bin/build-fixed -g -lm \
                -L/builddir/build/BUILD/glimmer3.02/lib  -L/builddir/build/BUILD/glimmer3.02/lib  -L/usr/lib  -L/usr/shlib  -L/usr/X11R6/lib  -L/lib build-fixed.o /builddir/build/BUILD/glimmer3.02/lib/libGLMcommon.a \
        -lGLMicm ; then \
		true; else rm -f /builddir/build/BUILD/glimmer3.02/bin/build-fixed; fi; \
else \
  cd /builddir/build/BUILD/glimmer3.02/obj; \
    if g++ -o /builddir/build/BUILD/glimmer3.02/bin/build-fixed -g -lm \
                -L/builddir/build/BUILD/glimmer3.02/lib  -L/builddir/build/BUILD/glimmer3.02/lib  -L/usr/lib  -L/usr/shlib  -L/usr/X11R6/lib  -L/lib build-fixed.o /builddir/build/BUILD/glimmer3.02/lib/libGLMcommon.a \
        -lGLMicm ; then \
		true; else rm -f /builddir/build/BUILD/glimmer3.02/bin/build-fixed; fi; \
fi ;
++++++++++++++++++++  score-fixed ++++++++++++++++++++++
if [ -z "score-fixed.o" ] ; then \
  cd /builddir/build/BUILD/glimmer3.02/obj; \
    if cc -o /builddir/build/BUILD/glimmer3.02/bin/score-fixed -g -lm \
BUILDSTDERR:                 -L/builddir/build/BUILD/glimmer3make[1]: warning: jobserver unavailable: using -j1.  Add '+' to parent make rule.
BUILDSTDERR: make[1]: warning: jobserver unavailable: using -j1.  Add '+' to parent make rule.
BUILDSTDERR: <command-line>: warning: "__cplusplus" redefined
BUILDSTDERR: <built-in>: note: this is the location of the previous definition
BUILDSTDERR: anomaly.cc: In function 'int main(int, char**)':
BUILDSTDERR: anomaly.cc:82:27: warning: suggest parentheses around '&&' within '||' [-Wparentheses]
BUILDSTDERR:    82 |          if  (Start < End && End - Start <= Len / 2 || Start - End > Len / 2)
BUILDSTDERR:       |               ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~
.02/lib  -L/builddir/build/BUILD/glimmer3.02/lib  -L/usr/lib  -L/usr/shlib  -L/usr/X11R6/lib  -L/lib score-fixed.o /builddir/build/BUILD/glimmer3.02/lib/libGLMcommon.a \
        -lGLMicm ; then \
		true; else rm -f /builddir/build/BUILD/glimmer3.02/bin/score-fixed; fi; \
else \
  cd /builddir/build/BUILD/glimmer3.02/obj; \
    if g++ -o /builddir/build/BUILD/glimmer3.02/bin/score-fixed -g -lm \
                -L/builddir/build/BUILD/glimmer3.02/lib  -L/builddir/build/BUILD/glimmer3.02/lib  -L/usr/lib  -L/usr/shlib  -L/usr/X11R6/lib  -L/lib score-fixed.o /builddir/build/BUILD/glimmer3.02/lib/libGLMcommon.a \
        -lGLMicm ; then \
		true; else rm -f /builddir/build/BUILD/glimmer3.02/bin/score-fixed; fi; \
fi ;
make[1]: Leaving directory '/builddir/build/BUILD/glimmer3.02/src/ICM'
#####    Making Directory  /builddir/build/BUILD/glimmer3.02/src/Glimmer   all  #####
make[1]: Entering directory '/builddir/build/BUILD/glimmer3.02/src/Glimmer'
if [ -e test.cc ] ; then \
  /bin/sh -ec 'g++ -M   -I/builddir/build/BUILD/glimmer3.02/inc  -I/../SYS/inc  -I/builddir/build/BUILD/glimmer3.02/src/Common  -I/builddir/build/BUILD/glimmer3.02/src/ICM  -I/builddir/build/BUILD/glimmer3.02/src/Glimmer  -I/builddir/build/BUILD/glimmer3.02/src/Util  -I/builddir/build/BUILD/glimmer3.02/inc test.cc \
    | sed '\''s/test\\.o[ :]*/& test.d/g'\'' > test.d' ; \
        fi ;
if [ -e long-orfs.cc ] ; then \
  /bin/sh -ec 'g++ -M   -I/builddir/build/BUILD/glimmer3.02/inc  -I/../SYS/inc  -I/builddir/build/BUILD/glimmer3.02/src/Common  -I/builddir/build/BUILD/glimmer3.02/src/ICM  -I/builddir/build/BUILD/glimmer3.02/src/Glimmer  -I/builddir/build/BUILD/glimmer3.02/src/Util  -I/builddir/build/BUILD/glimmer3.02/inc long-orfs.cc \
    | sed '\''s/long-orfs\\.o[ :]*/& long-orfs.d/g'\'' > long-orfs.d' ; \
        fi ;
if [ -e glimmer3.cc ] ; then \
  /bin/sh -ec 'g++ -M   -I/builddir/build/BUILD/glimmer3.02/inc  -I/../SYS/inc  -I/builddir/build/BUILD/glimmer3.02/src/Common  -I/builddir/build/BUILD/glimmer3.02/src/ICM  -I/builddir/build/BUILD/glimmer3.02/src/Glimmer  -I/builddir/build/BUILD/glimmer3.02/src/Util  -I/builddir/build/BUILD/glimmer3.02/inc glimmer3.cc \
    | sed '\''s/glimmer3\\.o[ :]*/& glimmer3.d/g'\'' > glimmer3.d' ; \
        fi ;
if [ -e anomaly.cc ] ; then \
  /bin/sh -ec 'g++ -M   -I/builddir/build/BUILD/glimmer3.02/inc  -I/../SYS/inc  -I/builddir/build/BUILD/glimmer3.02/src/Common  -I/builddir/build/BUILD/glimmer3.02/src/ICM  -I/builddir/build/BUILD/glimmer3.02/src/Glimmer  -I/builddir/build/BUILD/glimmer3.02/src/Util  -I/builddir/build/BUILD/glimmer3.02/inc anomaly.cc \
    | sed '\''s/anomaly\\.o[ :]*/& anomaly.d/g'\'' > anomaly.d' ; \
        fi ;
@@@@@@@@@@@@@@@@@@@  anomaly.cc @@@@@@@@@@@@@@@@@@@@@
if [ -e anomaly.cc ] ; then \
  g++  -D__cplusplus -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection -c \
	 -I/builddir/build/BUILD/glimmer3.02/inc  -I/../SYS/inc  -I/builddir/build/BUILD/glimmer3.02/src/Common  -I/builddir/build/BUILD/glimmer3.02/src/ICM  -I/builddir/build/BUILD/glimmer3.02/src/Glimmer  -I/builddir/build/BUILD/glimmer3.02/src/Util  -I/builddir/build/BUILD/glimmer3.02/inc -o /builddir/build/BUILD/glimmer3.02/obj/anomaly.o anomaly.cc ; \
else \
  /cm/cmtools/bin/links.pl /builddir/build/BUILD/glimmer3.02/obj \
            " :/builddir/build/BUILD/glimmer3.02/obj" anomaly.o ; \
fi ;
@@@@@@@@@@@@@@@@@@@  glimmer3.cc @@@@@@@@@@@@@@@@@@@@@
if [ -e glimmer3.cc ] ; then \
  g++  -D__cplusplus -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection -c \
BUILDSTDERR: 	 -I/builddir/build/BUILD/glimmer3.02/inc  -I/../SYS/inc  -I/builddir/build/BUILD/glimmer3.<command-line>: warning: "__cplusplus" redefined
BUILDSTDERR: <built-in>: note: this is the location of the previous definition
BUILDSTDERR: glimmer3.cc: In function 'void Score_Orfs(std::vector<Orf_t>&, std::vector<Gene_t>&, FILE*)':
BUILDSTDERR: glimmer3.cc:2861:20: warning: variable 'max_rate' set but not used [-Wunused-but-set-variable]
BUILDSTDERR:  2861 |       double  max, max_rate;
BUILDSTDERR:       |                    ^~~~~~~~
BUILDSTDERR: glimmer3.cc:2867:23: warning: variable 'max_j' set but not used [-Wunused-but-set-variable]
BUILDSTDERR:  2867 |       int  fr, frame, max_j, orf_start, frame_score;
BUILDSTDERR:       |                       ^~~~~
BUILDSTDERR: glimmer3.cc: In function 'void Read_Entropy_Profiles(const char*, bool&)':
BUILDSTDERR: glimmer3.cc:2608:10: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result]
BUILDSTDERR:  2608 |    fgets (line, MAX_LINE, fp);  // skip header line
BUILDSTDERR:       |    ~~~~~~^~~~~~~~~~~~~~~~~~~~
BUILDSTDERR: glimmer3.cc: In function 'void Score_Orfs(std::vector<Orf_t>&, std::vector<Gene_t>&, FILE*)':
BUILDSTDERR: glimmer3.cc:3010:26: warning: 'first_score' may be used uninitialized in this function [-Wmaybe-uninitialized]
BUILDSTDERR:  3010 |       gene_score = 100.0 * best_score / (best_j - 2);
BUILDSTDERR:       |                    ~~~~~~^~~~~~~~~~~~
BUILDSTDERR: glimmer3.cc: In function 'int main(int, char**)':
BUILDSTDERR: glimmer3.cc:3441:32: warning: 'rev_start' may be used uninitialized in this function [-Wmaybe-uninitialized]
BUILDSTDERR:  3441 |            gene . Set_Gene_Len (rev_start - p -> pos);
BUILDSTDERR:       |            ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~
BUILDSTDERR: glimmer3.cc:3412:21: note: 'rev_start' was declared here
BUILDSTDERR:  3412 |    int  f, i, j, n, rev_start;
BUILDSTDERR:       |                     ^~~~~~~~~
BUILDSTDERR: glimmer3.cc:3442:29: warning: 'prev_score' may be used uninitialized in this function [-Wmaybe-uninitialized]
BUILDSTDERR:  3442 |            gene . Set_Score (prev_score - p -> score);
BUILDSTDERR:       |            ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~
BUILDSTDERR: glimmer3.cc:3411:12: note: 'prev_score' was declared here
BUILDSTDERR:  3411 |    double  prev_score;
BUILDSTDERR:       |            ^~~~~~~~~~
BUILDSTDERR: glimmer3.cc:940:43: warning: 'orf_stop' may be used uninitialized in this function [-Wmaybe-uninitialized]
BUILDSTDERR:   940 |                      orf . Set_Orf_Len (i - orf_stop - 4);
BUILDSTDERR:       |                                         ~~^~~~~~~~~~
BUILDSTDERR: glimmer3.cc:907:24: note: 'orf_stop' was declared here
BUILDSTDERR:   907 |            int  which, orf_stop;
BUILDSTDERR:       |                        ^~~~~~~~
BUILDSTDERR: glimmer3.cc:896:12: warning: 'ignore_ct' may be used uninitialized in this function [-Wmaybe-uninitialized]
BUILDSTDERR:   896 |            if  (ignore_sub >= ignore_ct)
BUILDSTDERR:       |            ^~
BUILDSTDERR: glimmer3.cc:830:9: note: 'ignore_ct' was declared here
BUILDSTDERR:   830 |    int  ignore_ct;
BUILDSTDERR:       |         ^~~~~~~~~
BUILDSTDERR: <command-line>: warning: "__cplusplus" redefined
BUILDSTDERR: <built-in>: note: this is the location of the previous definition
BUILDSTDERR: long-orfs.cc: In function 'void Find_Orfs(std::vector<Orf_t>&)':
BUILDSTDERR: long-orfs.cc:585:9: warning: variable 'first_fwd_stop' set but not used [-Wunused-but-set-variable]
BUILDSTDERR:   585 |    int  first_fwd_stop [3] = {0};
BUILDSTDERR:       |         ^~~~~~~~~~~~~~
BUILDSTDERR: long-orfs.cc: In function 'void Read_Entropy_Profiles(const char*, bool&)':
BUILDSTDERR: long-orfs.cc:1317:10: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result]
BUILDSTDERR:  1317 |    fgets (line, MAX_LINE, fp);  // skip header line
BUILDSTDERR:       |    ~~~~~~^~~~~~~~~~~~~~~~~~~~
BUILDSTDERR: long-orfs.cc: In function 'int main(int, char**)':
BUILDSTDERR: long-orfs.cc:655:12: warning: 'ignore_ct' may be used uninitialized in this function [-Wmaybe-uninitialized]
BUILDSTDERR:   655 |            if  (ignore_sub >= ignore_ct)
BUILDSTDERR:       |            ^~
BUILDSTDERR: long-orfs.cc:590:9: note: 'ignore_ct' was declared here
BUILDSTDERR:   590 |    int  ignore_ct;
BUILDSTDERR:       |         ^~~~~~~~~
BUILDSTDERR: <command-line>: warning: "__cplusplus" redefined
BUILDSTDERR: <built-in>: note: this is the location of the previous definition
02/src/Common  -I/builddir/build/BUILD/glimmer3.02/src/ICM  -I/builddir/build/BUILD/glimmer3.02/src/Glimmer  -I/builddir/build/BUILD/glimmer3.02/src/Util  -I/builddir/build/BUILD/glimmer3.02/inc -o /builddir/build/BUILD/glimmer3.02/obj/glimmer3.o glimmer3.cc ; \
else \
  /cm/cmtools/bin/links.pl /builddir/build/BUILD/glimmer3.02/obj \
            " :/builddir/build/BUILD/glimmer3.02/obj" glimmer3.o ; \
fi ;
@@@@@@@@@@@@@@@@@@@  long-orfs.cc @@@@@@@@@@@@@@@@@@@@@
if [ -e long-orfs.cc ] ; then \
  g++  -D__cplusplus -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection -c \
	 -I/builddir/build/BUILD/glimmer3.02/inc  -I/../SYS/inc  -I/builddir/build/BUILD/glimmer3.02/src/Common  -I/builddir/build/BUILD/glimmer3.02/src/ICM  -I/builddir/build/BUILD/glimmer3.02/src/Glimmer  -I/builddir/build/BUILD/glimmer3.02/src/Util  -I/builddir/build/BUILD/glimmer3.02/inc -o /builddir/build/BUILD/glimmer3.02/obj/long-orfs.o long-orfs.cc ; \
else \
  /cm/cmtools/bin/links.pl /builddir/build/BUILD/glimmer3.02/obj \
            " :/builddir/build/BUILD/glimmer3.02/obj" long-orfs.o ; \
fi ;
@@@@@@@@@@@@@@@@@@@  test.cc @@@@@@@@@@@@@@@@@@@@@
if [ -e test.cc ] ; then \
  g++  -D__cplusplus -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection -c \
	 -I/builddir/build/BUILD/glimmer3.02/inc  -I/../SYS/inc  -I/builddir/build/BUILD/glimmer3.02/src/Common  -I/builddir/build/BUILD/glimmer3.02/src/ICM  -I/builddir/build/BUILD/glimmer3.02/src/Glimmer  -I/builddir/build/BUILD/glimmer3.02/src/Util  -I/builddir/build/BUILD/glimmer3.02/inc -o /builddir/build/BUILD/glimmer3.02/obj/test.o test.cc ; \
else \
  /cm/cmtools/bin/links.pl /builddir/build/BUILD/glimmer3.02/obj \
            " :/builddir/build/BUILD/glimmer3.02/obj" test.o ; \
fi ;
++++++++++++++++++++  anomaly ++++++++++++++++++++++
if [ -z "anomaly.o" ] ; then \
  cd /builddir/build/BUILD/glimmer3.02/obj; \
    if cc -o /builddir/build/BUILD/glimmer3.02/bin/anomaly -g -lm \
                -L/builddir/build/BUILD/glimmer3.02/lib  -L/builddir/build/BUILD/glimmer3.02/lib  -L/usr/lib  -L/usr/shlib  -L/usr/X11R6/lib  -L/lib anomaly.o /builddir/build/BUILD/glimmer3.02/lib/libGLMcommon.a \
        ; then \
		true; else rm -f /builddir/build/BUILD/glimmer3.02/bin/anomaly; fi; \
else \
  cd /builddir/build/BUILD/glimmer3.02/obj; \
    if g++ -o /builddir/build/BUILD/glimmer3.02/bin/anomaly -g -lm \
                -L/builddir/build/BUILD/glimmer3.02/lib  -L/builddir/build/BUILD/glimmer3.02/lib  -L/usr/lib  -L/usr/shlib  -L/usr/X11R6/lib  -L/lib anomaly.o /builddir/build/BUILD/glimmer3.02/lib/libGLMcommon.a \
        ; then \
		true; else rm -f /builddir/build/BUILD/glimmer3.02/bin/anomaly; fi; \
fi ;
++++++++++++++++++++  glimmer3 ++++++++++++++++++++++
if [ -z "glimmer3.o" ] ; then \
  cd /builddir/build/BUILD/glimmer3.02/obj; \
    if cc -o /builddir/build/BUILD/glimmer3.02/bin/glimmer3 -g -lm \
                -L/builddir/build/BUILD/glimmer3.02/lib  -L/builddir/build/BUILD/glimmer3.02/lib  -L/usr/lib  -L/usr/shlib  -L/usr/X11R6/lib  -L/lib glimmer3.o /builddir/build/BUILD/glimmer3.02/lib/libGLMcommon.a /builddir/build/BUILD/glimmer3.02/lib/libGLMicm.a \
        ; then \
		true; else rm -f /builddir/build/BUILD/glimmer3.02/bin/glimmer3; fi; \
else \
  cd /builddir/build/BUILD/glimmer3.02/obj; \
    if g++ -o /builddir/build/BUILD/glimmer3.02/bin/glimmer3 -g -lm \
BUILDSTDERR:                 -L/builddir/build/BUILD/glimmer3.02/lib  -L/builddir/build/BUILD/glimmer3.02/lib  -L/usr/lib  -L/usr/shlib  -L/usr/X11R6/lib  -L/lib glimmer3.o /builddir/build/BUILD/glimmer3.02/lib/libGLMcommon.a /builddir/build/BUILD/glimmer3.02/lib/libGLMicm.amake[1]: warning: jobserver unavailable: using -j1.  Add '+' to parent make rule.
 \
        ; then \
		true; else rm -f /builddir/build/BUILD/glimmer3.02/bin/glimmer3; fi; \
fi ;
++++++++++++++++++++  long-orfs ++++++++++++++++++++++
if [ -z "long-orfs.o" ] ; then \
  cd /builddir/build/BUILD/glimmer3.02/obj; \
    if cc -o /builddir/build/BUILD/glimmer3.02/bin/long-orfs -g -lm \
                -L/builddir/build/BUILD/glimmer3.02/lib  -L/builddir/build/BUILD/glimmer3.02/lib  -L/usr/lib  -L/usr/shlib  -L/usr/X11R6/lib  -L/lib long-orfs.o /builddir/build/BUILD/glimmer3.02/lib/libGLMcommon.a \
        ; then \
		true; else rm -f /builddir/build/BUILD/glimmer3.02/bin/long-orfs; fi; \
else \
  cd /builddir/build/BUILD/glimmer3.02/obj; \
    if g++ -o /builddir/build/BUILD/glimmer3.02/bin/long-orfs -g -lm \
                -L/builddir/build/BUILD/glimmer3.02/lib  -L/builddir/build/BUILD/glimmer3.02/lib  -L/usr/lib  -L/usr/shlib  -L/usr/X11R6/lib  -L/lib long-orfs.o /builddir/build/BUILD/glimmer3.02/lib/libGLMcommon.a \
        ; then \
		true; else rm -f /builddir/build/BUILD/glimmer3.02/bin/long-orfs; fi; \
fi ;
++++++++++++++++++++  test ++++++++++++++++++++++
if [ -z "test.o" ] ; then \
  cd /builddir/build/BUILD/glimmer3.02/obj; \
    if cc -o /builddir/build/BUILD/glimmer3.02/bin/test -g -lm \
                -L/builddir/build/BUILD/glimmer3.02/lib  -L/builddir/build/BUILD/glimmer3.02/lib  -L/usr/lib  -L/usr/shlib  -L/usr/X11R6/lib  -L/lib test.o /builddir/build/BUILD/glimmer3.02/lib/libGLMcommon.a \
        ; then \
		true; else rm -f /builddir/build/BUILD/glimmer3.02/bin/test; fi; \
else \
  cd /builddir/build/BUILD/glimmer3.02/obj; \
    if g++ -o /builddir/build/BUILD/glimmer3.02/bin/test -g -lm \
                -L/builddir/build/BUILD/glimmer3.02/lib  -L/builddir/build/BUILD/glimmer3.02/lib  -L/usr/lib  -L/usr/shlib  -L/usr/X11R6/lib  -L/lib test.o /builddir/build/BUILD/glimmer3.02/lib/libGLMcommon.a \
        ; then \
		true; else rm -f /builddir/build/BUILD/glimmer3.02/bin/test; fi; \
fi ;
make[1]: Leaving directory '/builddir/build/BUILD/glimmer3.02/src/Glimmer'
#####    Making Directory  /builddir/build/BUILD/glimmer3.02/src/Util   all  #####
make[1]: Entering directory '/builddir/build/BUILD/glimmer3.02/src/Util'
if [ -e window-acgt.cc ] ; then \
  /bin/sh -ec 'g++ -M   -I/builddir/build/BUILD/glimmer3.02/inc  -I/../SYS/inc  -I/builddir/build/BUILD/glimmer3.02/src/Common  -I/builddir/build/BUILD/glimmer3.02/src/ICM  -I/builddir/build/BUILD/glimmer3.02/src/Glimmer  -I/builddir/build/BUILD/glimmer3.02/src/Util  -I/builddir/build/BUILD/glimmer3.02/inc window-acgt.cc \
    | sed '\''s/window-acgt\\.o[ :]*/& window-acgt.d/g'\'' > window-acgt.d' ; \
        fi ;
if [ -e uncovered.cc ] ; then \
  /bin/sh -ec 'g++ -M   -I/builddir/build/BUILD/glimmer3.02/inc  -I/../SYS/inc  -I/builddir/build/BUILD/glimmer3.02/src/Common  -I/builddir/build/BUILD/glimmer3.02/src/ICM  -I/builddir/build/BUILD/glimmer3.02/src/Glimmer  -I/builddir/build/BUILD/glimmer3.02/src/Util  -I/builddir/build/BUILD/glimmer3.02/inc uncovered.cc \
    | sed '\''s/uncovered\\.o[ :]*/& uncovered.d/g'\'' > uncovered.d' ; \
        fi ;
if [ -e start-codon-distrib.cc ] ; then \
  /bin/sh -ec 'g++ -M   -I/builddir/build/BUILD/glimmer3.02/inc  -I/../SYS/inc  -I/builddir/build/BUILD/glimmer3.02/src/Common  -I/builddir/build/BUILD/glimmer3.02/src/ICM  -I/builddir/build/BUILD/glimmer3.02/src/Glimmer  -I/builddir/build/BUILD/glimmer3.02/src/Util  -I/builddir/build/BUILD/glimmer3.02/inc start-codon-distrib.cc \
    | sed '\''s/start-codon-distrib\\.o[ :]*/& start-codon-distrib.d/g'\'' > start-codon-distrib.d' ; \
        fi ;
if [ -e multi-extract.cc ] ; then \
  /bin/sh -ec 'g++ -M   -I/builddir/build/BUILD/glimmer3.02/inc  -I/../SYS/inc  -I/builddir/build/BUILD/glimmer3.02/src/Common  -I/builddir/build/BUILD/glimmer3.02/src/ICM  -I/builddir/build/BUILD/glimmer3.02/src/Glimmer  -I/builddir/build/BUILD/glimmer3.02/src/Util  -I/builddir/build/BUILD/glimmer3.02/inc multi-extract.cc \
    | sed '\''s/multi-extract\\.o[ :]*/& multi-extract.d/g'\'' > multi-extract.d' ; \
        fi ;
if [ -e extract.cc ] ; then \
BUILDSTDERR:   /bin/sh -ec 'g++ -M   -I/builddirmake[1]: warning: jobserver unavailable: using -j1.  Add '+' to parent make rule.
BUILDSTDERR: <command-line>: warning: "__cplusplus" redefined
BUILDSTDERR: <built-in>: note: this is the location of the previous definition
BUILDSTDERR: <command-line>: warning: "__cplusplus" redefined
BUILDSTDERR: <built-in>: note: this is the location of the previous definition
BUILDSTDERR: entropy-score.cc: In function 'int main(int, char**)':
BUILDSTDERR: entropy-score.cc:157:7: warning: this 'if' clause does not guard... [-Wmisleading-indentation]
BUILDSTDERR:   157 |       if  (line [n - 1] == '\n');
BUILDSTDERR:       |       ^~
BUILDSTDERR: entropy-score.cc:158:11: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the 'if'
BUILDSTDERR:   158 |           line [n - 1] = '\0';
BUILDSTDERR:       |           ^~~~
BUILDSTDERR: entropy-score.cc: In function 'void Read_Entropy_Profiles(const char*, bool&)':
BUILDSTDERR: entropy-score.cc:327:10: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result]
BUILDSTDERR:   327 |    fgets (line, MAX_LINE, fp);  // skip header line
BUILDSTDERR:       |    ~~~~~~^~~~~~~~~~~~~~~~~~~~
/build/BUILD/glimmer3.02/inc  -I/../SYS/inc  -I/builddir/build/BUILD/glimmer3.02/src/Common  -I/builddir/build/BUILD/glimmer3.02/src/ICM  -I/builddir/build/BUILD/glimmer3.02/src/Glimmer  -I/builddir/build/BUILD/glimmer3.02/src/Util  -I/builddir/build/BUILD/glimmer3.02/inc extract.cc \
    | sed '\''s/extract\\.o[ :]*/& extract.d/g'\'' > extract.d' ; \
        fi ;
if [ -e entropy-score.cc ] ; then \
  /bin/sh -ec 'g++ -M   -I/builddir/build/BUILD/glimmer3.02/inc  -I/../SYS/inc  -I/builddir/build/BUILD/glimmer3.02/src/Common  -I/builddir/build/BUILD/glimmer3.02/src/ICM  -I/builddir/build/BUILD/glimmer3.02/src/Glimmer  -I/builddir/build/BUILD/glimmer3.02/src/Util  -I/builddir/build/BUILD/glimmer3.02/inc entropy-score.cc \
    | sed '\''s/entropy-score\\.o[ :]*/& entropy-score.d/g'\'' > entropy-score.d' ; \
        fi ;
if [ -e entropy-profile.cc ] ; then \
  /bin/sh -ec 'g++ -M   -I/builddir/build/BUILD/glimmer3.02/inc  -I/../SYS/inc  -I/builddir/build/BUILD/glimmer3.02/src/Common  -I/builddir/build/BUILD/glimmer3.02/src/ICM  -I/builddir/build/BUILD/glimmer3.02/src/Glimmer  -I/builddir/build/BUILD/glimmer3.02/src/Util  -I/builddir/build/BUILD/glimmer3.02/inc entropy-profile.cc \
    | sed '\''s/entropy-profile\\.o[ :]*/& entropy-profile.d/g'\'' > entropy-profile.d' ; \
        fi ;
@@@@@@@@@@@@@@@@@@@  entropy-profile.cc @@@@@@@@@@@@@@@@@@@@@
if [ -e entropy-profile.cc ] ; then \
  g++  -D__cplusplus -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection -c \
	 -I/builddir/build/BUILD/glimmer3.02/inc  -I/../SYS/inc  -I/builddir/build/BUILD/glimmer3.02/src/Common  -I/builddir/build/BUILD/glimmer3.02/src/ICM  -I/builddir/build/BUILD/glimmer3.02/src/Glimmer  -I/builddir/build/BUILD/glimmer3.02/src/Util  -I/builddir/build/BUILD/glimmer3.02/inc -o /builddir/build/BUILD/glimmer3.02/obj/entropy-profile.o entropy-profile.cc ; \
else \
  /cm/cmtools/bin/links.pl /builddir/build/BUILD/glimmer3.02/obj \
            " :/builddir/build/BUILD/glimmer3.02/obj" entropy-profile.o ; \
fi ;
@@@@@@@@@@@@@@@@@@@  entropy-score.cc @@@@@@@@@@@@@@@@@@@@@
if [ -e entropy-score.cc ] ; then \
  g++  -D__cplusplus -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection -c \
	 -I/builddir/build/BUILD/glimmer3.02/inc  -I/../SYS/inc  -I/builddir/build/BUILD/glimmer3.02/src/Common  -I/builddir/build/BUILD/glimmer3.02/src/ICM  -I/builddir/build/BUILD/glimmer3.02/src/Glimmer  -I/builddir/build/BUILD/glimmer3.02/src/Util  -I/builddir/build/BUILD/glimmer3.02/inc -o /builddir/build/BUILD/glimmer3.02/obj/entropy-score.o entropy-score.cc ; \
else \
  /cm/cmtools/bin/links.pl /builddir/build/BUILD/glimmer3.02/obj \
            " :/builddir/build/BUILD/glimmer3.02/obj" entropy-score.o ; \
fi ;
@@@@@@@@@@@@@@@@@@@  extract.cc @@@@@@@@@@@@@@@@@@@@@
if [ -e extract.cc ] ; then \
  g++  -D__cplusplus -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection -c \
	 -I/builddir/build/BUILD/glimmer3.02/inc  -I/../SYS/inc  -I/builddir/build/BUILD/glimmer3.02/src/Common  -I/builddir/build/BUILD/glimmer3.02/src/ICM  -I/builddir/build/BUILD/glimmer3.02/src/Glimmer  -I/builddir/build/BUILD/glimmer3.02/src/Util  -I/builddir/build/BUILD/glimmer3.02/inc -o /builddir/build/BUILD/glimmer3.02/obj/extract.o extract.cc ; \
else \
  /cm/cmtools/bin/links.pl /builddir/build/BUILD/glimmer3.02/obj \
            " :/builddir/build/BUILD/glimmer3.02/obj" extract.o ; \
BUILDSTDERR: fi <command-line>: warning: "__cplusplus" redefined
BUILDSTDERR: <built-in>: note: this is the location of the previous definition
BUILDSTDERR: <command-line>: warning: "__cplusplus" redefined
BUILDSTDERR: <built-in>: note: this is the location of the previous definition
BUILDSTDERR: <command-line>: warning: "__cplusplus" redefined
BUILDSTDERR: <built-in>: note: this is the location of the previous definition
BUILDSTDERR: <command-line>: warning: "__cplusplus" redefined
BUILDSTDERR: <built-in>: note: this is the location of the previous definition
BUILDSTDERR: <command-line>: warning: "__cplusplus" redefined
BUILDSTDERR: <built-in>: note: this is the location of the previous definition
;
@@@@@@@@@@@@@@@@@@@  multi-extract.cc @@@@@@@@@@@@@@@@@@@@@
if [ -e multi-extract.cc ] ; then \
  g++  -D__cplusplus -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection -c \
	 -I/builddir/build/BUILD/glimmer3.02/inc  -I/../SYS/inc  -I/builddir/build/BUILD/glimmer3.02/src/Common  -I/builddir/build/BUILD/glimmer3.02/src/ICM  -I/builddir/build/BUILD/glimmer3.02/src/Glimmer  -I/builddir/build/BUILD/glimmer3.02/src/Util  -I/builddir/build/BUILD/glimmer3.02/inc -o /builddir/build/BUILD/glimmer3.02/obj/multi-extract.o multi-extract.cc ; \
else \
  /cm/cmtools/bin/links.pl /builddir/build/BUILD/glimmer3.02/obj \
            " :/builddir/build/BUILD/glimmer3.02/obj" multi-extract.o ; \
fi ;
@@@@@@@@@@@@@@@@@@@  start-codon-distrib.cc @@@@@@@@@@@@@@@@@@@@@
if [ -e start-codon-distrib.cc ] ; then \
  g++  -D__cplusplus -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection -c \
	 -I/builddir/build/BUILD/glimmer3.02/inc  -I/../SYS/inc  -I/builddir/build/BUILD/glimmer3.02/src/Common  -I/builddir/build/BUILD/glimmer3.02/src/ICM  -I/builddir/build/BUILD/glimmer3.02/src/Glimmer  -I/builddir/build/BUILD/glimmer3.02/src/Util  -I/builddir/build/BUILD/glimmer3.02/inc -o /builddir/build/BUILD/glimmer3.02/obj/start-codon-distrib.o start-codon-distrib.cc ; \
else \
  /cm/cmtools/bin/links.pl /builddir/build/BUILD/glimmer3.02/obj \
            " :/builddir/build/BUILD/glimmer3.02/obj" start-codon-distrib.o ; \
fi ;
@@@@@@@@@@@@@@@@@@@  uncovered.cc @@@@@@@@@@@@@@@@@@@@@
if [ -e uncovered.cc ] ; then \
  g++  -D__cplusplus -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection -c \
	 -I/builddir/build/BUILD/glimmer3.02/inc  -I/../SYS/inc  -I/builddir/build/BUILD/glimmer3.02/src/Common  -I/builddir/build/BUILD/glimmer3.02/src/ICM  -I/builddir/build/BUILD/glimmer3.02/src/Glimmer  -I/builddir/build/BUILD/glimmer3.02/src/Util  -I/builddir/build/BUILD/glimmer3.02/inc -o /builddir/build/BUILD/glimmer3.02/obj/uncovered.o uncovered.cc ; \
else \
  /cm/cmtools/bin/links.pl /builddir/build/BUILD/glimmer3.02/obj \
            " :/builddir/build/BUILD/glimmer3.02/obj" uncovered.o ; \
fi ;
@@@@@@@@@@@@@@@@@@@  window-acgt.cc @@@@@@@@@@@@@@@@@@@@@
if [ -e window-acgt.cc ] ; then \
  g++  -D__cplusplus -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection -c \
	 -I/builddir/build/BUILD/glimmer3.02/inc  -I/../SYS/inc  -I/builddir/build/BUILD/glimmer3.02/src/Common  -I/builddir/build/BUILD/glimmer3.02/src/ICM  -I/builddir/build/BUILD/glimmer3.02/src/Glimmer  -I/builddir/build/BUILD/glimmer3.02/src/Util  -I/builddir/build/BUILD/glimmer3.02/inc -o /builddir/build/BUILD/glimmer3.02/obj/window-acgt.o window-acgt.cc ; \
else \
  /cm/cmtools/bin/links.pl /builddir/build/BUILD/glimmer3.02/obj \
            " :/builddir/build/BUILD/glimmer3.02/obj" window-acgt.o ; \
fi ;
++++++++++++++++++++  entropy-profile ++++++++++++++++++++++
if [ -z "entropy-profile.o" ] ; then \
  cd /builddir/build/BUILD/glimmer3.02/obj; \
    if cc -o /builddir/build/BUILD/glimmer3.02/bin/entropy-profile -g -lm \
                -L/builddir/build/BUILD/glimmer3.02/lib  -L/builddir/build/BUILD/glimmer3.02/lib  -L/usr/lib  -L/usr/shlib  -L/usr/X11R6/lib  -L/lib entropy-profile.o /builddir/build/BUILD/glimmer3.02/lib/libGLMcommon.a \
        ; then \
		true; else rm -f /builddir/build/BUILD/glimmer3.02/bin/entropy-profile; fi; \
else \
  cd /builddir/build/BUILD/glimmer3.02/obj; \
    if g++ -o /builddir/build/BUILD/glimmer3.02/bin/entropy-profile -g -lm \
                -L/builddir/build/BUILD/glimmer3.02/lib  -L/builddir/build/BUILD/glimmer3.02/lib  -L/usr/lib  -L/usr/shlib  -L/usr/X11R6/lib  -L/lib entropy-profile.o /builddir/build/BUILD/glimmer3.02/lib/libGLMcommon.a \
        ; then \
		true; else rm -f /builddir/build/BUILD/glimmer3.02/bin/entropy-profile; fi; \
fi ;
++++++++++++++++++++  entropy-score ++++++++++++++++++++++
if [ -z "entropy-score.o" ] ; then \
  cd /builddir/build/BUILD/glimmer3.02/obj; \
    if cc -o /builddir/build/BUILD/glimmer3.02/bin/entropy-score -g -lm \
                -L/builddir/build/BUILD/glimmer3.02/lib  -L/builddir/build/BUILD/glimmer3.02/lib  -L/usr/lib  -L/usr/shlib  -L/usr/X11R6/lib  -L/lib entropy-score.o /builddir/build/BUILD/glimmer3.02/lib/libGLMcommon.a \
        ; then \
		true; else rm -f /builddir/build/BUILD/glimmer3.02/bin/entropy-score; fi; \
else \
  cd /builddir/build/BUILD/glimmer3.02/obj; \
    if g++ -o /builddir/build/BUILD/glimmer3.02/bin/entropy-score -g -lm \
                -L/builddir/build/BUILD/glimmer3.02/lib  -L/builddir/build/BUILD/glimmer3.02/lib  -L/usr/lib  -L/usr/shlib  -L/usr/X11R6/lib  -L/lib entropy-score.o /builddir/build/BUILD/glimmer3.02/lib/libGLMcommon.a \
        ; then \
		true; else rm -f /builddir/build/BUILD/glimmer3.02/bin/entropy-score; fi; \
fi ;
++++++++++++++++++++  extract ++++++++++++++++++++++
if [ -z "extract.o" ] ; then \
  cd /builddir/build/BUILD/glimmer3.02/obj; \
    if cc -o /builddir/build/BUILD/glimmer3.02/bin/extract -g -lm \
                -L/builddir/build/BUILD/glimmer3.02/lib  -L/builddir/build/BUILD/glimmer3.02/lib  -L/usr/lib  -L/usr/shlib  -L/usr/X11R6/lib  -L/lib extract.o /builddir/build/BUILD/glimmer3.02/lib/libGLMcommon.a \
        ; then \
		true; else rm -f /builddir/build/BUILD/glimmer3.02/bin/extract; fi; \
else \
  cd /builddir/build/BUILD/glimmer3.02/obj; \
    if g++ -o /builddir/build/BUILD/glimmer3.02/bin/extract -g -lm \
                -L/builddir/build/BUILD/glimmer3.02/lib  -L/builddir/build/BUILD/glimmer3.02/lib  -L/usr/lib  -L/usr/shlib  -L/usr/X11R6/lib  -L/lib extract.o /builddir/build/BUILD/glimmer3.02/lib/libGLMcommon.a \
        ; then \
		true; else rm -f /builddir/build/BUILD/glimmer3.02/bin/extract; fi; \
fi ;
++++++++++++++++++++  multi-extract ++++++++++++++++++++++
if [ -z "multi-extract.o" ] ; then \
  cd /builddir/build/BUILD/glimmer3.02/obj; \
    if cc -o /builddir/build/BUILD/glimmer3.02/bin/multi-extract -g -lm \
                -L/builddir/build/BUILD/glimmer3.02/lib  -L/builddir/build/BUILD/glimmer3.02/lib  -L/usr/lib  -L/usr/shlib  -L/usr/X11R6/lib  -L/lib multi-extract.o /builddir/build/BUILD/glimmer3.02/lib/libGLMcommon.a \
        ; then \
		true; else rm -f /builddir/build/BUILD/glimmer3.02/bin/multi-extract; fi; \
else \
  cd /builddir/build/BUILD/glimmer3.02/obj; \
    if g++ -o /builddir/build/BUILD/glimmer3.02/bin/multi-extract -g -lm \
                -L/builddir/build/BUILD/glimmer3.02/lib  -L/builddir/build/BUILD/glimmer3.02/lib  -L/usr/lib  -L/usr/shlib  -L/usr/X11R6/lib  -L/lib multi-extract.o /builddir/build/BUILD/glimmer3.02/lib/libGLMcommon.a \
        ; then \
		true; else rm -f /builddir/build/BUILD/glimmer3.02/bin/multi-extract; fi; \
fi ;
++++++++++++++++++++  start-codon-distrib ++++++++++++++++++++++
if [ -z "start-codon-distrib.o" ] ; then \
  cd /builddir/build/BUILD/glimmer3.02/obj; \
    if cc -o /builddir/build/BUILD/glimmer3.02/bin/start-codon-distrib -g -lm \
                -L/builddir/build/BUILD/glimmer3.02/lib  -L/builddir/build/BUILD/glimmer3.02/lib  -L/usr/lib  -L/usr/shlib  -L/usr/X11R6/lib  -L/lib start-codon-distrib.o /builddir/build/BUILD/glimmer3.02/lib/libGLMcommon.a \
        ; then \
BUILDSTDERR: 		true; else rm -f /builddir/build/BUILD/glimmer3.02/bin/start-codon-distmake[1]: warning: jobserver unavailable: using -j1.  Add '+' to parent make rule.
BUILDSTDERR: make[1]: warning: jobserver unavailable: using -j1.  Add '+' to parent make rule.
BUILDSTDERR: make[1]: warning: jobserver unavailable: using -j1.  Add '+' to parent make rule.
BUILDSTDERR: make[1]: warning: jobserver unavailable: using -j1.  Add '+' to parent make rule.
BUILDSTDERR: make[1]: warning: jobserver unavailable: using -j1.  Add '+' to parent make rule.
BUILDSTDERR: make[1]: warning: jobserver unavailable: using -j1.  Add '+' to parent make rule.
rib; fi; \
else \
  cd /builddir/build/BUILD/glimmer3.02/obj; \
    if g++ -o /builddir/build/BUILD/glimmer3.02/bin/start-codon-distrib -g -lm \
                -L/builddir/build/BUILD/glimmer3.02/lib  -L/builddir/build/BUILD/glimmer3.02/lib  -L/usr/lib  -L/usr/shlib  -L/usr/X11R6/lib  -L/lib start-codon-distrib.o /builddir/build/BUILD/glimmer3.02/lib/libGLMcommon.a \
        ; then \
		true; else rm -f /builddir/build/BUILD/glimmer3.02/bin/start-codon-distrib; fi; \
fi ;
++++++++++++++++++++  uncovered ++++++++++++++++++++++
if [ -z "uncovered.o" ] ; then \
  cd /builddir/build/BUILD/glimmer3.02/obj; \
    if cc -o /builddir/build/BUILD/glimmer3.02/bin/uncovered -g -lm \
                -L/builddir/build/BUILD/glimmer3.02/lib  -L/builddir/build/BUILD/glimmer3.02/lib  -L/usr/lib  -L/usr/shlib  -L/usr/X11R6/lib  -L/lib uncovered.o /builddir/build/BUILD/glimmer3.02/lib/libGLMcommon.a \
        ; then \
		true; else rm -f /builddir/build/BUILD/glimmer3.02/bin/uncovered; fi; \
else \
  cd /builddir/build/BUILD/glimmer3.02/obj; \
    if g++ -o /builddir/build/BUILD/glimmer3.02/bin/uncovered -g -lm \
                -L/builddir/build/BUILD/glimmer3.02/lib  -L/builddir/build/BUILD/glimmer3.02/lib  -L/usr/lib  -L/usr/shlib  -L/usr/X11R6/lib  -L/lib uncovered.o /builddir/build/BUILD/glimmer3.02/lib/libGLMcommon.a \
        ; then \
		true; else rm -f /builddir/build/BUILD/glimmer3.02/bin/uncovered; fi; \
fi ;
++++++++++++++++++++  window-acgt ++++++++++++++++++++++
if [ -z "window-acgt.o" ] ; then \
  cd /builddir/build/BUILD/glimmer3.02/obj; \
    if cc -o /builddir/build/BUILD/glimmer3.02/bin/window-acgt -g -lm \
                -L/builddir/build/BUILD/glimmer3.02/lib  -L/builddir/build/BUILD/glimmer3.02/lib  -L/usr/lib  -L/usr/shlib  -L/usr/X11R6/lib  -L/lib window-acgt.o /builddir/build/BUILD/glimmer3.02/lib/libGLMcommon.a \
        ; then \
		true; else rm -f /builddir/build/BUILD/glimmer3.02/bin/window-acgt; fi; \
else \
  cd /builddir/build/BUILD/glimmer3.02/obj; \
    if g++ -o /builddir/build/BUILD/glimmer3.02/bin/window-acgt -g -lm \
                -L/builddir/build/BUILD/glimmer3.02/lib  -L/builddir/build/BUILD/glimmer3.02/lib  -L/usr/lib  -L/usr/shlib  -L/usr/X11R6/lib  -L/lib window-acgt.o /builddir/build/BUILD/glimmer3.02/lib/libGLMcommon.a \
        ; then \
		true; else rm -f /builddir/build/BUILD/glimmer3.02/bin/window-acgt; fi; \
fi ;
make[1]: Leaving directory '/builddir/build/BUILD/glimmer3.02/src/Util'
* Make Target is  all
#####    Making Directory  /builddir/build/BUILD/glimmer3.02/src/Common   all  #####
make[1]: Entering directory '/builddir/build/BUILD/glimmer3.02/src/Common'
make[1]: Nothing to be done for 'all'.
make[1]: Leaving directory '/builddir/build/BUILD/glimmer3.02/src/Common'
#####    Making Directory  /builddir/build/BUILD/glimmer3.02/src/ICM   all  #####
make[1]: Entering directory '/builddir/build/BUILD/glimmer3.02/src/ICM'
make[1]: Nothing to be done for 'all'.
make[1]: Leaving directory '/builddir/build/BUILD/glimmer3.02/src/ICM'
#####    Making Directory  /builddir/build/BUILD/glimmer3.02/src/Glimmer   all  #####
make[1]: Entering directory '/builddir/build/BUILD/glimmer3.02/src/Glimmer'
make[1]: Nothing to be done for 'all'.
make[1]: Leaving directory '/builddir/build/BUILD/glimmer3.02/src/Glimmer'
#####    Making Directory  /builddir/build/BUILD/glimmer3.02/src/Util   all  #####
make[1]: Entering directory '/builddir/build/BUILD/glimmer3.02/src/Util'
make[1]: Nothing to be done for 'all'.
make[1]: Leaving directory '/builddir/build/BUILD/glimmer3.02/src/Util'
* Make Target is  all
#####    Making Directory  /builddir/build/BUILD/glimmer3.02/src/Common   all  #####
make[1]: Entering directory '/builddir/build/BUILD/glimmer3.02/src/Common'
make[1]: Nothing to be done for 'all'.
make[1]: Leaving directory '/builddir/build/BUILD/glimmer3.02/src/Common'
#####    Making Directory  /builddir/build/BUILD/glimmer3.02/src/ICM   all  #####
make[1]: Entering directory '/builddir/build/BUILD/glimmer3.02/src/ICM'
make[1]: Nothing to be done for 'all'.
BUILDSTDERR: make[1]: Leaving directory '/builddir/build/BUImake[1]: warning: jobserver unavailable: using -j1.  Add '+' to parent make rule.
BUILDSTDERR: make[1]: warning: jobserver unavailable: using -j1.  Add '+' to parent make rule.
+ RPM_EC=0
BUILDSTDERR: ++ jobs -p
+ exit 0
LD/glimmer3.02/src/ICM'
#####    Making Directory  /builddir/build/BUILD/glimmer3.02/src/Glimmer   all  #####
make[1]: Entering directory '/builddir/build/BUILD/glimmer3.02/src/Glimmer'
make[1]: Nothing to be done for 'all'.
make[1]: Leaving directory '/builddir/build/BUILD/glimmer3.02/src/Glimmer'
#####    Making Directory  /builddir/build/BUILD/glimmer3.02/src/Util   all  #####
make[1]: Entering directory '/builddir/build/BUILD/glimmer3.02/src/Util'
make[1]: Nothing to be done for 'all'.
make[1]: Leaving directory '/builddir/build/BUILD/glimmer3.02/src/Util'
make: Leaving directory '/builddir/build/BUILD/glimmer3.02/src'
Executing(%install): /bin/sh -e /var/tmp/rpm-tmp.yQ8S4f
+ umask 022
+ cd /builddir/build/BUILD
+ '[' /builddir/build/BUILDROOT/glimmer-3.02b-13.fc31.riscv64 '!=' / ']'
+ rm -rf /builddir/build/BUILDROOT/glimmer-3.02b-13.fc31.riscv64
BUILDSTDERR: ++ dirname /builddir/build/BUILDROOT/glimmer-3.02b-13.fc31.riscv64
+ mkdir -p /builddir/build/BUILDROOT
+ mkdir /builddir/build/BUILDROOT/glimmer-3.02b-13.fc31.riscv64
+ cd glimmer3.02
+ rm -rf /builddir/build/BUILDROOT/glimmer-3.02b-13.fc31.riscv64
+ mkdir -p /builddir/build/BUILDROOT/glimmer-3.02b-13.fc31.riscv64/usr/libexec/glimmer3
+ mkdir -p /builddir/build/BUILDROOT/glimmer-3.02b-13.fc31.riscv64/usr/share/glimmer3
+ mkdir -p /builddir/build/BUILDROOT/glimmer-3.02b-13.fc31.riscv64/usr/bin
+ install -m 755 scripts/g3-from-scratch.csh scripts/g3-from-training.csh scripts/g3-iterated.csh /builddir/build/BUILDROOT/glimmer-3.02b-13.fc31.riscv64//usr/bin
+ install -m 755 bin/anomaly bin/build-fixed bin/build-icm bin/entropy-profile bin/entropy-score bin/extract bin/glimmer3 bin/long-orfs bin/multi-extract bin/score-fixed bin/start-codon-distrib bin/uncovered bin/window-acgt /builddir/build/BUILDROOT/glimmer-3.02b-13.fc31.riscv64/usr/libexec/glimmer3
+ install -m 755 scripts/get-motif-counts.awk scripts/glim-diff.awk scripts/match-list-col.awk scripts/not-acgt.awk scripts/upstream-coords.awk /builddir/build/BUILDROOT/glimmer-3.02b-13.fc31.riscv64/usr/share/glimmer3
+ ln -s ../libexec/glimmer3/glimmer3 /builddir/build/BUILDROOT/glimmer-3.02b-13.fc31.riscv64//usr/bin/glimmer3
+ /usr/lib/rpm/find-debuginfo.sh -j4 --strict-build-id -m -i --build-id-seed 3.02b-13.fc31 --unique-debug-suffix -3.02b-13.fc31.riscv64 --unique-debug-src-base glimmer-3.02b-13.fc31.riscv64 --run-dwz --dwz-low-mem-die-limit 10000000 --dwz-max-die-limit 50000000 -S debugsourcefiles.list /builddir/build/BUILD/glimmer3.02
BUILDSTDERR: 748 blocks
+ /usr/lib/rpm/check-buildroot
+ /usr/lib/rpm/redhat/brp-ldconfig
+ /usr/lib/rpm/brp-compress
+ /usr/lib/rpm/brp-strip-static-archive /usr/bin/strip
+ /usr/lib/rpm/brp-python-bytecompile /usr/bin/python 1 0
+ /usr/lib/rpm/brp-python-hardlink
+ /usr/lib/rpm/redhat/brp-mangle-shebangs
explicitly decompress any DWARF compressed ELF sections in /builddir/build/BUILDROOT/glimmer-3.02b-13.fc31.riscv64/usr/libexec/glimmer3/entropy-profile
explicitly decompress any DWARF compressed ELF sections in /builddir/build/BUILDROOT/glimmer-3.02b-13.fc31.riscv64/usr/libexec/glimmer3/anomaly
explicitly decompress any DWARF compressed ELF sections in /builddir/build/BUILDROOT/glimmer-3.02b-13.fc31.riscv64/usr/libexec/glimmer3/build-fixed
explicitly decompress any DWARF compressed ELF sections in /builddir/build/BUILDROOT/glimmer-3.02b-13.fc31.riscv64/usr/libexec/glimmer3/build-icm
extracting debug info from /builddir/build/BUILDROOT/glimmer-3.02b-13.fc31.riscv64/usr/libexec/glimmer3/entropy-profile
extracting debug info from /builddir/build/BUILDROOT/glimmer-3.02b-13.fc31.riscv64/usr/libexec/glimmer3/anomaly
extracting debug info from /builddir/build/BUILDROOT/glimmer-3.02b-13.fc31.riscv64/usr/libexec/glimmer3/build-fixed
extracting debug info from /builddir/build/BUILDROOT/glimmer-3.02b-13.fc31.riscv64/usr/libexec/glimmer3/build-icm
explicitly decompress any DWARF compressed ELF sections in /builddir/build/BUILDROOT/glimmer-3.02b-13.fc31.riscv64/usr/libexec/glimmer3/entropy-score
explicitly decompress any DWARF compressed ELF sections in /builddir/build/BUILDROOT/glimmer-3.02b-13.fc31.riscv64/usr/libexec/glimmer3/extract
extracting debug info from /builddir/build/BUILDROOT/glimmer-3.02b-13.fc31.riscv64/usr/libexec/glimmer3/entropy-score
extracting debug info from /builddir/build/BUILDROOT/glimmer-3.02b-13.fc31.riscv64/usr/libexec/glimmer3/extract
explicitly decompress any DWARF compressed ELF sections in /builddir/build/BUILDROOT/glimmer-3.02b-13.fc31.riscv64/usr/libexec/glimmer3/glimmer3
explicitly decompress any DWARF compressed ELF sections in /builddir/build/BUILDROOT/glimmer-3.02b-13.fc31.riscv64/usr/libexec/glimmer3/long-orfs
extracting debug info from /builddir/build/BUILDROOT/glimmer-3.02b-13.fc31.riscv64/usr/libexec/glimmer3/glimmer3
extracting debug info from /builddir/build/BUILDROOT/glimmer-3.02b-13.fc31.riscv64/usr/libexec/glimmer3/long-orfs
explicitly decompress any DWARF compressed ELF sections in /builddir/build/BUILDROOT/glimmer-3.02b-13.fc31.riscv64/usr/libexec/glimmer3/multi-extract
extracting debug info from /builddir/build/BUILDROOT/glimmer-3.02b-13.fc31.riscv64/usr/libexec/glimmer3/multi-extract
explicitly decompress any DWARF compressed ELF sections in /builddir/build/BUILDROOT/glimmer-3.02b-13.fc31.riscv64/usr/libexec/glimmer3/score-fixed
extracting debug info from /builddir/build/BUILDROOT/glimmer-3.02b-13.fc31.riscv64/usr/libexec/glimmer3/score-fixed
explicitly decompress any DWARF compressed ELF sections in /builddir/build/BUILDROOT/glimmer-3.02b-13.fc31.riscv64/usr/libexec/glimmer3/start-codon-distrib
extracting debug info from /builddir/build/BUILDROOT/glimmer-3.02b-13.fc31.riscv64/usr/libexec/glimmer3/start-codon-distrib
explicitly decompress any DWARF compressed ELF sections in /builddir/build/BUILDROOT/glimmer-3.02b-13.fc31.riscv64/usr/libexec/glimmer3/uncovered
extracting debug info from /builddir/build/BUILDROOT/glimmer-3.02b-13.fc31.riscv64/usr/libexec/glimmer3/uncovered
explicitly decompress any DWARF compressed ELF sections in /builddir/build/BUILDROOT/glimmer-3.02b-13.fc31.riscv64/usr/libexec/glimmer3/window-acgt
extracting debug info from /builddir/build/BUILDROOT/glimmer-3.02b-13.fc31.riscv64/usr/libexec/glimmer3/window-acgt
original debug info size: 7436kB, size after compression: 5216kB
/usr/lib/rpm/sepdebugcrcfix: Updated 13 CRC32s, 0 CRC32s did match.
mangling shebang in /usr/bin/g3-from-scratch.csh from /bin/csh to #!/usr/bin/csh
mangling shebang in /usr/bin/g3-from-training.csh from /bin/csh to #!/usr/bin/csh
mangling shebang in /usr/bin/g3-iterated.csh from /bin/csh to #!/usr/bin/csh
mangling shebang in /usr/share/glimmer3/match-list-col.awk from /bin/awk -f to #!/usr/bin/awk -f
mangling shebang in /usr/share/glimmer3/get-motif-counts.awk from /bin/awk -f to #!/usr/bin/awk -f
mangling shebang in /usr/share/glimmer3/not-acgt.awk from /bin/awk -f to #!/usr/bin/awk -f
mangling shebang in /usr/share/glimmer3/glim-diff.awk from /bin/awk -f to #!/usr/bin/awk -f
mangling shebang in /usr/share/glimmer3/upstream-coords.awk from /bin/awk -f to #!/usr/bin/awk -f
Executing(%check): /bin/sh -e /var/tmp/rpm-tmp.mSWDWh
Processing files: glimmer-3.02b-13.fc31.riscv64
Executing(%doc): /bin/sh -e /var/tmp/rpm-tmp.Z4R6Ti
+ umask 022
+ cd /builddir/build/BUILD
+ cd glimmer3.02
+ DOCDIR=/builddir/build/BUILDROOT/glimmer-3.02b-13.fc31.riscv64/usr/share/doc/glimmer
+ export LC_ALL=C
+ LC_ALL=C
+ export DOCDIR
+ /usr/bin/mkdir -p /builddir/build/BUILDROOT/glimmer-3.02b-13.fc31.riscv64/usr/share/doc/glimmer
+ cp -pr LICENSE /builddir/build/BUILDROOT/glimmer-3.02b-13.fc31.riscv64/usr/share/doc/glimmer
+ cp -pr glim302notes.pdf /builddir/build/BUILDROOT/glimmer-3.02b-13.fc31.riscv64/usr/share/doc/glimmer
+ cp -pr sample-run /builddir/build/BUILDROOT/glimmer-3.02b-13.fc31.riscv64/usr/share/doc/glimmer
+ RPM_EC=0
BUILDSTDERR: ++ jobs -p
+ exit 0
Provides: glimmer = 3.02b-13.fc31 glimmer(riscv-64) = 3.02b-13.fc31
Requires(rpmlib): rpmlib(CompressedFileNames) <= 3.0.4-1 rpmlib(FileDigests) <= 4.6.0-1 rpmlib(PayloadFilesHavePrefix) <= 4.0-1
Requires: /usr/bin/awk /usr/bin/csh ld-linux-riscv64-lp64d.so.1()(64bit) ld-linux-riscv64-lp64d.so.1(GLIBC_2.27)(64bit) libc.so.6()(64bit) libc.so.6(GLIBC_2.27)(64bit) libgcc_s.so.1()(64bit) libgcc_s.so.1(GCC_3.0)(64bit) libgcc_s.so.1(GCC_3.4)(64bit) libm.so.6()(64bit) libm.so.6(GLIBC_2.27)(64bit) libstdc++.so.6()(64bit) libstdc++.so.6(CXXABI_1.3)(64bit) libstdc++.so.6(CXXABI_1.3.8)(64bit) libstdc++.so.6(CXXABI_1.3.9)(64bit) libstdc++.so.6(GLIBCXX_3.4)(64bit) libstdc++.so.6(GLIBCXX_3.4.11)(64bit) libstdc++.so.6(GLIBCXX_3.4.9)(64bit) rtld(GNU_HASH)
Processing files: glimmer-debugsource-3.02b-13.fc31.riscv64
Provides: glimmer-debugsource = 3.02b-13.fc31 glimmer-debugsource(riscv-64) = 3.02b-13.fc31
Requires(rpmlib): rpmlib(CompressedFileNames) <= 3.0.4-1 rpmlib(FileDigests) <= 4.6.0-1 rpmlib(PayloadFilesHavePrefix) <= 4.0-1
Processing files: glimmer-debuginfo-3.02b-13.fc31.riscv64
Provides: debuginfo(build-id) = 0008ad541a2d2a09f04d3d068ccecc472f6516b1 debuginfo(build-id) = 035b7d83783e927bf472b02bf8dbef2373257d7d debuginfo(build-id) = 04691d0a80ec3e1c8cea6d0917f3ec8027385c59 debuginfo(build-id) = 13a2a4dba6d74a494994062dad757b005dd4b3b4 debuginfo(build-id) = 18b2f66c8242bb59fa50d3323e328f5c7ee91be1 debuginfo(build-id) = 4cbd82c180f2da7f246e654ecd9843fe982b41d4 debuginfo(build-id) = 5609b22d631a2c1b5867969207773413e628f7bf debuginfo(build-id) = 7056a104f5a2eacd299c367f141aa5bcd87d95a6 debuginfo(build-id) = 790591158862653bd33d5acc522de9023aefdc57 debuginfo(build-id) = b38c98717095cd1067150c2e5e4e524cb2e171b8 debuginfo(build-id) = d252acd3087fbca3e54748f7a1152526218610e3 debuginfo(build-id) = daec95221c787b57e174a5e658a765928186ae6d debuginfo(build-id) = db51c62317c979d696c79a9e1700425d4d168974 glimmer-debuginfo = 3.02b-13.fc31 glimmer-debuginfo(riscv-64) = 3.02b-13.fc31
Requires(rpmlib): rpmlib(CompressedFileNames) <= 3.0.4-1 rpmlib(FileDigests) <= 4.6.0-1 rpmlib(PayloadFilesHavePrefix) <= 4.0-1
Recommends: glimmer-debugsource(riscv-64) = 3.02b-13.fc31
Checking for unpackaged file(s): /usr/lib/rpm/check-files /builddir/build/BUILDROOT/glimmer-3.02b-13.fc31.riscv64
Wrote: /builddir/build/RPMS/glimmer-debugsource-3.02b-13.fc31.riscv64.rpm
Wrote: /builddir/build/RPMS/glimmer-debuginfo-3.02b-13.fc31.riscv64.rpm
Wrote: /builddir/build/RPMS/glimmer-3.02b-13.fc31.riscv64.rpm
Executing(%clean): /bin/sh -e /var/tmp/rpm-tmp.NGyQ6f
+ umask 022
+ cd /builddir/build/BUILD
+ cd glimmer3.02
+ /usr/bin/rm -rf /builddir/build/BUILDROOT/glimmer-3.02b-13.fc31.riscv64
+ RPM_EC=0
BUILDSTDERR: ++ jobs -p
+ exit 0
Child return code was: 0