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/R-IRanges.spec'], chrootPath='/var/lib/mock/f31-build-108218-33759/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=986gid=135user='mockbuild'nspawn_args=[]unshare_net=TrueprintOutput=False) Executing command: ['bash', '--login', '-c', '/usr/bin/rpmbuild -bs --target riscv64 --nodeps /builddir/build/SPECS/R-IRanges.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=1565568000 Wrote: /builddir/build/SRPMS/R-IRanges-2.16.0-3.fc31.src.rpm Child return code was: 0 ENTER ['do'](['bash', '--login', '-c', '/usr/bin/rpmbuild -bb --target riscv64 --nodeps /builddir/build/SPECS/R-IRanges.spec'], chrootPath='/var/lib/mock/f31-build-108218-33759/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=986gid=135user='mockbuild'nspawn_args=[]unshare_net=TrueprintOutput=False) Executing command: ['bash', '--login', '-c', '/usr/bin/rpmbuild -bb --target riscv64 --nodeps /builddir/build/SPECS/R-IRanges.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=1565568000 Executing(%prep): /bin/sh -e /var/tmp/rpm-tmp.UXpx3H + umask 022 + cd /builddir/build/BUILD + cd /builddir/build/BUILD + rm -rf IRanges + /usr/bin/mkdir -p IRanges + cd IRanges + /usr/bin/gzip -dc /builddir/build/SOURCES/IRanges_2.16.0.tar.gz + /usr/bin/tar -xof - + STATUS=0 + '[' 0 -ne 0 ']' + /usr/bin/chmod -Rf a+rX,u+w,g-w,o-w . + RPM_EC=0 BUILDSTDERR: ++ jobs -p + exit 0 Executing(%build): /bin/sh -e /var/tmp/rpm-tmp.9uBgPF + umask 022 + cd /builddir/build/BUILD + cd IRanges + RPM_EC=0 BUILDSTDERR: ++ jobs -p + exit 0 Executing(%install): /bin/sh -e /var/tmp/rpm-tmp.4ZZwZG + umask 022 + cd /builddir/build/BUILD + '[' /builddir/build/BUILDROOT/R-IRanges-2.16.0-3.fc31.riscv64 '!=' / ']' + rm -rf /builddir/build/BUILDROOT/R-IRanges-2.16.0-3.fc31.riscv64 BUILDSTDERR: ++ dirname /builddir/build/BUILDROOT/R-IRanges-2.16.0-3.fc31.riscv64 + mkdir -p /builddir/build/BUILDROOT + mkdir /builddir/build/BUILDROOT/R-IRanges-2.16.0-3.fc31.riscv64 + cd IRanges + rm -rf /builddir/build/BUILDROOT/R-IRanges-2.16.0-3.fc31.riscv64 + mkdir -p /builddir/build/BUILDROOT/R-IRanges-2.16.0-3.fc31.riscv64/usr/lib64/R/library + R CMD INSTALL IRanges -l /builddir/build/BUILDROOT/R-IRanges-2.16.0-3.fc31.riscv64/usr/lib64/R/library BUILDSTDERR: * installing *source* package 'IRanges' ... BUILDSTDERR: ** using staged installation BUILDSTDERR: ** libs BUILDSTDERR: NCList.c:1173:13: warning: 'NCList_get_y_overlaps_rec' defined but not used [-Wunused-function] BUILDSTDERR: 1173 | static void NCList_get_y_overlaps_rec(const NCList *x_nclist, BUILDSTDERR: | ^~~~~~~~~~~~~~~~~~~~~~~~~ BUILDSTDERR: NCList.c:202:22: warning: 'next_top_down' defined but not used [-Wunused-function] BUILDSTDERR: 202 | static const NCList *next_top_down(const NCList *nclist) BUILDSTDERR: | ^~~~~~~~~~~~~ BUILDSTDERR: NCList.c: In function 'NCListAsINTSXP_print': BUILDSTDERR: NCList.c:674:23: warning: '%d' directive writing between 1 and 11 bytes into a region of size 8 [-Wformat-overflow=] BUILDSTDERR: 674 | sprintf(format, "%c0%d%c", '%', max_digits, 'd'); BUILDSTDERR: | ^~ BUILDSTDERR: NCList.c:674:19: note: directive argument in the range [-2147483647, 2147483647] BUILDSTDERR: 674 | sprintf(format, "%c0%d%c", '%', max_digits, 'd'); BUILDSTDERR: | ^~~~~~~~~ BUILDSTDERR: In file included from /usr/include/stdio.h:867, BUILDSTDERR: from /usr/include/R/Rinternals.h:39, BUILDSTDERR: from /usr/include/R/Rdefines.h:40, BUILDSTDERR: from /usr/lib64/R/library/S4Vectors/include/S4Vectors_defines.h:18, BUILDSTDERR: from ../inst/include/IRanges_defines.h:18, BUILDSTDERR: from IRanges.h:1, BUILDSTDERR: from NCList.c:5: BUILDSTDERR: /usr/include/bits/stdio2.h:36:10: note: '__builtin___sprintf_chk' output between 5 and 15 bytes into a destination of size 10 BUILDSTDERR: 36 | return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1, BUILDSTDERR: | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ BUILDSTDERR: 37 | __bos (__s), __fmt, __va_arg_pack ()); BUILDSTDERR: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ gcc -I"/usr/include/R" -DNDEBUG -I"/usr/lib64/R/library/S4Vectors/include" -I/usr/local/include -fpic -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 CompressedAtomicList_utils.c -o CompressedAtomicList_utils.o gcc -I"/usr/include/R" -DNDEBUG -I"/usr/lib64/R/library/S4Vectors/include" -I/usr/local/include -fpic -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 CompressedIRangesList_class.c -o CompressedIRangesList_class.o gcc -I"/usr/include/R" -DNDEBUG -I"/usr/lib64/R/library/S4Vectors/include" -I/usr/local/include -fpic -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 CompressedList_class.c -o CompressedList_class.o gcc -I"/usr/include/R" -DNDEBUG -I"/usr/lib64/R/library/S4Vectors/include" -I/usr/local/include -fpic -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 Grouping_class.c -o Grouping_class.o gcc -I"/usr/include/R" -DNDEBUG -I"/usr/lib64/R/library/S4Vectors/include" -I/usr/local/include -fpic -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 IPosRanges_comparison.c -o IPosRanges_comparison.o gcc -I"/usr/include/R" -DNDEBUG -I"/usr/lib64/R/library/S4Vectors/include" -I/usr/local/include -fpic -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 IRanges_class.c -o IRanges_class.o gcc -I"/usr/include/R" -DNDEBUG -I"/usr/lib64/R/library/S4Vectors/include" -I/usr/local/include -fpic -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 IRanges_constructor.c -o IRanges_constructor.o gcc -I"/usr/include/R" -DNDEBUG -I"/usr/lib64/R/library/S4Vectors/include" -I/usr/local/include -fpic -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 NCList.c -o NCList.o gcc -I"/usr/include/R" -DNDEBUG -I"/usr/lib64/R/library/S4Vectors/include" -I/usr/local/include -fpic -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 R_init_IRanges.c -o R_init_IRanges.o BUILDSTDERR: gcc -I"/usr/incoverage_methods.c: In function 'compute_coverage_from_IRanges_holder': BUILDSTDERR: coverage_methods.c:503:28: warning: 'x_end' may be used uninitialized in this function [-Wmaybe-uninitialized] BUILDSTDERR: 503 | if (*out_ranges_are_tiles && x_end != cvg_len) BUILDSTDERR: | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~ BUILDSTDERR: coverage_methods.c:419:21: note: 'x_end' was declared here BUILDSTDERR: 419 | i, j, x_start, x_end, shift_elt, tmp; BUILDSTDERR: | ^~~~~ BUILDSTDERR: extractListFragments.c: In function 'find_partition_overlaps': BUILDSTDERR: extractListFragments.c:66:5: warning: 'split_partitions_buf' may be used uninitialized in this function [-Wmaybe-uninitialized] BUILDSTDERR: 66 | IntAE_insert_at(split_partitions_buf, BUILDSTDERR: | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ BUILDSTDERR: 67 | IntAE_get_nelt(split_partitions_buf), BUILDSTDERR: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ BUILDSTDERR: 68 | q_prev_end); BUILDSTDERR: | ~~~~~~~~~~~ BUILDSTDERR: installing to /builddir/build/BUILDROOT/R-IRanges-2.16.0-3.fc31.riscv64/usr/lib64/R/library/00LOCK-IRanges/00new/IRanges/libs BUILDSTDERR: ** R BUILDSTDERR: ** inst BUILDSTDERR: ** byte-compile and prepare package for lazy loading clude/R" -DNDEBUG -I"/usr/lib64/R/library/S4Vectors/include" -I/usr/local/include -fpic -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 Ranges_class.c -o Ranges_class.o gcc -I"/usr/include/R" -DNDEBUG -I"/usr/lib64/R/library/S4Vectors/include" -I/usr/local/include -fpic -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 RleViews_utils.c -o RleViews_utils.o gcc -I"/usr/include/R" -DNDEBUG -I"/usr/lib64/R/library/S4Vectors/include" -I/usr/local/include -fpic -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 S4Vectors_stubs.c -o S4Vectors_stubs.o gcc -I"/usr/include/R" -DNDEBUG -I"/usr/lib64/R/library/S4Vectors/include" -I/usr/local/include -fpic -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 SimpleIRangesList_class.c -o SimpleIRangesList_class.o gcc -I"/usr/include/R" -DNDEBUG -I"/usr/lib64/R/library/S4Vectors/include" -I/usr/local/include -fpic -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 coverage_methods.c -o coverage_methods.o gcc -I"/usr/include/R" -DNDEBUG -I"/usr/lib64/R/library/S4Vectors/include" -I/usr/local/include -fpic -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 extractListFragments.c -o extractListFragments.o gcc -I"/usr/include/R" -DNDEBUG -I"/usr/lib64/R/library/S4Vectors/include" -I/usr/local/include -fpic -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 inter_range_methods.c -o inter_range_methods.o gcc -shared -L/usr/lib64/R/lib -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -o IRanges.so CompressedAtomicList_utils.o CompressedIRangesList_class.o CompressedList_class.o Grouping_class.o IPosRanges_comparison.o IRanges_class.o IRanges_constructor.o NCList.o R_init_IRanges.o Ranges_class.o RleViews_utils.o S4Vectors_stubs.o SimpleIRangesList_class.o coverage_methods.o extractListFragments.o inter_range_methods.o -L/usr/lib64/R/lib -lR Creating a generic function for 'drop' from package 'base' in package 'IRanges' Creating a generic function for 'runmed' from package 'stats' in package 'IRanges' Creating a generic function for 'smoothEnds' from package 'stats' in package 'IRanges' Creating a generic function for 'chartr' from package 'base' in package 'IRanges' Creating a generic function for 'tolower' from package 'base' in package 'IRanges' BUILDSTDERR: Creating a generic function for 'toupper' from pac** help BUILDSTDERR: *** installing help indices BUILDSTDERR: finding HTML links ... done BUILDSTDERR: finding level-2 HTML links ... done kage 'base' in package 'IRanges' Creating a generic function for 'sub' from package 'base' in package 'IRanges' Creating a generic function for 'gsub' from package 'base' in package 'IRanges' converting help for package 'IRanges' AtomicList-class html Rd warning: /builddir/build/BUILD/IRanges/IRanges/man/AtomicList-class.Rd:307: file link 'List' in package 'S4Vectors' does not exist and so has been treated as a topic AtomicList-utils html CompressedHitsList-class html CompressedList-class html Rd warning: /builddir/build/BUILD/IRanges/IRanges/man/CompressedList-class.Rd:38: file link 'SimpleList' in package 'S4Vectors' does not exist and so has been treated as a topic Rd warning: /builddir/build/BUILD/IRanges/IRanges/man/CompressedList-class.Rd:39: file link 'List' in package 'S4Vectors' does not exist and so has been treated as a topic Rd warning: /builddir/build/BUILD/IRanges/IRanges/man/CompressedList-class.Rd:44: file link 'SimpleList' in package 'S4Vectors' does not exist and so has been treated as a topic Rd warning: /builddir/build/BUILD/IRanges/IRanges/man/CompressedList-class.Rd:60: file link 'SimpleList' in package 'S4Vectors' does not exist and so has been treated as a topic Rd warning: /builddir/build/BUILD/IRanges/IRanges/man/CompressedList-class.Rd:66: file link 'SimpleList' in package 'S4Vectors' does not exist and so has been treated as a topic Rd warning: /builddir/build/BUILD/IRanges/IRanges/man/CompressedList-class.Rd:81: file link 'List' in package 'S4Vectors' does not exist and so has been treated as a topic Rd warning: /builddir/build/BUILD/IRanges/IRanges/man/CompressedList-class.Rd:84: file link 'SimpleList' in package 'S4Vectors' does not exist and so has been treated as a topic Rd warning: /builddir/build/BUILD/IRanges/IRanges/man/CompressedList-class.Rd:87: file link 'List' in package 'S4Vectors' does not exist and so has been treated as a topic Rd warning: /builddir/build/BUILD/IRanges/IRanges/man/CompressedList-class.Rd:89: file link 'SimpleList' in package 'S4Vectors' does not exist and so has been treated as a topic Rd warning: /builddir/build/BUILD/IRanges/IRanges/man/CompressedList-class.Rd:95: file link 'List' in package 'S4Vectors' does not exist and so has been treated as a topic Rd warning: /builddir/build/BUILD/IRanges/IRanges/man/CompressedList-class.Rd:100: file link 'List' in package 'S4Vectors' does not exist and so has been treated as a topic Rd warning: /builddir/build/BUILD/IRanges/IRanges/man/CompressedList-class.Rd:105: file link 'List' in package 'S4Vectors' does not exist and so has been treated as a topic Rd warning: /builddir/build/BUILD/IRanges/IRanges/man/CompressedList-class.Rd:110: file link 'List' in package 'S4Vectors' does not exist and so has been treated as a topic Rd warning: /builddir/build/BUILD/IRanges/IRanges/man/CompressedList-class.Rd:118: file link 'classNameForDisplay' in package 'S4Vectors' does not exist and so has been treated as a topic Rd warning: /builddir/build/BUILD/IRanges/IRanges/man/CompressedList-class.Rd:124: file link 'List' in package 'S4Vectors' does not exist and so has been treated as a topic Rd warning: /builddir/build/BUILD/IRanges/IRanges/man/CompressedList-class.Rd:127: file link 'SimpleList' in package 'S4Vectors' does not exist and so has been treated as a topic DataFrame-utils html DataFrameList-class html Grouping-class html Hits-class-leftovers html Rd warning: /builddir/build/BUILD/IRanges/IRanges/man/Hits-class-leftovers.Rd:31: file link 'Hits' in package 'S4Vectors' does not exist and so has been treated as a topic Rd warning: /builddir/build/BUILD/IRanges/IRanges/man/Hits-class-leftovers.Rd:68: file link 'Hits' in package 'S4Vectors' does not exist and so has been treated as a topic IPos-class html Rd warning: /builddir/build/BUILD/IRanges/IRanges/man/IPos-class.Rd:96: file link 'c' in package 'S4Vectors' does not exist and so has been treated as a topic Rd warning: /builddir/build/BUILD/IRanges/IRanges/man/IPos-class.Rd:106: file link 'Vector' in package 'S4Vectors' does not exist and so has been treated as a topic IPosRanges-class html Rd warning: /builddir/build/BUILD/IRanges/IRanges/man/IPosRanges-class.Rd:200: file link 'c' in package 'S4Vectors' does not exist and so has been treated as a topic Rd warning: /builddir/build/BUILD/IRanges/IRanges/man/IPosRanges-class.Rd:225: file link 'Hits' in package 'S4Vectors' does not exist and so has been treated as a topic IPosRanges-comparison html IRanges-class html Rd warning: /builddir/build/BUILD/IRanges/IRanges/man/IRanges-class.Rd:97: file link 'c' in package 'S4Vectors' does not exist and so has been treated as a topic IRanges-constructor html IRanges-internals html IRanges-utils html IRangesList-class html IntegerRanges-class html IntegerRangesList-class html List-class-leftovers html Rd warning: /builddir/build/BUILD/IRanges/IRanges/man/List-class-leftovers.Rd:11: file link 'List' in package 'S4Vectors' does not exist and so has been treated as a topic Rd warning: /builddir/build/BUILD/IRanges/IRanges/man/List-class-leftovers.Rd:35: file link 'List' in package 'S4Vectors' does not exist and so has been treated as a topic MaskCollection-class html NCList-class html RangedData-class html RangedSelection-class html Rle-class-leftovers html Rd warning: /builddir/build/BUILD/IRanges/IRanges/man/Rle-class-leftovers.Rd:22: file link 'Rle' in package 'S4Vectors' does not exist and so has been treated as a topic Rd warning: /builddir/build/BUILD/IRanges/IRanges/man/Rle-class-leftovers.Rd:71: file link 'Rle' in package 'S4Vectors' does not exist and so has been treated as a topic RleViews-class html RleViewsList-class html Vector-class-leftovers html Rd warning: /builddir/build/BUILD/IRanges/IRanges/man/Vector-class-leftovers.Rd:29: file link 'Vector' in package 'S4Vectors' does not exist and so has been treated as a topic Rd warning: /builddir/build/BUILD/IRanges/IRanges/man/Vector-class-leftovers.Rd:109: file link 'Vector' in package 'S4Vectors' does not exist and so has been treated as a topic Views-class html ViewsList-class html coverage-methods html extractList html Rd warning: /builddir/build/BUILD/IRanges/IRanges/man/extractList.Rd:24: file link 'split' in package 'S4Vectors' does not exist and so has been treated as a topic Rd warning: /builddir/build/BUILD/IRanges/IRanges/man/extractList.Rd:95: file link 'relistToClass' in package 'S4Vectors' does not exist and so has been treated as a topic Rd warning: /builddir/build/BUILD/IRanges/IRanges/man/extractList.Rd:149: file link 'relistToClass' in package 'S4Vectors' does not exist and so has been treated as a topic Rd warning: /builddir/build/BUILD/IRanges/IRanges/man/extractList.Rd:160: file link 'unsplit' in package 'base' does not exist and so has been treated as a topic Rd warning: /builddir/build/BUILD/IRanges/IRanges/man/extractList.Rd:163: file link 'split' in package 'S4Vectors' does not exist and so has been treated as a topic Rd warning: /builddir/build/BUILD/IRanges/IRanges/man/extractList.Rd:166: file link 'Vector' in package 'S4Vectors' does not exist and so has been treated as a topic Rd warning: /builddir/build/BUILD/IRanges/IRanges/man/extractList.Rd:166: file link 'List' in package 'S4Vectors' does not exist and so has been treated as a topic Rd warning: /builddir/build/BUILD/IRanges/IRanges/man/extractList.Rd:167: file link 'Rle' in package 'S4Vectors' does not exist and so has been treated as a topic Rd warning: /builddir/build/BUILD/IRanges/IRanges/man/extractList.Rd:167: file link 'DataFrame' in package 'S4Vectors' does not exist and so has been treated as a topic Rd warning: /builddir/build/BUILD/IRanges/IRanges/man/extractList.Rd:169: file link 'relistToClass' in package 'S4Vectors' does not exist and so has been treated as a topic Rd warning: /builddir/build/BUILD/IRanges/IRanges/man/extractList.Rd:170: file link 'List' in package 'S4Vectors' does not exist and so has been treated as a topic extractListFragments html Rd warning: /builddir/build/BUILD/IRanges/IRanges/man/extractListFragments.Rd:87: file link 'relistToClass' in package 'S4Vectors' does not exist and so has been treated as a topic Rd warning: /builddir/build/BUILD/IRanges/IRanges/man/extractListFragments.Rd:107: file link 'List' in package 'S4Vectors' does not exist and so has been treated as a topic findOverlaps-methods html Rd warning: /builddir/build/BUILD/IRanges/IRanges/man/findOverlaps-methods.Rd:175: file link 'Hits' in package 'S4Vectors' does not exist and so has been treated as a topic Rd warning: /builddir/build/BUILD/IRanges/IRanges/man/findOverlaps-methods.Rd:183: file link 'HitsList' in package 'S4Vectors' does not exist and so has been treated as a topic Rd warning: /builddir/build/BUILD/IRanges/IRanges/man/findOverlaps-methods.Rd:195: file link 'Hits' in package 'S4Vectors' does not exist and so has been treated as a topic Rd warning: /builddir/build/BUILD/IRanges/IRanges/man/findOverlaps-methods.Rd:195: file link 'HitsList' in package 'S4Vectors' does not exist and so has been treated as a topic Rd warning: /builddir/build/BUILD/IRanges/IRanges/man/findOverlaps-methods.Rd:253: file link 'Hits' in package 'S4Vectors' does not exist and so has been treated as a topic Rd warning: /builddir/build/BUILD/IRanges/IRanges/man/findOverlaps-methods.Rd:253: file link 'HitsList' in package 'S4Vectors' does not exist and so has been treated as a topic Rd warning: /builddir/build/BUILD/IRanges/IRanges/man/findOverlaps-methods.Rd:261: file link 'Hits' in package 'S4Vectors' does not exist and so has been treated as a topic Rd warning: /builddir/build/BUILD/IRanges/IRanges/man/findOverlaps-methods.Rd:262: file link 'HitsList' in package 'S4Vectors' does not exist and so has been treated as a topic Rd warning: /builddir/build/BUILD/IRanges/IRanges/man/findOverlaps-methods.Rd:293: file link 'Hits' in package 'S4Vectors' does not exist and so has been treated as a topic Rd warning: /builddir/build/BUILD/IRanges/IRanges/man/findOverlaps-methods.Rd:293: file link 'HitsList' in package 'S4Vectors' does not exist and so has been treated as a topic inter-range-methods html Rd warning: /builddir/build/BUILD/IRanges/IRanges/man/inter-range-methods.Rd:266: file link 'endoapply' in package 'S4Vectors' does not exist and so has been treated as a topic intra-range-methods html Rd warning: /builddir/build/BUILD/IRanges/IRanges/man/intra-range-methods.Rd:94: missing link 'RangesList' Rd warning: /builddir/build/BUILD/IRanges/IRanges/man/intra-range-methods.Rd:102: missing link 'RangesList' Rd warning: /builddir/build/BUILD/IRanges/IRanges/man/intra-range-methods.Rd:123: missing link 'RangesList' Rd warning: /builddir/build/BUILD/IRanges/IRanges/man/intra-range-methods.Rd:136: missing link 'RangesList' Rd warning: /builddir/build/BUILD/IRanges/IRanges/man/intra-range-methods.Rd:146: missing link 'RangesList' Rd warning: /builddir/build/BUILD/IRanges/IRanges/man/intra-range-methods.Rd:160: missing link 'RangesList' Rd warning: /builddir/build/BUILD/IRanges/IRanges/man/intra-range-methods.Rd:188: missing link 'RangesList' Rd warning: /builddir/build/BUILD/IRanges/IRanges/man/intra-range-methods.Rd:297: missing link 'RangesList' BUILDSTDERR: Rd warning: /builddir/build/BUILD/IRanges/IRanges/man/intra-range-methods.Rd:307: file link 'endoapply' in** building package indices BUILDSTDERR: ** installing vignettes BUILDSTDERR: ** testing if installed package can be loaded from temporary location BUILDSTDERR: ** checking absolute paths in shared objects and dynamic libraries BUILDSTDERR: ** testing if installed package can be loaded from final location BUILDSTDERR: ** testing if installed package keeps a record of temporary installation path BUILDSTDERR: * DONE (IRanges) + test -d IRanges/src + cd IRanges/src + rm -f CompressedAtomicList_utils.o CompressedIRangesList_class.o CompressedList_class.o Grouping_class.o IPosRanges_comparison.o IRanges_class.o IRanges_constructor.o NCList.o R_init_IRanges.o Ranges_class.o RleViews_utils.o S4Vectors_stubs.o SimpleIRangesList_class.o coverage_methods.o extractListFragments.o inter_range_methods.o IRanges.so + rm -rf /builddir/build/BUILDROOT/R-IRanges-2.16.0-3.fc31.riscv64/usr/lib64/R/library/R.css + /usr/lib/rpm/find-debuginfo.sh -j4 --strict-build-id -m -i --build-id-seed 2.16.0-3.fc31 --unique-debug-suffix -2.16.0-3.fc31.riscv64 --unique-debug-src-base R-IRanges-2.16.0-3.fc31.riscv64 --run-dwz --dwz-low-mem-die-limit 10000000 --dwz-max-die-limit 50000000 -S debugsourcefiles.list /builddir/build/BUILD/IRanges BUILDSTDERR: 340 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/redhat/brp-python-bytecompile /usr/bin/python 1 0 + /usr/lib/rpm/brp-python-hardlink + /usr/lib/rpm/redhat/brp-mangle-shebangs package 'S4Vectors' does not exist and so has been treated as a topic multisplit html nearest-methods html Rd warning: /builddir/build/BUILD/IRanges/IRanges/man/nearest-methods.Rd:148: file link 'breakTies' in package 'S4Vectors' does not exist and so has been treated as a topic range-squeezers html Rd warning: /builddir/build/BUILD/IRanges/IRanges/man/range-squeezers.Rd:37: file link 'Pairs' in package 'S4Vectors' does not exist and so has been treated as a topic read.Mask html reverse-methods html seqapply html setops-methods html Rd warning: /builddir/build/BUILD/IRanges/IRanges/man/setops-methods.Rd:91: file link 'Pairs' in package 'S4Vectors' does not exist and so has been treated as a topic Rd warning: /builddir/build/BUILD/IRanges/IRanges/man/setops-methods.Rd:116: file link 'Pairs' in package 'S4Vectors' does not exist and so has been treated as a topic Rd warning: /builddir/build/BUILD/IRanges/IRanges/man/setops-methods.Rd:166: file link 'mendoapply' in package 'S4Vectors' does not exist and so has been treated as a topic slice-methods html view-summarization-methods html explicitly decompress any DWARF compressed ELF sections in /builddir/build/BUILDROOT/R-IRanges-2.16.0-3.fc31.riscv64/usr/lib64/R/library/IRanges/libs/IRanges.so extracting debug info from /builddir/build/BUILDROOT/R-IRanges-2.16.0-3.fc31.riscv64/usr/lib64/R/library/IRanges/libs/IRanges.so original debug info size: 564kB, size after compression: 528kB /usr/lib/rpm/sepdebugcrcfix: Updated 1 CRC32s, 0 CRC32s did match. Executing(%check): /bin/sh -e /var/tmp/rpm-tmp.dzfpcI + umask 022 + cd /builddir/build/BUILD + cd IRanges + RPM_EC=0 BUILDSTDERR: ++ jobs -p + exit 0 Processing files: R-IRanges-2.16.0-3.fc31.riscv64 Provides: R(IRanges) = 2.16.0 R-IRanges = 2.16.0-3.fc31 R-IRanges(riscv-64) = 2.16.0-3.fc31 Requires(rpmlib): rpmlib(CompressedFileNames) <= 3.0.4-1 rpmlib(FileDigests) <= 4.6.0-1 rpmlib(PayloadFilesHavePrefix) <= 4.0-1 Requires: R(BiocGenerics) >= 0.25.3 R(S4Vectors) >= 0.19.11 R(methods) R(stats) R(stats4) R(utils) R-core >= 3.1.0 ld-linux-riscv64-lp64d.so.1()(64bit) ld-linux-riscv64-lp64d.so.1(GLIBC_2.27)(64bit) libR.so()(64bit) libc.so.6()(64bit) libc.so.6(GLIBC_2.27)(64bit) rtld(GNU_HASH) Suggests: R(BSgenome.Celegans.UCSC.ce2) R(BiocStyle) R(GenomicAlignments) R(GenomicFeatures) R(GenomicRanges) R(RUnit) R(Rsamtools) R(XVector) R(pasillaBamSubset) Processing files: R-IRanges-devel-2.16.0-3.fc31.riscv64 Provides: R-IRanges-devel = 2.16.0-3.fc31 R-IRanges-devel(riscv-64) = 2.16.0-3.fc31 Requires(rpmlib): rpmlib(CompressedFileNames) <= 3.0.4-1 rpmlib(FileDigests) <= 4.6.0-1 rpmlib(PayloadFilesHavePrefix) <= 4.0-1 Processing files: R-IRanges-debugsource-2.16.0-3.fc31.riscv64 Provides: R-IRanges-debugsource = 2.16.0-3.fc31 R-IRanges-debugsource(riscv-64) = 2.16.0-3.fc31 Requires(rpmlib): rpmlib(CompressedFileNames) <= 3.0.4-1 rpmlib(FileDigests) <= 4.6.0-1 rpmlib(PayloadFilesHavePrefix) <= 4.0-1 Processing files: R-IRanges-debuginfo-2.16.0-3.fc31.riscv64 Provides: R-IRanges-debuginfo = 2.16.0-3.fc31 R-IRanges-debuginfo(riscv-64) = 2.16.0-3.fc31 debuginfo(build-id) = 48c31b035b073cb93db2a3b6f618367f5c61e120 Requires(rpmlib): rpmlib(CompressedFileNames) <= 3.0.4-1 rpmlib(FileDigests) <= 4.6.0-1 rpmlib(PayloadFilesHavePrefix) <= 4.0-1 Recommends: R-IRanges-debugsource(riscv-64) = 2.16.0-3.fc31 Checking for unpackaged file(s): /usr/lib/rpm/check-files /builddir/build/BUILDROOT/R-IRanges-2.16.0-3.fc31.riscv64 Wrote: /builddir/build/RPMS/R-IRanges-devel-2.16.0-3.fc31.riscv64.rpm Wrote: /builddir/build/RPMS/R-IRanges-debugsource-2.16.0-3.fc31.riscv64.rpm Wrote: /builddir/build/RPMS/R-IRanges-debuginfo-2.16.0-3.fc31.riscv64.rpm Wrote: /builddir/build/RPMS/R-IRanges-2.16.0-3.fc31.riscv64.rpm Executing(%clean): /bin/sh -e /var/tmp/rpm-tmp.AKfryE + umask 022 + cd /builddir/build/BUILD + cd IRanges + /usr/bin/rm -rf /builddir/build/BUILDROOT/R-IRanges-2.16.0-3.fc31.riscv64 + RPM_EC=0 BUILDSTDERR: ++ jobs -p + exit 0 Child return code was: 0