Your message dated Fri, 25 Aug 2017 11:49:19 +0000 with message-id <e1dld71-0007bs...@fasolo.debian.org> and subject line Bug#853396: fixed in fastx-toolkit 0.0.14-5 has caused the Debian Bug report #853396, regarding fastx-toolkit: ftbfs with GCC-7 to be marked as done.
This means that you claim that the problem has been dealt with. If this is not the case it is now your responsibility to reopen the Bug report if necessary, and/or fix the problem forthwith. (NB: If you are a system administrator and have no idea what this message is talking about, this may indicate a serious mail system misconfiguration somewhere. Please contact ow...@bugs.debian.org immediately.) -- 853396: https://bugs.debian.org/cgi-bin/bugreport.cgi?bug=853396 Debian Bug Tracking System Contact ow...@bugs.debian.org with problems
--- Begin Message ---Package: src:fastx-toolkit Version: 0.0.14-3 Severity: normal Tags: sid buster User: debian-...@lists.debian.org Usertags: ftbfs-gcc-7 Please keep this issue open in the bug tracker for the package it was filed for. If a fix in another package is required, please file a bug for the other package (or clone), and add a block in this package. Please keep the issue open until the package can be built in a follow-up test rebuild. The package fails to build in a test rebuild on at least amd64 with gcc-7/g++-7, but succeeds to build with gcc-6/g++-6. The severity of this report may be raised before the buster release. There is no need to fix this issue in time for the stretch release. The full build log can be found at: http://people.debian.org/~doko/logs/gcc7-20170126/fastx-toolkit_0.0.14-3_unstable_gcc7.log The last lines of the build log are at the end of this report. To build with GCC 7, either set CC=gcc-7 CXX=g++-7 explicitly, or install the gcc, g++, gfortran, ... packages from experimental. apt-get -t=experimental install g++ Common build failures are new warnings resulting in build failures with -Werror turned on, or new/dropped symbols in Debian symbols files. For other C/C++ related build failures see the porting guide at http://gcc.gnu.org/gcc-7/porting_to.html [...] make[4]: Entering directory '/<<PKGBUILDDIR>>/src/fastx_reverse_complement' gcc -DHAVE_CONFIG_H -I. -I../.. -I../../src/libfastx -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wextra -Wformat-nonliteral -Wformat-security -Wswitch-default -Wswitch-enum -Wunused-parameter -Wfloat-equal -Werror -DDEBUG -g -O1 -c -o fastx_reverse_complement.o fastx_reverse_complement.c /bin/bash ../../libtool --tag=CC --mode=link gcc -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wextra -Wformat-nonliteral -Wformat-security -Wswitch-default -Wswitch-enum -Wunused-parameter -Wfloat-equal -Werror -DDEBUG -g -O1 -Wl,-z,relro -o fastx_reverse_complement fastx_reverse_complement.o ../libfastx/libfastx.a libtool: link: gcc -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wextra -Wformat-nonliteral -Wformat-security -Wswitch-default -Wswitch-enum -Wunused-parameter -Wfloat-equal -Werror -DDEBUG -g -O1 -Wl,-z -Wl,relro -o fastx_reverse_complement fastx_reverse_complement.o ../libfastx/libfastx.a make[4]: Leaving directory '/<<PKGBUILDDIR>>/src/fastx_reverse_complement' Making all in fastx_collapser make[4]: Entering directory '/<<PKGBUILDDIR>>/src/fastx_collapser' g++ -DHAVE_CONFIG_H -I. -I../.. -I../../src/libfastx -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wextra -Wformat-nonliteral -Wformat-security -Wswitch-default -Wswitch-enum -Wunused-parameter -Wfloat-equal -Werror -DDEBUG -g -O1 -c -o fastx_collapser.o fastx_collapser.cpp /bin/bash ../../libtool --tag=CXX --mode=link g++ -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wextra -Wformat-nonliteral -Wformat-security -Wswitch-default -Wswitch-enum -Wunused-parameter -Wfloat-equal -Werror -DDEBUG -g -O1 -Wl,-z,relro -o fastx_collapser fastx_collapser.o ../libfastx/libfastx.a libtool: link: g++ -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wextra -Wformat-nonliteral -Wformat-security -Wswitch-default -Wswitch-enum -Wunused-parameter -Wfloat-equal -Werror -DDEBUG -g -O1 -Wl,-z -Wl,relro -o fastx_collapser fastx_collapser.o ../libfastx/libfastx.a make[4]: Leaving directory '/<<PKGBUILDDIR>>/src/fastx_collapser' Making all in fastx_uncollapser make[4]: Entering directory '/<<PKGBUILDDIR>>/src/fastx_uncollapser' g++ -DHAVE_CONFIG_H -I. -I../.. -I/usr/include/gtextutils -I../../src/libfastx -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wextra -Wformat-nonliteral -Wformat-security -Wswitch-default -Wswitch-enum -Wunused-parameter -Wfloat-equal -Werror -DDEBUG -g -O1 -c -o fastx_uncollapser.o fastx_uncollapser.cpp /bin/bash ../../libtool --tag=CXX --mode=link g++ -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wextra -Wformat-nonliteral -Wformat-security -Wswitch-default -Wswitch-enum -Wunused-parameter -Wfloat-equal -Werror -DDEBUG -g -O1 -Wl,-z,relro -o fastx_uncollapser fastx_uncollapser.o -lgtextutils ../libfastx/libfastx.a libtool: link: g++ -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wextra -Wformat-nonliteral -Wformat-security -Wswitch-default -Wswitch-enum -Wunused-parameter -Wfloat-equal -Werror -DDEBUG -g -O1 -Wl,-z -Wl,relro -o fastx_uncollapser fastx_uncollapser.o -lgtextutils ../libfastx/libfastx.a make[4]: Leaving directory '/<<PKGBUILDDIR>>/src/fastx_uncollapser' Making all in seqalign_test make[4]: Entering directory '/<<PKGBUILDDIR>>/src/seqalign_test' g++ -DHAVE_CONFIG_H -I. -I../.. -I../../src/libfastx -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wextra -Wformat-nonliteral -Wformat-security -Wswitch-default -Wswitch-enum -Wunused-parameter -Wfloat-equal -Werror -DDEBUG -g -O1 -c -o seqalign_test.o seqalign_test.cpp /bin/bash ../../libtool --tag=CXX --mode=link g++ -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wextra -Wformat-nonliteral -Wformat-security -Wswitch-default -Wswitch-enum -Wunused-parameter -Wfloat-equal -Werror -DDEBUG -g -O1 -Wl,-z,relro -o seqalign_test seqalign_test.o ../libfastx/libfastx.a libtool: link: g++ -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wextra -Wformat-nonliteral -Wformat-security -Wswitch-default -Wswitch-enum -Wunused-parameter -Wfloat-equal -Werror -DDEBUG -g -O1 -Wl,-z -Wl,relro -o seqalign_test seqalign_test.o ../libfastx/libfastx.a make[4]: Leaving directory '/<<PKGBUILDDIR>>/src/seqalign_test' Making all in fasta_formatter make[4]: Entering directory '/<<PKGBUILDDIR>>/src/fasta_formatter' g++ -DHAVE_CONFIG_H -I. -I../.. -I/usr/include/gtextutils -I../../src/libfastx -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wextra -Wformat-nonliteral -Wformat-security -Wswitch-default -Wswitch-enum -Wunused-parameter -Wfloat-equal -Werror -DDEBUG -g -O1 -c -o fasta_formatter.o fasta_formatter.cpp fasta_formatter.cpp: In function 'void parse_command_line(int, char**)': fasta_formatter.cpp:105:9: error: this statement may fall through [-Werror=implicit-fallthrough=] usage(); ~~~~~^~ fasta_formatter.cpp:107:3: note: here case 'i': ^~~~ cc1plus: all warnings being treated as errors Makefile:444: recipe for target 'fasta_formatter.o' failed make[4]: *** [fasta_formatter.o] Error 1 make[4]: Leaving directory '/<<PKGBUILDDIR>>/src/fasta_formatter' Makefile:389: recipe for target 'all-recursive' failed make[3]: *** [all-recursive] Error 1 make[3]: Leaving directory '/<<PKGBUILDDIR>>/src' Makefile:426: recipe for target 'all-recursive' failed make[2]: *** [all-recursive] Error 1 make[2]: Leaving directory '/<<PKGBUILDDIR>>' Makefile:358: recipe for target 'all' failed make[1]: *** [all] Error 2 make[1]: Leaving directory '/<<PKGBUILDDIR>>' dh_auto_build: make -j64 returned exit code 2 debian/rules:14: recipe for target 'build' failed make: *** [build] Error 2 dpkg-buildpackage: error: debian/rules build gave error exit status 2
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--- Begin Message ---Source: fastx-toolkit Source-Version: 0.0.14-5 We believe that the bug you reported is fixed in the latest version of fastx-toolkit, which is due to be installed in the Debian FTP archive. A summary of the changes between this version and the previous one is attached. Thank you for reporting the bug, which will now be closed. If you have further comments please address them to 853...@bugs.debian.org, and the maintainer will reopen the bug report if appropriate. Debian distribution maintenance software pp. Andreas Tille <ti...@debian.org> (supplier of updated fastx-toolkit package) (This message was generated automatically at their request; if you believe that there is a problem with it please contact the archive administrators by mailing ftpmas...@ftp-master.debian.org) -----BEGIN PGP SIGNED MESSAGE----- Hash: SHA256 Format: 1.8 Date: Fri, 25 Aug 2017 10:22:12 +0200 Source: fastx-toolkit Binary: fastx-toolkit Architecture: source amd64 Version: 0.0.14-5 Distribution: unstable Urgency: low Maintainer: Debian Med Packaging Team <debian-med-packag...@lists.alioth.debian.org> Changed-By: Andreas Tille <ti...@debian.org> Description: fastx-toolkit - FASTQ/A short nucleotide reads pre-processing tools Closes: 853396 Changes: fastx-toolkit (0.0.14-5) unstable; urgency=low . [ Steffen Moeller ] * [debian/upstream/metadata] Added references to OMICtools, bio.tools, RRID . [ Andreas Tille ] * Standards-Version: 4.1.0 (no changes needed) * Exit after usage to make sure gcc-7 will not assume that code falls through case statement. Closes: #853396 * d/rules: do not parse d/changelog * drop autotools Build-Depends and in d/rules since that's redundant for debhelper 10 Checksums-Sha1: d668c42d2e1dc15f54ae60db2dbbe49c93ba9303 2170 fastx-toolkit_0.0.14-5.dsc 215c35b736b89c068538ea202f70678e9e29ceb4 19124 fastx-toolkit_0.0.14-5.debian.tar.xz 625f270dd8d20589596463a6737cfaf806b0b4ea 449262 fastx-toolkit-dbgsym_0.0.14-5_amd64.deb b93511f39c5e076cc41090770856cb818559712d 6408 fastx-toolkit_0.0.14-5_amd64.buildinfo 099525c119c194739f17d668e45d8ede60c8696b 113088 fastx-toolkit_0.0.14-5_amd64.deb Checksums-Sha256: 5e9b2d14b42b27970a9199847643993e4f3df39234ddcf088dad7ea26dbdb559 2170 fastx-toolkit_0.0.14-5.dsc a805a5dd7f4fa3d75d9294cb6066c8f9a4648b5c2432072d9abbe990ddd6b145 19124 fastx-toolkit_0.0.14-5.debian.tar.xz a3c841641e41821c078abd557ad068ebf936837abd414c7952a44704d91c3ac3 449262 fastx-toolkit-dbgsym_0.0.14-5_amd64.deb 41bea415a490fafa408901b1e02441750739f8d129356d5dfba7bdf977890341 6408 fastx-toolkit_0.0.14-5_amd64.buildinfo a1a65c2fad148bad4fa852e5f0fb2c841480fe4069be40f8f72a32c909965078 113088 fastx-toolkit_0.0.14-5_amd64.deb Files: d5d52a25811b8a0b086ff41a2ec861e5 2170 science optional fastx-toolkit_0.0.14-5.dsc 64c16821aaed55c8c01bb5dbebb71b34 19124 science optional fastx-toolkit_0.0.14-5.debian.tar.xz 08f40ae58c0ab24fbf6ae94aca396c18 449262 debug extra fastx-toolkit-dbgsym_0.0.14-5_amd64.deb 017b6fc5db3495e54e628971219650a1 6408 science optional fastx-toolkit_0.0.14-5_amd64.buildinfo 588ea4dba316e9b74a5c3a0463fb5b22 113088 science optional fastx-toolkit_0.0.14-5_amd64.deb -----BEGIN PGP SIGNATURE----- iQJFBAEBCAAvFiEE8fAHMgoDVUHwpmPKV4oElNHGRtEFAlmgC7sRHHRpbGxlQGRl Ymlhbi5vcmcACgkQV4oElNHGRtHHShAAkHHg0tz3IgfZAWrKhP4VmCOiy+27giYV zZT+RsP4iP6JswHQp387YMTOsEccFkRE0U5lWTFQCpVLcLFMiGPxokvdC0w3rMEr jwid79GHOtv5pWBNCoGdy+dxUlUysKIk83y+PrwUPtNUck/jCyLUY/61Ozk/m98j Jo22Xmbo3WLKApsLsBXtvpJaLewNy9QaO+vZU5NW5B3Cmvp8tvD8YaRBs3ziQgDV VlCyRAruHKgUWUKUGqvZvkGXPeMsn4r1aF00ar8sj4tlCe872J5wFZZo2g/5KQ6h FK34t3D7pZ6wRqm5Y41CjtTTeuFSJJdCyiFW+UoZmNaQOT1buCRatfQ21o/luBCA LGfN9dlMyNwDgaoaKMAzPjndBXAuS0BpW/9RJmEHbdqPLhr3Mmu4U2X5Jwyecsx+ qNpA8FvfrtNyw2ABrHswoK4HebpapOyFzYH6TQXDyNs6HddpI4CfMCbVnJLcC7JF wWgguYiIyEptgXVcSIdf07MSjemobeZRhq7MZ5bXJjB8X/4AdalAuO2XI9Y3hpCo rxFNRxfnLJfMdb0XJnmxdsevZRUsEp/hp8azwCKPqa1YUzQzJnX+J7d/8RxYlwgP pC4W/MpnWqmpqwgCCk0sgVb/1pvHuPl2uuihSsDMwLL5T78EFNYYOn8LrkpWaNJz lJVwjqFBjAM= =eq+i -----END PGP SIGNATURE-----
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