Your message dated Wed, 05 Jun 2013 13:03:17 +0000 with message-id <e1ukdmz-0002dg...@franck.debian.org> and subject line Bug#701423: fixed in jellyfish 1.1.10-1 has caused the Debian Bug report #701423, regarding jellyfish: ftbfs with eglibc-2.17 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.) -- 701423: http://bugs.debian.org/cgi-bin/bugreport.cgi?bug=701423 Debian Bug Tracking System Contact ow...@bugs.debian.org with problems
--- Begin Message ---Package: src:jellyfish Version: 1.1.5-1 Severity: important Tags: sid jessie User: debian-gl...@lists.debian.org Usertags: ftbfs-glibc-2.17 The package fails to build in a test rebuild on at least amd64 with eglibc-2.17, but succeeds to build with eglibc-2.13. The severity of this report may be raised before the jessie release. The test rebuild was done together with GCC-4.8, so some issues might be caused by the updated GCC as well. ./jellyfish/err.hpp:42:46: error: ignoring return value of 'char* strerror_r(int, char*, size_t)', declared with attribute warn_unused_result [-Werror=unused-result] The full build log can be found at: http://people.debian.org/~doko/logs-20130217/gcc48/jellyfish_1.1.5-1_unstable_gcc48.log The last lines of the build log are at the end of this report. To install eglibc from experimental, apt-get -t experimental install libc6-dev To build with GCC 4.8, either set CC=gcc-4.8 CXX=g++-4.8 explicitly, or install the gcc, g++, gfortran, ... packages from experimental. apt-get -t experimental install g++ g++-4.7 g++-4.8 libc6-dev [...] checking if gcc supports -c -o file.o... (cached) yes checking whether the gcc linker (/usr/bin/ld -m elf_x86_64) supports shared libraries... yes checking whether -lc should be explicitly linked in... no checking dynamic linker characteristics... GNU/Linux ld.so checking how to hardcode library paths into programs... immediate checking whether stripping libraries is possible... yes checking if libtool supports shared libraries... yes checking whether to build shared libraries... yes checking whether to build static libraries... yes checking for ld used by g++... /usr/bin/ld -m elf_x86_64 checking if the linker (/usr/bin/ld -m elf_x86_64) is GNU ld... yes checking whether the g++ linker (/usr/bin/ld -m elf_x86_64) supports shared libraries... yes checking for g++ option to produce PIC... -fPIC -DPIC checking if g++ PIC flag -fPIC -DPIC works... yes checking if g++ static flag -static works... yes checking if g++ supports -c -o file.o... yes checking if g++ supports -c -o file.o... (cached) yes checking whether the g++ linker (/usr/bin/ld -m elf_x86_64) supports shared libraries... yes checking dynamic linker characteristics... GNU/Linux ld.so checking how to hardcode library paths into programs... immediate configure: creating ./config.status config.status: creating Makefile config.status: creating tests/compat.sh config.status: creating jellyfish-1.1.pc config.status: creating config.h config.status: executing depfiles commands config.status: executing libtool commands configure: WARNING: unrecognized options: --disable-maintainer-mode make[1]: Leaving directory `/«PKGBUILDDIR»' dh_auto_build -a make[1]: Entering directory `/«PKGBUILDDIR»' make all-am make[2]: Entering directory `/«PKGBUILDDIR»' CXX jellyfish/libjellyfish_la-square_binary_matrix.lo /bin/bash ./libtool --silent --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -Wall -Werror -Wnon-virtual-dtor -I. -D_FORTIFY_SOURCE=2 -g -O3 -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -c -o jellyfish/libjellyfish_la-square_binary_matrix.lo `test -f 'jellyfish/square_binary_matrix.cc' || echo './'`jellyfish/square_binary_matrix.cc CXX jellyfish/libjellyfish_la-err.lo /bin/bash ./libtool --silent --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -Wall -Werror -Wnon-virtual-dtor -I. -D_FORTIFY_SOURCE=2 -g -O3 -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -c -o jellyfish/libjellyfish_la-err.lo `test -f 'jellyfish/err.cc' || echo './'`jellyfish/err.cc In file included from jellyfish/err.cc:17:0: ./jellyfish/err.hpp: In static member function 'static void err::no_t::write(std::ostream&, int)': ./jellyfish/err.hpp:42:46: error: ignoring return value of 'char* strerror_r(int, char*, size_t)', declared with attribute warn_unused_result [-Werror=unused-result] strerror_r(e, err_str, sizeof(err_str)); ^ cc1plus: all warnings being treated as errors make[2]: *** [jellyfish/libjellyfish_la-err.lo] Error 1 make[1]: *** [all] Error 2 make[2]: Leaving directory `/«PKGBUILDDIR»' make[1]: Leaving directory `/«PKGBUILDDIR»' dh_auto_build: make -j1 returned exit code 2 make: *** [build-arch] Error 2 dpkg-buildpackage: error: debian/rules build-arch gave error exit status 2
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--- Begin Message ---Source: jellyfish Source-Version: 1.1.10-1 We believe that the bug you reported is fixed in the latest version of jellyfish, 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 701...@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 jellyfish 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: SHA1 Format: 1.8 Date: Wed, 05 Jun 2013 11:58:53 +0200 Source: jellyfish Binary: jellyfish Architecture: source amd64 Version: 1.1.10-1 Distribution: unstable Urgency: low Maintainer: Debian Med Packaging Team <debian-med-packag...@lists.alioth.debian.org> Changed-By: Andreas Tille <ti...@debian.org> Description: jellyfish - count k-mers in DNA sequences Closes: 701423 Changes: jellyfish (1.1.10-1) unstable; urgency=low . * New upstream version Closes: #701423 * debian/{rules,install}: Make sure dynamic library will be installed * debian/control: - Removed DM-Upload-Allowed - Standards-Version: 3.9.4 (no changes needed) - Build-Depends autotools-dev - canonical VCS URLs * debian/lintian-overrides: Upstream decided to use a dynamic library without really intending to make this a development package * debian/doc-base: docbase control file * debian/patches/man: refreshed + DEP3 description Checksums-Sha1: e44aac00cf4bd92078dc0ad45ef07a6157dcdcd1 1369 jellyfish_1.1.10-1.dsc 3e55b078623de02d88f1b3be825271215c243d52 1064281 jellyfish_1.1.10.orig.tar.gz 914432eedb78acead5e15e8ce6ab3086e94316d0 3615 jellyfish_1.1.10-1.debian.tar.gz a23526735efa466f7f160ae003e77c52fdd38c37 442834 jellyfish_1.1.10-1_amd64.deb Checksums-Sha256: 3a069f6e735c3b209d1b738f347d228c2ae4474b22d9b057f4acfb427ba65484 1369 jellyfish_1.1.10-1.dsc bc13ea96b702eba4757fa21dc6f5e457b280518a32741b96dd023f359e83111e 1064281 jellyfish_1.1.10.orig.tar.gz e2e6e399523d2c73c34e8d3c922419b3dddbde9c7f866f0310ceb0b9c5f5e45f 3615 jellyfish_1.1.10-1.debian.tar.gz c5bb063169cbce3aff851a99cc0c73742b57ea30f028f4d8560fdd78a90b95d6 442834 jellyfish_1.1.10-1_amd64.deb Files: e8b70c60209568807ba58f27171aade3 1369 science optional jellyfish_1.1.10-1.dsc d706f59b9b00967f88955abac92b36e9 1064281 science optional jellyfish_1.1.10.orig.tar.gz 08085709c98261f73264c5310f3ac9aa 3615 science optional jellyfish_1.1.10-1.debian.tar.gz c2cd70c856788c062d45d4477b9805c8 442834 science optional jellyfish_1.1.10-1_amd64.deb -----BEGIN PGP SIGNATURE----- Version: GnuPG v1.4.12 (GNU/Linux) iEYEARECAAYFAlGvNdgACgkQYDBbMcCf01pWBgCfeSe1ece/EcCC508pZOOsUglw 2lQAn3+rAOWVaRYJVz/ZOkfeMi6kiXm7 =j6ie -----END PGP SIGNATURE-----
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