Your message dated Sun, 17 Jul 2016 10:33:55 +0000 with message-id <e1bojov-00018l...@franck.debian.org> and subject line Bug#831193: fixed in dnaclust 3-4 has caused the Debian Bug report #831193, regarding dnaclust: FTBFS with GCC 6: dnaclust.cpp:1772:89: error: call of overloaded 'log(Nucleotides)' is ambiguous 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.) -- 831193: http://bugs.debian.org/cgi-bin/bugreport.cgi?bug=831193 Debian Bug Tracking System Contact ow...@bugs.debian.org with problems
--- Begin Message ---Source: dnaclust Version: 3-3 Severity: serious Tags: stretch sid User: debian...@lists.debian.org Usertags: qa-ftbfs-20160713 qa-ftbfs Justification: FTBFS with GCC 6 on amd64 Hi, During a rebuild of all packages in sid using the gcc-defaults package available in experimental to make GCC default to version 6, your package failed to build on amd64. For more information about GCC 6 and Stretch, see: - https://wiki.debian.org/GCC6 - https://lists.debian.org/debian-devel-announce/2016/06/msg00007.html Relevant part (hopefully): > g++ -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security > -Wall -pedantic -std=c++98 -O2 dnaclust.cpp > dnaclust.cpp: In function 'void makeCluster()': > dnaclust.cpp:1337:12: warning: variable 'num_threads_to_use' set but not used > [-Wunused-but-set-variable] > size_t num_threads_to_use = num_threads; > ^~~~~~~~~~~~~~~~~~ > dnaclust.cpp:1443:11: warning: variable 'num_threads_to_use' set but not used > [-Wunused-but-set-variable] > int num_threads_to_use = num_threads; > ^~~~~~~~~~~~~~~~~~ > dnaclust.cpp: In function 'int main(int, char**)': > dnaclust.cpp:1772:89: error: call of overloaded 'log(Nucleotides)' is > ambiguous > k_mer_length = static_cast<int>(floor(log(median_size) / > log(NUMBER_OF_NUCLEOTIDES))); > > ^ > In file included from /usr/include/features.h:364:0, > from > /usr/include/x86_64-linux-gnu/c++/6/bits/os_defines.h:39, > from > /usr/include/x86_64-linux-gnu/c++/6/bits/c++config.h:495, > from /usr/include/c++/6/iosfwd:38, > from /usr/include/c++/6/ios:38, > from /usr/include/c++/6/istream:38, > from /usr/include/c++/6/sstream:38, > from dnaclust.cpp:1: > /usr/include/x86_64-linux-gnu/bits/mathcalls.h:109:1: note: candidate: double > log(double) > __MATHCALL_VEC (log,, (_Mdouble_ __x)); > ^ > In file included from dnaclust.cpp:3:0: > /usr/include/c++/6/cmath:365:3: note: candidate: long double std::log(long > double) > log(long double __x) > ^~~ > /usr/include/c++/6/cmath:361:3: note: candidate: float std::log(float) > log(float __x) > ^~~ > make[1]: *** [dnaclust.o] Error 1 The full build log is available from: http://people.debian.org/~lucas/logs/2016/07/13/dnaclust_3-3_unstable_gcc6.log A list of current common problems and possible solutions is available at http://wiki.debian.org/qa.debian.org/FTBFS . You're welcome to contribute! About the archive rebuild: The rebuild was done on EC2 VM instances from Amazon Web Services, using a clean, minimal and up-to-date chroot. Every failed build was retried once to eliminate random failures.
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--- Begin Message ---Source: dnaclust Source-Version: 3-4 We believe that the bug you reported is fixed in the latest version of dnaclust, 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 831...@bugs.debian.org, and the maintainer will reopen the bug report if appropriate. Debian distribution maintenance software pp. Sascha Steinbiss <sa...@debian.org> (supplier of updated dnaclust 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: SHA512 Format: 1.8 Date: Sun, 17 Jul 2016 10:13:26 +0000 Source: dnaclust Binary: dnaclust Architecture: source amd64 Version: 3-4 Distribution: unstable Urgency: medium Maintainer: Debian Med Packaging Team <debian-med-packag...@lists.alioth.debian.org> Changed-By: Sascha Steinbiss <sa...@debian.org> Description: dnaclust - tool for clustering millions of short DNA sequences Closes: 831193 Changes: dnaclust (3-4) unstable; urgency=medium . * Team upload. * Enable full hardening. * Use secure Vcs-Git. * Bump Standards-Version. * Fix building with GCC 6. Closes: #831193. Checksums-Sha1: ec29beb7bb736452febdb3ff57d960a8a1ae074c 1904 dnaclust_3-4.dsc 3f46749190315445f17f29bafd13398b66fafe9b 7120 dnaclust_3-4.debian.tar.xz 1e2ae12831e87f260d0a4a25199b5bad4100ec86 941274 dnaclust-dbgsym_3-4_amd64.deb 4444a98daacc4814ebbf08f55691ebe932914175 86998 dnaclust_3-4_amd64.deb Checksums-Sha256: a3da64d81024b7e91e530646eb73722990f4e35ba1a4a862bd64ee9e5701d569 1904 dnaclust_3-4.dsc 798ad11e3cde12bbc7124260ad2d1cbd1c631eace8d18b9a8fa1d20c0557a65d 7120 dnaclust_3-4.debian.tar.xz 2487dac23058c04d60acedb30705d8194306f23c17476cd4d2fc0ff2c24f362b 941274 dnaclust-dbgsym_3-4_amd64.deb 7755ffa39d43d585e76298aeecc09a15a1e09502af6589b7e6953144c55e4946 86998 dnaclust_3-4_amd64.deb Files: 3a337ceeb25bb10758e2557bc4b757d9 1904 science optional dnaclust_3-4.dsc 0168604194fb05f1a5854b9fe5c71a17 7120 science optional dnaclust_3-4.debian.tar.xz 11e798a18e11c650b19b6876f808319e 941274 debug extra dnaclust-dbgsym_3-4_amd64.deb 1e086fccd113b1fce4883ec972246f76 86998 science optional dnaclust_3-4_amd64.deb -----BEGIN PGP SIGNATURE----- iQIcBAEBCgAGBQJXi12DAAoJEOjTeuLwn0hymJsP/1Oz/dK1B71CXUTLrUCya5FR o4Ty4cYFTT57bB2we/QVHzcZVkpqIZHix+sIoNfg3yxk1WhbOJ72PO/trniE0xh9 iboNcAcT9ezEV/SeeMtoJkajnez/MWNElJTI7vQGXzQrp/9wzgb0wGv6XgnkRRAQ CUK2UYTN06jWdLJ1Fdye89knpuCfx7S6iMBz7n+jXNntNZOdqPEWX+Fi1KZHHwCD iQ727hl1i09gWVBXzL+G6wTx2Z+TShpJzxY93XwU/StVmYBRurHK4F9b4xo+bToA /XBjVs8D4s1bbbxuaKZ6qKU9I+ekFFu8VLkvFh59J293tyhm2uEWkpCNRhAEZ+8Z CTEzDGWZnCpFkl5BwgkfnkD+1eFn81i14wAJjyH6m3lzqyfE5ES6aF/6kF1Yn/jE cD1ONEluVh2IQooPXEL2gCLHWCRsGi3ycuQIupG1z0TNwsc/Z3d5EN5GUyKjQKE4 Slki0QBoJh71ujZvXb7NjneKtsLo5FK3eTjwP//d1xHuYcDOmSgdVUrpcY+yw7Yg gAkjp8N6SflvyUhgSOEviylIP7wxSd2vsXP4fmA9Y/oqDLWdVpnuwLUKm2eh0wg+ feAA44M/sKdiZtBMltIVGF/BHomHtR7OcX+7TXmt6lR/IxMnbUNXX/wXArK7fRJo dAR8vmxKo6NMZnHSKV5l =sWSW -----END PGP SIGNATURE-----
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