Your message dated Tue, 20 Aug 2019 14:47:59 +0000 with message-id <e1i05qv-000bdb...@fasolo.debian.org> and subject line Bug#925759: fixed in libseqlib 1.1.2+dfsg-4 has caused the Debian Bug report #925759, regarding libseqlib: ftbfs with GCC-9 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.) -- 925759: https://bugs.debian.org/cgi-bin/bugreport.cgi?bug=925759 Debian Bug Tracking System Contact ow...@bugs.debian.org with problems
--- Begin Message ---Package: src:libseqlib Version: 1.1.2+dfsg-3 Severity: normal Tags: sid bullseye User: debian-...@lists.debian.org Usertags: ftbfs-gcc-9 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-9/g++-9, but succeeds to build with gcc-8/g++-8. The severity of this report will be raised before the bullseye release, so nothing has to be done for the buster release. The full build log can be found at: http://people.debian.org/~doko/logs/gcc9-20190321/libseqlib_1.1.2+dfsg-3_unstable_gcc9.log The last lines of the build log are at the end of this report. To build with GCC 9, either set CC=gcc-9 CXX=g++-9 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-9/porting_to.html GCC 9 also passes the linker option --as-needed by default; typical build issues are passing libraries before object files to the linker, or underlinking of convenience libraries built from the same source. [...] + _ZN6SeqLib6Filter11AhoCorasickD2Ev@Base 1.1.2+dfsg-3 _ZN6SeqLib6Filter12AbstractRule12addMotifRuleERKNSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEEb@Base 1.1.1+dfsg _ZN6SeqLib6Filter12AbstractRule12parseSeqLineERKN4Json5ValueE@Base 1.1.1+dfsg _ZN6SeqLib6Filter12AbstractRule12parseSubLineERKN4Json5ValueE@Base 1.1.1+dfsg @@ -220,7 +222,7 @@ _ZNK6SeqLib9BamRecord11CountNBasesEv@Base 1.1.1+dfsg _ZNK6SeqLib9BamRecord11PositionEndEv@Base 1.1.2+dfsg _ZNK6SeqLib9BamRecord14GetSmartIntTagERKNSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEE@Base 1.1.1+dfsg - _ZNK6SeqLib9BamRecord14ParseReadGroupB5cxx11Ev@Base 1.1.2+dfsg +#MISSING: 1.1.2+dfsg-3# _ZNK6SeqLib9BamRecord14ParseReadGroupB5cxx11Ev@Base 1.1.2+dfsg _ZNK6SeqLib9BamRecord15AsGenomicRegionEv@Base 1.1.1+dfsg _ZNK6SeqLib9BamRecord15PairOrientationEv@Base 1.1.2+dfsg _ZNK6SeqLib9BamRecord15PositionEndMateEv@Base 1.1.2+dfsg @@ -243,20 +245,22 @@ _ZNKSt10_HashtableINSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEESt4pairIKS5_N6SeqLib4_BamEESaISA_ENSt8__detail10_Select1stESt8equal_toIS5_ESt4hashIS5_ENSC_18_Mod_range_hashingENSC_20_Default_ranged_hashENSC_20_Prime_rehash_policyENSC_17_Hashtable_traitsILb1ELb0ELb1EEEE5countERS7_@Base 1.1.1+dfsg _ZNKSt10_HashtableINSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEESt4pairIKS5_iESaIS8_ENSt8__detail10_Select1stESt8equal_toIS5_ESt4hashIS5_ENSA_18_Mod_range_hashingENSA_20_Default_ranged_hashENSA_20_Prime_rehash_policyENSA_17_Hashtable_traitsILb1ELb0ELb1EEEE19_M_find_before_nodeEmRS7_m@Base 1.1.1+dfsg _ZNKSt5ctypeIcE8do_widenEc@Base 1.1.1+dfsg - 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--- Begin Message ---Source: libseqlib Source-Version: 1.1.2+dfsg-4 We believe that the bug you reported is fixed in the latest version of libseqlib, 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 925...@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 libseqlib 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: Tue, 20 Aug 2019 15:52:14 +0200 Source: libseqlib Binary: libseqlib1 libseqlib-dev Architecture: source Version: 1.1.2+dfsg-4 Distribution: unstable Urgency: medium Maintainer: Debian Med Packaging Team <debian-med-packag...@lists.alioth.debian.org> Changed-By: Andreas Tille <ti...@debian.org> Description: libseqlib-dev - C++ htslib/bwa-mem/fermi interface for interrogating sequence dat libseqlib1 - C++ htslib/bwa-mem/fermi interface for interrogating sequence dat Closes: 925759 Changes: libseqlib (1.1.2+dfsg-4) unstable; urgency=medium . * Adapt symbols to new version of gcc Closes: #925759 * debhelper-compat 12 * Standards-Version: 4.4.0 * libseqlib-dev: Depends: libssw-dev * Add lintian-overrides for libraries not found by pkgconfig Checksums-Sha1: 2d4430493232cb8ae112bf54aa4a801de6afb924 2210 libseqlib_1.1.2+dfsg-4.dsc 41f675db47fdcb54d954e32f76fff9b577d82b9a 11756 libseqlib_1.1.2+dfsg-4.debian.tar.xz Checksums-Sha256: e7d674c0827191475985593e918c85ec1567325a7830cec5764d0d5edc1c910b 2210 libseqlib_1.1.2+dfsg-4.dsc 4577ed33e3271f6af1fbf96fec25d661569ee63bd01d7dbf0fa82769e9064eb1 11756 libseqlib_1.1.2+dfsg-4.debian.tar.xz Files: 4e7c1fdfe8d755bab41e058125e12ac4 2210 science optional libseqlib_1.1.2+dfsg-4.dsc dcee4a03c305fd03c63c126cc0d2e2bf 11756 science optional libseqlib_1.1.2+dfsg-4.debian.tar.xz -----BEGIN PGP SIGNATURE----- iQJFBAEBCAAvFiEE8fAHMgoDVUHwpmPKV4oElNHGRtEFAl1b/BoRHHRpbGxlQGRl Ymlhbi5vcmcACgkQV4oElNHGRtEkQQ/+Kh39p8SQbWnPfXFzevuT6lInwt3CorP/ 2l87VAqrJtF9QHA9r0hyovVhlzU1QEvAT+P8cQY62t9Ovxi4AG/Tn1H8RgyyNXGc n2wuBAU0Ugp3L1BHAWouqGz9Tm/47JMnWoLwpzGDts9kmdYRwO13Zj7VkDOcRNRD Ru00dKv7IHGYVT3SUIgDhyrYsBmtFR/gzHmdV3au98lhr4BqqLK7wX9EpyAm5fX8 2J3BlSgEqAFi3g6P1Lu2Bifck5+W2UjM0swlOHubQWVgk12FEYLJn+rCiThu5vMM fbkaUDt+5Rby7FGneHzV3fyYnyzisk1UGQLWOGjo37Nev/Q6tb0yXEJm0INtxNMe aCVu0J+ENxHmOs2uOrBRmWm+H9VoPqHSwf1HBXh9ACT504HLoscVzk4QaealZnJB bVjqnTjhwVR9X3jiV2tIXRmFgqPiLooADVzOT8Eh39GEvSMc6OqdriaOM0E/1lsI 2WNOOtLTWzNeZKXVeH4ZLd+DkXO6zl1FTdhBYu01RVhDBfFTMIv7yGN5VNt5Wh9a 4AYJusWLeON0Tut64D+vC8qK0qiyG8Ag/6kl91D4UmRozxyNQd3P2SM7LHWcJaRI lQ/bQkQ14CKt164O2edOmfV/IayGdIv9za6rlZJTHtVgjgsq8OqLS/utDe4W8sCx 5JYP/JhZ2P8= =3Hta -----END PGP SIGNATURE-----
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