Your message dated Fri, 01 Sep 2017 22:26:03 +0000 with message-id <e1dnuo3-000ahy...@fasolo.debian.org> and subject line Bug#853687: fixed in trinityrnaseq 2.2.0+dfsg-3 has caused the Debian Bug report #853687, regarding trinityrnaseq: 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.) -- 853687: https://bugs.debian.org/cgi-bin/bugreport.cgi?bug=853687 Debian Bug Tracking System Contact ow...@bugs.debian.org with problems
--- Begin Message ---Package: src:trinityrnaseq Version: 2.2.0+dfsg-2 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/trinityrnaseq_2.2.0+dfsg-2_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]: Leaving directory '/<<BUILDDIR>>/trinityrnaseq-2.2.0+dfsg/Inchworm' make[3]: Leaving directory '/<<BUILDDIR>>/trinityrnaseq-2.2.0+dfsg/Inchworm' make[2]: Leaving directory '/<<BUILDDIR>>/trinityrnaseq-2.2.0+dfsg/Inchworm' make -j64 install DESTDIR=/<<BUILDDIR>>/trinityrnaseq-2.2.0\+dfsg/debian/tmp AM_UPDATE_INFO_DIR=no make[2]: Entering directory '/<<BUILDDIR>>/trinityrnaseq-2.2.0+dfsg/trinity-plugins/slclust' X=`pwd`; \ for i in src; \ do echo '<<<' $i '>>>'; cd $X/$i; make install; done <<< src >>> make[3]: Entering directory '/<<BUILDDIR>>/trinityrnaseq-2.2.0+dfsg/trinity-plugins/slclust/src' mv slclust ../bin/ make[3]: Leaving directory '/<<BUILDDIR>>/trinityrnaseq-2.2.0+dfsg/trinity-plugins/slclust/src' make[2]: Leaving directory '/<<BUILDDIR>>/trinityrnaseq-2.2.0+dfsg/trinity-plugins/slclust' make[1]: Leaving directory '/<<BUILDDIR>>/trinityrnaseq-2.2.0+dfsg' debian/rules override_dh_install-arch make[1]: Entering directory '/<<BUILDDIR>>/trinityrnaseq-2.2.0+dfsg' dh_install -a dh_install: Cannot find (any matches for) "Chrysalis/TranscriptomeFromVaryK" (tried in "." and "debian/tmp") dh_install: trinityrnaseq missing files: Chrysalis/TranscriptomeFromVaryK dh_install: Cannot find (any matches for) "Chrysalis/RunButterfly" (tried in "." and "debian/tmp") dh_install: trinityrnaseq missing files: Chrysalis/RunButterfly dh_install: Cannot find (any matches for) "Chrysalis/ReadsToTranscripts_MPI_chang" (tried in "." and "debian/tmp") dh_install: trinityrnaseq missing files: Chrysalis/ReadsToTranscripts_MPI_chang dh_install: Cannot find (any matches for) "Chrysalis/ReadsToTranscripts_MPI" (tried in "." and "debian/tmp") dh_install: trinityrnaseq missing files: Chrysalis/ReadsToTranscripts_MPI dh_install: Cannot find (any matches for) "Chrysalis/ReadsToTranscripts" (tried in "." and "debian/tmp") dh_install: trinityrnaseq missing files: Chrysalis/ReadsToTranscripts dh_install: Cannot find (any matches for) "Chrysalis/QuantifyGraph" (tried in "." and "debian/tmp") dh_install: trinityrnaseq missing files: Chrysalis/QuantifyGraph dh_install: Cannot find (any matches for) "Chrysalis/JoinTransByPairs" (tried in "." and "debian/tmp") dh_install: trinityrnaseq missing files: Chrysalis/JoinTransByPairs dh_install: Cannot find (any matches for) "Chrysalis/IsoformAugment" (tried in "." and "debian/tmp") dh_install: trinityrnaseq missing files: Chrysalis/IsoformAugment dh_install: Cannot find (any matches for) "Chrysalis/GraphFromFasta_MPI" (tried in "." and "debian/tmp") dh_install: trinityrnaseq missing files: Chrysalis/GraphFromFasta_MPI dh_install: Cannot find (any matches for) "Chrysalis/GraphFromFasta" (tried in "." and "debian/tmp") dh_install: trinityrnaseq missing files: Chrysalis/GraphFromFasta dh_install: Cannot find (any matches for) "Chrysalis/CreateIwormFastaBundle" (tried in "." and "debian/tmp") dh_install: trinityrnaseq missing files: Chrysalis/CreateIwormFastaBundle dh_install: Cannot find (any matches for) "Chrysalis/Chrysalis" (tried in "." and "debian/tmp") dh_install: trinityrnaseq missing files: Chrysalis/Chrysalis dh_install: Cannot find (any matches for) "Chrysalis/BreakTransByPairs" (tried in "." and "debian/tmp") dh_install: trinityrnaseq missing files: Chrysalis/BreakTransByPairs dh_install: missing files, aborting debian/rules:47: recipe for target 'override_dh_install-arch' failed make[1]: *** [override_dh_install-arch] Error 255 make[1]: Leaving directory '/<<BUILDDIR>>/trinityrnaseq-2.2.0+dfsg' debian/rules:20: recipe for target 'binary' failed make: *** [binary] Error 2 dpkg-buildpackage: error: fakeroot debian/rules binary gave error exit status 2
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--- Begin Message ---Source: trinityrnaseq Source-Version: 2.2.0+dfsg-3 We believe that the bug you reported is fixed in the latest version of trinityrnaseq, 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 trinityrnaseq 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, 01 Sep 2017 21:57:01 +0200 Source: trinityrnaseq Binary: trinityrnaseq trinityrnaseq-examples Architecture: source Version: 2.2.0+dfsg-3 Distribution: unstable Urgency: medium Maintainer: Debian Med Packaging Team <debian-med-packag...@lists.alioth.debian.org> Changed-By: Andreas Tille <ti...@debian.org> Description: trinityrnaseq - RNA-Seq De novo Assembly trinityrnaseq-examples - RNA-Seq De novo Assembly common example and testing files Closes: 853687 860645 865262 Changes: trinityrnaseq (2.2.0+dfsg-3) unstable; urgency=medium . * Team upload . [ Gert Wollny ] * Fix build gcc 7 Closes: #853687 . [ Andreas Tille ] * debhelper 10 Closes: #865262 * Standards-Version: 4.1.0 (no changes needed) * hardening=+all * remove unused lintian override * Build-Depends: bowtie2, yellyfish Closes: #860645 Checksums-Sha1: 94cab50c11af406f99336f251f62a4257b771cb0 2293 trinityrnaseq_2.2.0+dfsg-3.dsc 5c0b2e6604a80563dea1a69a46f7ad2d5a21a631 17064 trinityrnaseq_2.2.0+dfsg-3.debian.tar.xz 899b56415892ae0d67c3135aee13dea908aafbdd 14804 trinityrnaseq_2.2.0+dfsg-3_source.buildinfo Checksums-Sha256: 7c7faac8bd229484c81671d8012089aa7d912697791878b245fbe064cc32fb44 2293 trinityrnaseq_2.2.0+dfsg-3.dsc 7a281b231ebf345ed8ed676a02f445ef16ffd920a007e42fe658c2f8be0365c2 17064 trinityrnaseq_2.2.0+dfsg-3.debian.tar.xz e9ef0941b9ec965ef5ac8e81977eaab43bcae78eff53f567f774af21fdee8bcd 14804 trinityrnaseq_2.2.0+dfsg-3_source.buildinfo Files: f59ef1e20d21e24e7f28ad6a52252014 2293 science optional trinityrnaseq_2.2.0+dfsg-3.dsc 58b3ec11872ab51af218c568aa70d2d9 17064 science optional trinityrnaseq_2.2.0+dfsg-3.debian.tar.xz e43b01f3c4fbcd8c8af796bbe79eb2f1 14804 science optional trinityrnaseq_2.2.0+dfsg-3_source.buildinfo -----BEGIN PGP SIGNATURE----- iQJCBAEBCAAsFiEE8fAHMgoDVUHwpmPKV4oElNHGRtEFAlmp1zEOHHRpbGxlYUBy a2kuZGUACgkQV4oElNHGRtGYLQ/6Agi6t65zaMI8g9tqLiqvYCLK1h++OzIUvKhv OQ/kuY/R96YGvvDtTP6RCkIqEE3Sr4qgD8a91D4UmC4082bpJcpD2nK+tilHJ0Iq 5MpVN0NS1LKjWxcChe+1JmfANH4aUOkgcqs8Z+WBDqu2RtkvAPrcgD5p17Rt5KwD nOhSrhAmtqX9wW9Z0wkz78T1Hd8ymbWDqA0SPJq/+CRgoHNoqV9ELsnS+Ci/6SKh G5leZwOd0jmUwYA2P3Bj4gxH5YzUJITIudAtWckOpIktQKlnoN/gYGteueM/JDAD PdvgtMQ/CDmIwt0itIRTx15DOR65q/3ceO89Dd2brIgK69Ri6fAwc0rUyoy2Whj2 jLgvT8qaCnNha88L1bx4693Axa0XtauXPqw9ZYCw5LTIToRX3tFMXm7uv+tnKVKA zEVeTGierumRjv/xSQqjjry81wfrMd5ZHpYw1rqtRxHfN9VXKIlbxm2GMm8g3jXO 1pkAjUOwO4JfD6+LIxjJVF5kyw4rcJ0ef8uBok4Pzl3fJMbT1HMFsRZF5SIX5y/6 diF80l5j5bwdVACyczDjudlbKF6v52pKmkgrA6FENQl9yJA4tv76f73AZIUFYsxV xCfrxrZkIOUvE1/Cos4ogBbuw5rQXm8cmgkGSCrMsdxhfXDBJJMLcPxdoAEtOota K/DV/cg= =J6JP -----END PGP SIGNATURE-----
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