Your message dated Mon, 28 Dec 2015 07:49:04 +0000 with message-id <e1adsyc-0003p2...@franck.debian.org> and subject line Bug#809076: fixed in bowtie2 2.2.6-2 has caused the Debian Bug report #809076, regarding bowtie2: FTBFS when CPPFLAGS contains spaces 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.) -- 809076: http://bugs.debian.org/cgi-bin/bugreport.cgi?bug=809076 Debian Bug Tracking System Contact ow...@bugs.debian.org with problems
--- Begin Message ---Source: bowtie2 Version: 2.2.6-1 Severity: serious User: reproducible-bui...@lists.alioth.debian.org Usertags: timestamps fileordering X-Debbugs-Cc: reproducible-bui...@lists.alioth.debian.org Your package fails to build in current sid. This usually means that you should quote CPPFLAGS before passing it over. Tail of the build log: ld --parallel dh_testdir -O--parallel dh_auto_configure -O--parallel debian/rules override_dh_auto_build make[1]: Entering directory '/build/bowtie2-2.2.6' dh_auto_build -- EXTRA_FLAGS=-Wl,-z,relro CPPFLAGS=-Wdate-time -D_FORTIFY_SOURCE=2 WITH_TBB=1 make -j18 EXTRA_FLAGS=-Wl,-z,relro CPPFLAGS=-Wdate-time -D_FORTIFY_SOURCE=2 WITH_TBB=1 make: invalid option -- 'D' make: invalid option -- '_' make: invalid option -- 'F' Usage: make [options] [target] ... Options: -b, -m Ignored for compatibility. -B, --always-make Unconditionally make all targets. -C DIRECTORY, --directory=DIRECTORY Change to DIRECTORY before doing anything. -d Print lots of debugging information. --debug[=FLAGS] Print various types of debugging information. -e, --environment-overrides Environment variables override makefiles. --eval=STRING Evaluate STRING as a makefile statement. -f FILE, --file=FILE, --makefile=FILE Read FILE as a makefile. -h, --help Print this message and exit. -i, --ignore-errors Ignore errors from recipes. -I DIRECTORY, --include-dir=DIRECTORY Search DIRECTORY for included makefiles. -j [N], --jobs[=N] Allow N jobs at once; infinite jobs with no arg. -k, --keep-going Keep going when some targets can't be made. -l [N], --load-average[=N], --max-load[=N] Don't start multiple jobs unless load is below N. -L, --check-symlink-times Use the latest mtime between symlinks and target. -n, --just-print, --dry-run, --recon Don't actually run any recipe; just print them. -o FILE, --old-file=FILE, --assume-old=FILE Consider FILE to be very old and don't remake it. -O[TYPE], --output-sync[=TYPE] Synchronize output of parallel jobs by TYPE. -p, --print-data-base Print make's internal database. -q, --question Run no recipe; exit status says if up to date. -r, --no-builtin-rules Disable the built-in implicit rules. -R, --no-builtin-variables Disable the built-in variable settings. -s, --silent, --quiet Don't echo recipes. -S, --no-keep-going, --stop Turns off -k. -t, --touch Touch targets instead of remaking them. --trace Print tracing information. -v, --version Print the version number of make and exit. -w, --print-directory Print the current directory. --no-print-directory Turn off -w, even if it was turned on implicitly. -W FILE, --what-if=FILE, --new-file=FILE, --assume-new=FILE Consider FILE to be infinitely new. --warn-undefined-variables Warn when an undefined variable is referenced. This program built for x86_64-pc-linux-gnu Report bugs to <bug-m...@gnu.org> dh_auto_build: make -j18 EXTRA_FLAGS=-Wl,-z,relro CPPFLAGS=-Wdate-time -D_FORTIFY_SOURCE=2 WITH_TBB=1 returned exit code 2 debian/rules:21: recipe for target 'override_dh_auto_build' failed make[1]: *** [override_dh_auto_build] Error 2 make[1]: Leaving directory '/build/bowtie2-2.2.6' debian/rules:18: recipe for target 'build' failed make: *** [build] Error 2 dpkg-buildpackage: error: debian/rules build gave error exit status 2 -- regards, Mattia Rizzolo GPG Key: 66AE 2B4A FCCF 3F52 DA18 4D18 4B04 3FCD B944 4540 .''`. more about me: http://mapreri.org : :' : Launchpad user: https://launchpad.net/~mapreri `. `'` Debian QA page: https://qa.debian.org/developer.php?login=mattia `-
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--- Begin Message ---Source: bowtie2 Source-Version: 2.2.6-2 We believe that the bug you reported is fixed in the latest version of bowtie2, 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 809...@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 bowtie2 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: Mon, 28 Dec 2015 08:23:51 +0100 Source: bowtie2 Binary: bowtie2 bowtie2-examples Architecture: source amd64 all Version: 2.2.6-2 Distribution: unstable Urgency: medium Maintainer: Debian Med Packaging Team <debian-med-packag...@lists.alioth.debian.org> Changed-By: Andreas Tille <ti...@debian.org> Description: bowtie2 - ultrafast memory-efficient short read aligner bowtie2-examples - Examples for bowtie2 Closes: 809076 Changes: bowtie2 (2.2.6-2) unstable; urgency=medium . [ Charles Plessy ] * d/rules: quote variables contents passed to Makefile, closes: #809076. Checksums-Sha1: 026becccbcc0c5bfeaf896920ccc10e39b2a5da9 2158 bowtie2_2.2.6-2.dsc 75d2c3966f364917616438dc85d93bd30b5f71ec 7296 bowtie2_2.2.6-2.debian.tar.xz 676b293bc809fff146e65fc77ab5db2c58324913 9518966 bowtie2-dbgsym_2.2.6-2_amd64.deb c9f7c48d651c9566665c5f3c7c9f3d2b3d845ffd 4878566 bowtie2-examples_2.2.6-2_all.deb 1798f28fc882b6a868e74abc00241fb927be4613 1234100 bowtie2_2.2.6-2_amd64.deb Checksums-Sha256: 7c0956a118aba77a3e2510ab88bf8151752e887e649deea9e078edd2abd75404 2158 bowtie2_2.2.6-2.dsc 072e549308b1119a89f89b0d737c20f42232bf097229548221acb17f38a5cb8c 7296 bowtie2_2.2.6-2.debian.tar.xz 1b75753acb7485044d2db74424a3b118db0d91cf468b20a125a6bb1c76b300a8 9518966 bowtie2-dbgsym_2.2.6-2_amd64.deb 0165893415f83e3c44b74a95677edc7db2f1bed025f5c75d0eb04fdcb06b553c 4878566 bowtie2-examples_2.2.6-2_all.deb 6d13f303af03ac22a016119a37ab09b4db09ec5904e04b1e6678141db52170ad 1234100 bowtie2_2.2.6-2_amd64.deb Files: ea482c97ebef240f35538ec9b0a20c24 2158 science optional bowtie2_2.2.6-2.dsc ff402e5618b9111921c9646ef7bde749 7296 science optional bowtie2_2.2.6-2.debian.tar.xz de2bb1e087d42e2363bb8441b5140e25 9518966 debug extra bowtie2-dbgsym_2.2.6-2_amd64.deb 07a2a960282824bb025e18742d09a3b5 4878566 science optional bowtie2-examples_2.2.6-2_all.deb 4640ae9d9cd83c3462c82e2970c61e4c 1234100 science optional bowtie2_2.2.6-2_amd64.deb -----BEGIN PGP SIGNATURE----- Version: GnuPG v1 iQIcBAEBCAAGBQJWgOW0AAoJEFeKBJTRxkbRSOwQAJohPNAizTNY0QYKWkcmusOG AuJAAxuv3Dok4wQIzt819nXpb/963xiFDYIEGNjhTTqLu2mxzbY3TjeHATcLV9/X sPJTBlW5MJ49VQw38EOY1jpCXmBc3+QK48XoACYBAeYafeO2xyebZCdpw/4id/x8 8geqK5UrqKUn2X2wWbuK1zmrb/l8/qq/K8hcmgWzofKaMtnWbF1oRHfFhB+j5Ffw h6RuA//tKZKcQVuDHnDrz1qLxhq4izw4IUMVOAwdjJqxGUQBsrA5XOaXG5/IuACg Yrv0uBuqSO6Ppij9QRMhTywNHwSv11p02V3ySdDJfb8ylYMced05Z6DIXETDtJzQ sU3TJ0C0Bp1adcYgaqHQ03RcSFu7YZbUzuTLhH73bUTG+zX1XJYlIDNfppjZ7gcC Do3FojuWdhIhToaB+K1stH8b4Fasli/zdiLAMKQ5hlwNc035STsBmDlPvp29hdKK KipRqkFEHI1ObS0lisrWXi00qt2uxvs1KnKBoiCpkhjkuon8iEXrgl0J/0t0K15R rXzDcqMwyHHfIlq5RACI0i+l51YWtU4ZnXzk8HOCZemgv5r8oJw4murO1TaCLjyC fChn81UgJGQVmrAA7bE1vN+vFS5b7HZUWMhJtIjeo6asQmeJ5RToJ1U8rVnz7rT2 tqUdEXjvhLLXE/IUF/+6 =5ahl -----END PGP SIGNATURE-----
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