Bug#762647: [Debian-med-packaging] Bug#762647: samtools: FTBFS: test suite errors
Le Thu, Jun 18, 2015 at 11:25:46PM -0400, Aaron M. Ucko a écrit : I'm glad to see those platforms are doing better now, but that was only part of the problem. There are still unexpected failures on i386 and kfreebsd-i386 (though the count's dropped from 95 to 2, a big improvement): UNEXPECTED FAIL: Output mismatch for $samtools mpileup -x -F 0.60 -u -f mpileup.ref.fa indels.bam|$filter|awk '/INDEL/' See FAIL-59.out.1 vs expected/59.out UNEXPECTED FAIL: Output mismatch for $samtools mpileup -x -F 0.60 -u -f mpileup.ref.fa indels.cram|$filter|awk '/INDEL/' See FAIL-59.out.2 vs expected/59.out Could you please look into them as well? Hi Aaron, failures on 32-bits platforms are expected to be fixed in the next upstream release. https://github.com/samtools/samtools/issues/305 I propose to wait for it. But if need is, it may be possible to backport the patches. Cheers, -- Charles -- To UNSUBSCRIBE, email to debian-bugs-dist-requ...@lists.debian.org with a subject of unsubscribe. Trouble? Contact listmas...@lists.debian.org
Bug#762647: [Debian-med-packaging] Bug#762647: samtools: FTBFS: test suite errors
Charles Plessy ple...@debian.org writes: failures on 32-bits platforms are expected to be fixed in the next upstream release. Glad to hear it! I propose to wait for it. But if need is, it may be possible to backport the patches. I'm fine with waiting, just want the bug to stay open until the fix reaches Debian. -- Aaron M. Ucko, KB1CJC (amu at alum.mit.edu, ucko at debian.org) http://www.mit.edu/~amu/ | http://stuff.mit.edu/cgi/finger/?a...@monk.mit.edu -- To UNSUBSCRIBE, email to debian-bugs-dist-requ...@lists.debian.org with a subject of unsubscribe. Trouble? Contact listmas...@lists.debian.org
Bug#762647: [Debian-med-packaging] Bug#762647: samtools: FTBFS: test suite errors
Le Tue, Sep 23, 2014 at 11:20:15PM -0400, Aaron M. Ucko a écrit : The builds of samtools for arm64 and ppc64el both failed because the first samtools faidx test hit the autobuilders' activity timeout. Given that these timeouts are generous (300 minutes for arm64, 150 for ppc64el), I suspect the test managed to hang on those systems. Meanwhile, the other builds attempted so far all encountered unexpected test failures -- 2 on kfreebsd-amd64, and 95 each on i386, kfreebsd-i386, and mipsel. Hi Aaron, regarding the test failures on the ‘stats’ command (2 unit failures), I reported the issue upstream and will implement a workaround if necessary. https://github.com/samtools/samtools/issues/300 The other failures and timeouts are probably symptoms of non-portability outside amd64. Some porters have contacted upstream on endianness issues, but I do not know if the problem is likely to be solved in the short term. https://github.com/samtools/samtools/issues/268 Have a nice day, -- Charles Plessy Debian Med packaging team, http://www.debian.org/devel/debian-med Tsurumi, Kanagawa, Japan -- To UNSUBSCRIBE, email to debian-bugs-dist-requ...@lists.debian.org with a subject of unsubscribe. Trouble? Contact listmas...@lists.debian.org
Bug#762647: [Debian-med-packaging] Bug#762647: samtools: FTBFS: test suite errors
Charles Plessy ple...@debian.org writes: The other failures and timeouts are probably symptoms of non-portability outside amd64. Some porters have contacted upstream on endianness issues, but I do not know if the problem is likely to be solved in the short term. Hi, Charles; thanks for the quick response! FWIW, the three architectures with 95 failures were all little-endian, but 32-bit. -- Aaron M. Ucko, KB1CJC (amu at alum.mit.edu, ucko at debian.org) http://www.mit.edu/~amu/ | http://stuff.mit.edu/cgi/finger/?a...@monk.mit.edu -- To UNSUBSCRIBE, email to debian-bugs-dist-requ...@lists.debian.org with a subject of unsubscribe. Trouble? Contact listmas...@lists.debian.org
