Created attachment 485378 [details] build.log Summary of failures: =1.1 Fails as follows: The command failed [32512]: /var/tmp/portage/sci-biology/samtools-1.1/work/samtools-1.1/samtools faidx /var/tmp/portage/sci-biology/samtools-1.1/temp/f4mZWsdXqQ/faidx.fa out: err:/var/tmp/portage/sci-biology/samtools-1.1/work/samtools-1.1/samtools: error while loading shared libraries: libbam.so.1.0: cannot open shared object file: No such file or directory at test/test.pl line 67. main::error("The command failed [32512]: /var/tmp/portage/sci-biology/samt"..., "out:\x{a}", "err:/var/tmp/portage/sci-biology/samtools-1.1/work/samtools-1"...) called at test/test.pl line 138 main::cmd("/var/tmp/portage/sci-biology/samtools-1.1/work/samtools-1.1/s"...) called at test/test.pl line 390 main::test_faidx(HASH(0x17df1c0)) called at test/test.pl line 36 >=1.2 Fail tests as follows: === Testing mpileup.reg regressions === UNEXPECTED PASS: Task worked when we expected failure; when running $samtools mpileup -x -d 8500 -B -f mpileup.ref.fa deep.sam|awk '{print $4}' See PASS-47.out.1 vs expected/47.out Expected passes: 123 Unexpected passes: 1 ... test_index: /var/tmp/portage/sci-biology/samtools-1.3-r1/work/samtools-1.3/samtools index /var/tmp/portage/sci-biology/samtools-1.3-r1/temp/0ljAinDzjj/large_chrom.bam ERR: .. expected failure test_fixmate: /var/tmp/portage/sci-biology/samtools-1.3-r1/work/samtools-1.3/samtools fixmate -O sam /var/tmp/portage/sci-biology/samtools-1.3-r1/work/samtools-1.3/test/fixmate/1_coord_sort.sam - ERR: [bam_mating_core] ERROR: Coordinate sorted, require grouped/sorted by queryname. .. expected failure
commit 70386b8c804f2bf2fb7aca4be74d511d765ad1e4 Author: David Seifert <soap@gentoo.org> AuthorDate: Sat Sep 2 13:07:41 2017 +0200 Commit: David Seifert <soap@gentoo.org> CommitDate: Sat Sep 2 14:37:02 2017 +0200 sci-biology/samtools: Remove old Bug: https://bugs.gentoo.org/show_bug.cgi?id=548170 Bug: https://bugs.gentoo.org/show_bug.cgi?id=620618 Bug: https://bugs.gentoo.org/show_bug.cgi?id=625504
