Public bug reported: bcftools currently FTBFS on yakkety-proposed for i386, powerpc, s390x due to failing tests.
Number of failures per arch: - i386: 74 - s390x: 10 - powerpc: 6 This numbers are bigger than the tests listed bellow because some tests are repeated with different arguments. Some of those failures are related to Debian's 819617 bug, which seems to be related to nan handling by both bcftools and hts. This has also been reported upstream @ https://github.com/samtools/bcftools/issues/389 The discussion upstream includes an issue about chars being unsigned on some archs, but that has already been fixed for 1.3.1 (current version we are using). Of those, only the test merge.4.out fails on the 3 archs and is also the only failure in common between i386 and the other 2 archs. s390x and powerpc have 5 common failures: - idx_count.out - idx.out - large_chrom.20.1.2147483647.out - large_chrom_csi_limit.20.1.2147483647.out - merge.4.out In addition to that s390x also fails on convert.gt.noHead.vcf. The i386 exclusive failures are: annotate.out annotate2.out annotate3.out annotate4.out annotate5.out annotate8.out annotate9.out annotate10.out filter.2.out merge.abc.out merge.2.all.out merge.2.both.out merge.2.none.out merge.3.out norm.merge.out norm.merge.strict.out norm.split.and.norm.out norm.split.out norm.merge.3.out query.12.out query.20.out query.21.out view.vectors.A.out view.vectors.B.out view.filter.1.out view.filter.2.out view.filter.3.out view.filter.4.out view.filter.5.out view.filter.6.out view.filter.7.out view.filter.8.out view.filter.9.out view.filter.10.out view.filter.11.out view.filter.annovar.1.out The amount of test failures reported is bigger than the amount of tests listed above because some tests are run more than once with different arguments. Failure example on i386 (slight edited for clarity): $ wdiff -3 test/merge.4.out test/merge.4.out.new ====================================================================== [-TR=1,2,2;TA=1,1;TG=1,2,3,2,.,3;AN=8;AC=2,2-] {+TR=1,2,2;TA=1,1;TG=1,2,3,2,nan,3;AN=8;AC=2,2+} ====================================================================== [-TR=1,2,2;TA=1,1;TG=1,2,3,2,.,3;AN=8;AC=2,2-] {+TR=1,2,2;TA=1,1;TG=1,2,3,2,nan,3;AN=8;AC=2,2+} ====================================================================== [-0/1:245,245,-1.56481e-39,.,.,.:.:.:.:. 0/1:245,-1.56481e-39,1.09706e-28,.,.,.:.:.:.:. 0/2:.:.:.:.:245 0/2:.:.:.:.:245-] {+0/1:245,245,-1.56481e-39,nan,nan,nan:.:.:.:. 0/1:245,-1.56481e-39,1.09706e-28,nan,nan,nan:.:.:.:. 0/2:nan,nan,nan,nan,nan,nan:.:.:.:245 0/2:nan,nan,nan,nan,nan,nan:.:.:.:245+} ====================================================================== [-TR=1,2,2;TA=1,1;TG=1,2,3,2,.,3;AN=8;AC=2,2-] {+TR=1,2,2;TA=1,1;TG=1,2,3,2,nan,3;AN=8;AC=2,2+} ====================================================================== [-0/1:245,245,-1.56481e-39,.,.,.:.:.:.:. 0/1:245,-1.56481e-39,1.09706e-28,.,.,.:.:.:.:. 0/2:.:.:.:.:245 0/2:.:1,.,2:.,2:1,.,.,2,.,3:245-] {+0/1:245,245,-1.56481e-39,nan,nan,nan:.:.:.:. 0/1:245,-1.56481e-39,1.09706e-28,nan,nan,nan:.:.:.:. 0/2:nan,nan,nan,nan,nan,nan:.:.:.:245 0/2:nan,nan,nan,nan,nan,nan:1,.,2:.,2:1,.,.,2,.,3:245+} ====================================================================== ** Affects: bcftools (Ubuntu) Importance: Undecided Status: New ** Affects: bcftools (Debian) Importance: Unknown Status: Unknown ** Bug watch added: Debian Bug tracker #819617 http://bugs.debian.org/cgi-bin/bugreport.cgi?bug=819617 ** Also affects: bcftools (Debian) via http://bugs.debian.org/cgi-bin/bugreport.cgi?bug=819617 Importance: Unknown Status: Unknown -- You received this bug notification because you are a member of Ubuntu Bugs, which is subscribed to Ubuntu. https://bugs.launchpad.net/bugs/1619530 Title: bcftools FTBFS on i386, powerpc, s390x due to failing tests To manage notifications about this bug go to: https://bugs.launchpad.net/ubuntu/+source/bcftools/+bug/1619530/+subscriptions -- ubuntu-bugs mailing list ubuntu-bugs@lists.ubuntu.com https://lists.ubuntu.com/mailman/listinfo/ubuntu-bugs
