Your message dated Sat, 7 May 2016 22:26:10 +0900 with message-id <20160507132610.GA16724@bubu.igloo> and subject line Re: fails to build against htslib 1.3.1 has caused the Debian Bug report #822741, regarding htslib 1.3.1 breaks samtools 1.3, at least at build time. 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.) -- 822741: http://bugs.debian.org/cgi-bin/bugreport.cgi?bug=822741 Debian Bug Tracking System Contact ow...@bugs.debian.org with problems
--- Begin Message ---Source: samtools Version: 1.3-1 Severity: serious Justification: fails to build from source User: reproducible-bui...@lists.alioth.debian.org Usertags: ftbfs X-Debbugs-Cc: reproducible-bui...@lists.alioth.debian.org Dear Maintainer, samtools fails to build from source in unstable/amd64: [..] Generate CRAM file #2 .. ok Generating test data file .................. done Generate BAM file #3 .. ok Generate CRAM file #3 .. ok Generating test data file .................. done Generate BAM file #4 .. ok Generate CRAM file #4 .. ok 1: cat BAM files .. ok 2: cat recompressed BAM files .. ok 3: cat CRAM files .. ok 4: cat BAM files to stdout .. ok 5: cat recompressed BAM files to stdout .. ok 6: cat CRAM files to stdout .. ok 7: cat BAM files with new header .. ok 8: cat recompressed BAM files with new header .. ok 9: cat CRAM files with new header .. ok test_bam2fq: Generate BAM file .. ok Generate CRAM file .. ok 1: fastq (SAM input) [M::bam2fq_mainloop] processed 36 reads .. ok 2: fastq -n (SAM input) [M::bam2fq_mainloop] processed 36 reads .. ok 3: fastq (BAM input) [M::bam2fq_mainloop] processed 36 reads .. ok 4: fastq -n (BAM input) [M::bam2fq_mainloop] processed 36 reads .. ok 5: fastq (CRAM input) [M::bam2fq_mainloop] processed 36 reads .. ok 6: fastq -n (CRAM input) [M::bam2fq_mainloop] processed 36 reads .. ok test_bam2fq: /home/lamby/temp/cdt.20160426185936.tgPyaYKRDx.samtools/samtools-1.3/samtools fastq -1 /home/lamby/temp/cdt.20160426185936.tgPyaYKRDx.samtools/samtools-1.3/test/1.fq -2 /home/lamby/temp/cdt.20160426185936.tgPyaYKRDx.samtools/samtools-1.3/test/2.fq /home/lamby/temp/cdt.20160426185936.tgPyaYKRDx.samtools/samtools-1.3/test/dat/bam2fq.001.sam .. ok test_bam2fq: /home/lamby/temp/cdt.20160426185936.tgPyaYKRDx.samtools/samtools-1.3/samtools fastq -s /home/lamby/temp/cdt.20160426185936.tgPyaYKRDx.samtools/samtools-1.3/test/s.fq -1 /home/lamby/temp/cdt.20160426185936.tgPyaYKRDx.samtools/samtools-1.3/test/1.fq -2 /home/lamby/temp/cdt.20160426185936.tgPyaYKRDx.samtools/samtools-1.3/test/2.fq /home/lamby/temp/cdt.20160426185936.tgPyaYKRDx.samtools/samtools-1.3/test/dat/bam2fq.001.sam .. ok test_bam2fq: /home/lamby/temp/cdt.20160426185936.tgPyaYKRDx.samtools/samtools-1.3/samtools fastq -s /home/lamby/temp/cdt.20160426185936.tgPyaYKRDx.samtools/samtools-1.3/test/s.fq -1 /home/lamby/temp/cdt.20160426185936.tgPyaYKRDx.samtools/samtools-1.3/test/1.fq -2 /home/lamby/temp/cdt.20160426185936.tgPyaYKRDx.samtools/samtools-1.3/test/2.fq /home/lamby/temp/cdt.20160426185936.tgPyaYKRDx.samtools/samtools-1.3/test/dat/bam2fq.002.sam .. ok test_bam2fq: /home/lamby/temp/cdt.20160426185936.tgPyaYKRDx.samtools/samtools-1.3/samtools fastq -s /home/lamby/temp/cdt.20160426185936.tgPyaYKRDx.samtools/samtools-1.3/test/s.fq -1 /home/lamby/temp/cdt.20160426185936.tgPyaYKRDx.samtools/samtools-1.3/test/1.fq -2 /home/lamby/temp/cdt.20160426185936.tgPyaYKRDx.samtools/samtools-1.3/test/2.fq /home/lamby/temp/cdt.20160426185936.tgPyaYKRDx.samtools/samtools-1.3/test/dat/bam2fq.003.sam .. ok test_depad: Generate BAM file .. ok depad (SAM input) .. ok depad -s (SAM input) .. ok depad -u (SAM input) .. ok depad -1 (SAM input) .. ok depad (BAM input) .. ok depad -s (BAM input) .. ok depad -u (BAM input) .. ok depad -1 (BAM input) .. ok test_stats: /home/lamby/temp/cdt.20160426185936.tgPyaYKRDx.samtools/samtools-1.3/samtools stats -r /home/lamby/temp/cdt.20160426185936.tgPyaYKRDx.samtools/samtools-1.3/test/stat/test.fa /home/lamby/temp/cdt.20160426185936.tgPyaYKRDx.samtools/samtools-1.3/test/stat/1_map_cigar.sam | tail -n+4 .. ok test_stats: /home/lamby/temp/cdt.20160426185936.tgPyaYKRDx.samtools/samtools-1.3/samtools stats -r /home/lamby/temp/cdt.20160426185936.tgPyaYKRDx.samtools/samtools-1.3/test/stat/test.fa /home/lamby/temp/cdt.20160426185936.tgPyaYKRDx.samtools/samtools-1.3/test/stat/2_equal_cigar_full_seq.sam | tail -n+4 .. ok test_stats: /home/lamby/temp/cdt.20160426185936.tgPyaYKRDx.samtools/samtools-1.3/samtools stats -r /home/lamby/temp/cdt.20160426185936.tgPyaYKRDx.samtools/samtools-1.3/test/stat/test.fa /home/lamby/temp/cdt.20160426185936.tgPyaYKRDx.samtools/samtools-1.3/test/stat/3_map_cigar_equal_seq.sam | tail -n+4 .. ok test_stats: /home/lamby/temp/cdt.20160426185936.tgPyaYKRDx.samtools/samtools-1.3/samtools stats -r /home/lamby/temp/cdt.20160426185936.tgPyaYKRDx.samtools/samtools-1.3/test/stat/test.fa /home/lamby/temp/cdt.20160426185936.tgPyaYKRDx.samtools/samtools-1.3/test/stat/4_X_cigar_full_seq.sam | tail -n+4 .. ok test_stats: /home/lamby/temp/cdt.20160426185936.tgPyaYKRDx.samtools/samtools-1.3/samtools stats -r /home/lamby/temp/cdt.20160426185936.tgPyaYKRDx.samtools/samtools-1.3/test/stat/test.fa /home/lamby/temp/cdt.20160426185936.tgPyaYKRDx.samtools/samtools-1.3/test/stat/5_insert_cigar.sam | tail -n+4 .. ok test_stats: /home/lamby/temp/cdt.20160426185936.tgPyaYKRDx.samtools/samtools-1.3/samtools stats -r /home/lamby/temp/cdt.20160426185936.tgPyaYKRDx.samtools/samtools-1.3/test/stat/test.fa -i 0 /home/lamby/temp/cdt.20160426185936.tgPyaYKRDx.samtools/samtools-1.3/test/stat/5_insert_cigar.sam | tail -n+4 .. ok test_stats: /home/lamby/temp/cdt.20160426185936.tgPyaYKRDx.samtools/samtools-1.3/samtools stats -r /home/lamby/temp/cdt.20160426185936.tgPyaYKRDx.samtools/samtools-1.3/test/stat/test.fa /home/lamby/temp/cdt.20160426185936.tgPyaYKRDx.samtools/samtools-1.3/test/stat/7_supp.sam | tail -n+4 .. ok test_stats: /home/lamby/temp/cdt.20160426185936.tgPyaYKRDx.samtools/samtools-1.3/samtools stats -r /home/lamby/temp/cdt.20160426185936.tgPyaYKRDx.samtools/samtools-1.3/test/stat/test.fa /home/lamby/temp/cdt.20160426185936.tgPyaYKRDx.samtools/samtools-1.3/test/stat/8_secondary.sam | tail -n+4 .. ok test_stats: /home/lamby/temp/cdt.20160426185936.tgPyaYKRDx.samtools/samtools-1.3/samtools stats -S RG -r /home/lamby/temp/cdt.20160426185936.tgPyaYKRDx.samtools/samtools-1.3/test/stat/test.fa /home/lamby/temp/cdt.20160426185936.tgPyaYKRDx.samtools/samtools-1.3/test/stat/1_map_cigar.sam | tail -n+4 .. ok test_stats: /home/lamby/temp/cdt.20160426185936.tgPyaYKRDx.samtools/samtools-1.3/samtools stats -S RG -r /home/lamby/temp/cdt.20160426185936.tgPyaYKRDx.samtools/samtools-1.3/test/stat/test.fa /home/lamby/temp/cdt.20160426185936.tgPyaYKRDx.samtools/samtools-1.3/test/stat/10_map_cigar.sam | tail -n+4 .. ok test_merge: /home/lamby/temp/cdt.20160426185936.tgPyaYKRDx.samtools/samtools-1.3/samtools merge -s 1 - /home/lamby/temp/cdt.20160426185936.tgPyaYKRDx.samtools/samtools-1.3/test/dat/test_input_1_a.sam /home/lamby/temp/cdt.20160426185936.tgPyaYKRDx.samtools/samtools-1.3/test/dat/test_input_1_b.sam /home/lamby/temp/cdt.20160426185936.tgPyaYKRDx.samtools/samtools-1.3/test/dat/test_input_1_c.sam .. ok test_merge: /home/lamby/temp/cdt.20160426185936.tgPyaYKRDx.samtools/samtools-1.3/samtools merge -s 1 - /home/lamby/temp/cdt.20160426185936.tgPyaYKRDx.samtools/samtools-1.3/test/dat/test_input_1_a.bam /home/lamby/temp/cdt.20160426185936.tgPyaYKRDx.samtools/samtools-1.3/test/dat/test_input_1_b.bam /home/lamby/temp/cdt.20160426185936.tgPyaYKRDx.samtools/samtools-1.3/test/dat/test_input_1_c.bam .. ok test_merge: /home/lamby/temp/cdt.20160426185936.tgPyaYKRDx.samtools/samtools-1.3/samtools merge -s 1 -b /tmp/FjwTLcIMVX - /home/lamby/temp/cdt.20160426185936.tgPyaYKRDx.samtools/samtools-1.3/test/dat/test_input_1_a.bam .. ok test_merge: /home/lamby/temp/cdt.20160426185936.tgPyaYKRDx.samtools/samtools-1.3/samtools merge -s 1 - /home/lamby/temp/cdt.20160426185936.tgPyaYKRDx.samtools/samtools-1.3/test/dat/test_input_1_b.bam .. ok test_merge: /home/lamby/temp/cdt.20160426185936.tgPyaYKRDx.samtools/samtools-1.3/samtools merge -r -s 1 - /home/lamby/temp/cdt.20160426185936.tgPyaYKRDx.samtools/samtools-1.3/test/dat/test_input_1_a.sam /home/lamby/temp/cdt.20160426185936.tgPyaYKRDx.samtools/samtools-1.3/test/dat/test_input_1_b.sam /home/lamby/temp/cdt.20160426185936.tgPyaYKRDx.samtools/samtools-1.3/test/dat/test_input_1_c.sam .. ok test_merge: /home/lamby/temp/cdt.20160426185936.tgPyaYKRDx.samtools/samtools-1.3/samtools merge -cp -s 1 - /home/lamby/temp/cdt.20160426185936.tgPyaYKRDx.samtools/samtools-1.3/test/dat/test_input_1_a.sam /home/lamby/temp/cdt.20160426185936.tgPyaYKRDx.samtools/samtools-1.3/test/dat/test_input_1_b.sam .. ok test_merge: /home/lamby/temp/cdt.20160426185936.tgPyaYKRDx.samtools/samtools-1.3/samtools merge -s 1 - /home/lamby/temp/cdt.20160426185936.tgPyaYKRDx.samtools/samtools-1.3/test/dat/test_input_1_a_regex.sam /home/lamby/temp/cdt.20160426185936.tgPyaYKRDx.samtools/samtools-1.3/test/dat/test_input_1_b_regex.sam .. ok test_sort: /home/lamby/temp/cdt.20160426185936.tgPyaYKRDx.samtools/samtools-1.3/samtools sort /home/lamby/temp/cdt.20160426185936.tgPyaYKRDx.samtools/samtools-1.3/test/dat/test_input_1_a.bam /tmp/wocveQgKUk/sortout .. ok test_sort: /home/lamby/temp/cdt.20160426185936.tgPyaYKRDx.samtools/samtools-1.3/samtools sort -f /home/lamby/temp/cdt.20160426185936.tgPyaYKRDx.samtools/samtools-1.3/test/dat/test_input_1_a.bam /tmp/wocveQgKUk/sortout.bam .. ok test_sort: /home/lamby/temp/cdt.20160426185936.tgPyaYKRDx.samtools/samtools-1.3/samtools sort -o /home/lamby/temp/cdt.20160426185936.tgPyaYKRDx.samtools/samtools-1.3/test/dat/test_input_1_a.bam /tmp/wocveQgKUk/sorttmp .. ok test_fixmate: /home/lamby/temp/cdt.20160426185936.tgPyaYKRDx.samtools/samtools-1.3/samtools fixmate -O sam /home/lamby/temp/cdt.20160426185936.tgPyaYKRDx.samtools/samtools-1.3/test/fixmate/1_coord_sort.sam - ERR: [bam_mating_core] ERROR: Coordinate sorted, require grouped/sorted by queryname. .. expected failure test_fixmate: /home/lamby/temp/cdt.20160426185936.tgPyaYKRDx.samtools/samtools-1.3/samtools fixmate -O sam /home/lamby/temp/cdt.20160426185936.tgPyaYKRDx.samtools/samtools-1.3/test/fixmate/2_isize_overflow.sam - .. ok test_fixmate: /home/lamby/temp/cdt.20160426185936.tgPyaYKRDx.samtools/samtools-1.3/samtools fixmate -O sam /home/lamby/temp/cdt.20160426185936.tgPyaYKRDx.samtools/samtools-1.3/test/fixmate/3_reverse_read_pp_lt.sam - .. ok test_fixmate: /home/lamby/temp/cdt.20160426185936.tgPyaYKRDx.samtools/samtools-1.3/samtools fixmate -O sam /home/lamby/temp/cdt.20160426185936.tgPyaYKRDx.samtools/samtools-1.3/test/fixmate/4_reverse_read_pp_equal.sam - .. ok test_fixmate: /home/lamby/temp/cdt.20160426185936.tgPyaYKRDx.samtools/samtools-1.3/samtools fixmate -cO sam /home/lamby/temp/cdt.20160426185936.tgPyaYKRDx.samtools/samtools-1.3/test/fixmate/5_ct.sam - .. ok test_fixmate: /home/lamby/temp/cdt.20160426185936.tgPyaYKRDx.samtools/samtools-1.3/samtools fixmate -cO sam /home/lamby/temp/cdt.20160426185936.tgPyaYKRDx.samtools/samtools-1.3/test/fixmate/6_ct_replace.sam - .. ok /home/lamby/temp/cdt.20160426185936.tgPyaYKRDx.samtools/samtools-1.3/samtools calmd -uAr /home/lamby/temp/cdt.20160426185936.tgPyaYKRDx.samtools/samtools-1.3/test/dat/mpileup.1.sam /home/lamby/temp/cdt.20160426185936.tgPyaYKRDx.samtools/samtools-1.3/test/dat/mpileup.ref.fa .. ok test_idxstat: /home/lamby/temp/cdt.20160426185936.tgPyaYKRDx.samtools/samtools-1.3/samtools idxstats /home/lamby/temp/cdt.20160426185936.tgPyaYKRDx.samtools/samtools-1.3/test/dat/test_input_1_a.bam .. ok test_quickcheck: /home/lamby/temp/cdt.20160426185936.tgPyaYKRDx.samtools/samtools-1.3/samtools quickcheck /home/lamby/temp/cdt.20160426185936.tgPyaYKRDx.samtools/samtools-1.3/test/quickcheck/1.quickcheck.badeof.bam .. ok test_quickcheck: /home/lamby/temp/cdt.20160426185936.tgPyaYKRDx.samtools/samtools-1.3/samtools quickcheck /home/lamby/temp/cdt.20160426185936.tgPyaYKRDx.samtools/samtools-1.3/test/quickcheck/2.quickcheck.badheader.bam .. ok test_quickcheck: /home/lamby/temp/cdt.20160426185936.tgPyaYKRDx.samtools/samtools-1.3/samtools quickcheck /home/lamby/temp/cdt.20160426185936.tgPyaYKRDx.samtools/samtools-1.3/test/quickcheck/3.quickcheck.ok.bam .. ok test_quickcheck: /home/lamby/temp/cdt.20160426185936.tgPyaYKRDx.samtools/samtools-1.3/samtools quickcheck /home/lamby/temp/cdt.20160426185936.tgPyaYKRDx.samtools/samtools-1.3/test/quickcheck/4.quickcheck.ok.bam .. ok test_quickcheck: /home/lamby/temp/cdt.20160426185936.tgPyaYKRDx.samtools/samtools-1.3/samtools quickcheck -v /home/lamby/temp/cdt.20160426185936.tgPyaYKRDx.samtools/samtools-1.3/test/quickcheck/1.quickcheck.badeof.bam /home/lamby/temp/cdt.20160426185936.tgPyaYKRDx.samtools/samtools-1.3/test/quickcheck/2.quickcheck.badheader.bam /home/lamby/temp/cdt.20160426185936.tgPyaYKRDx.samtools/samtools-1.3/test/quickcheck/3.quickcheck.ok.bam /home/lamby/temp/cdt.20160426185936.tgPyaYKRDx.samtools/samtools-1.3/test/quickcheck/4.quickcheck.ok.bam | sed 's,.*/quickcheck/,,' .. ok test_reheader: /home/lamby/temp/cdt.20160426185936.tgPyaYKRDx.samtools/samtools-1.3/samtools reheader /home/lamby/temp/cdt.20160426185936.tgPyaYKRDx.samtools/samtools-1.3/test/reheader/hdr.sam /home/lamby/temp/cdt.20160426185936.tgPyaYKRDx.samtools/samtools-1.3/test/dat/view.001.tmp.bam | /home/lamby/temp/cdt.20160426185936.tgPyaYKRDx.samtools/samtools-1.3/samtools view -h | perl -pe 's/ VN:.*//' .. ok test_reheader: /home/lamby/temp/cdt.20160426185936.tgPyaYKRDx.samtools/samtools-1.3/samtools reheader /home/lamby/temp/cdt.20160426185936.tgPyaYKRDx.samtools/samtools-1.3/test/reheader/hdr.sam /home/lamby/temp/cdt.20160426185936.tgPyaYKRDx.samtools/samtools-1.3/test/dat/view.001.tmp.v21.cram | /home/lamby/temp/cdt.20160426185936.tgPyaYKRDx.samtools/samtools-1.3/samtools view -h | perl -pe 's/ VN:.*//' .. ok test_reheader: /home/lamby/temp/cdt.20160426185936.tgPyaYKRDx.samtools/samtools-1.3/samtools reheader /home/lamby/temp/cdt.20160426185936.tgPyaYKRDx.samtools/samtools-1.3/test/reheader/hdr.sam /home/lamby/temp/cdt.20160426185936.tgPyaYKRDx.samtools/samtools-1.3/test/dat/view.001.tmp.v30.cram | /home/lamby/temp/cdt.20160426185936.tgPyaYKRDx.samtools/samtools-1.3/samtools view -h | perl -pe 's/ VN:.*//' .. ok test_reheader: /home/lamby/temp/cdt.20160426185936.tgPyaYKRDx.samtools/samtools-1.3/samtools reheader --in-place /home/lamby/temp/cdt.20160426185936.tgPyaYKRDx.samtools/samtools-1.3/test/reheader/hdr.sam /home/lamby/temp/cdt.20160426185936.tgPyaYKRDx.samtools/samtools-1.3/test/dat/view.001.tmp.v21.cram && /home/lamby/temp/cdt.20160426185936.tgPyaYKRDx.samtools/samtools-1.3/samtools view -h /home/lamby/temp/cdt.20160426185936.tgPyaYKRDx.samtools/samtools-1.3/test/dat/view.001.tmp.v21.cram | perl -pe 's/ VN:.*//' .. ok test_reheader: /home/lamby/temp/cdt.20160426185936.tgPyaYKRDx.samtools/samtools-1.3/samtools reheader --in-place /home/lamby/temp/cdt.20160426185936.tgPyaYKRDx.samtools/samtools-1.3/test/reheader/hdr.sam /home/lamby/temp/cdt.20160426185936.tgPyaYKRDx.samtools/samtools-1.3/test/dat/view.001.tmp.v30.cram && /home/lamby/temp/cdt.20160426185936.tgPyaYKRDx.samtools/samtools-1.3/samtools view -h /home/lamby/temp/cdt.20160426185936.tgPyaYKRDx.samtools/samtools-1.3/test/dat/view.001.tmp.v30.cram | perl -pe 's/ VN:.*//' .. ok test_addrprg: /home/lamby/temp/cdt.20160426185936.tgPyaYKRDx.samtools/samtools-1.3/samtools addreplacerg -O sam -m overwrite_all /home/lamby/temp/cdt.20160426185936.tgPyaYKRDx.samtools/samtools-1.3/test/addrprg/1_fixup.sam .. ok test_addrprg: /home/lamby/temp/cdt.20160426185936.tgPyaYKRDx.samtools/samtools-1.3/samtools addreplacerg -O sam -m orphan_only /home/lamby/temp/cdt.20160426185936.tgPyaYKRDx.samtools/samtools-1.3/test/addrprg/2_fixup_orphan.sam .. ok test_addrprg: /home/lamby/temp/cdt.20160426185936.tgPyaYKRDx.samtools/samtools-1.3/samtools addreplacerg -O sam -R '1#7' /home/lamby/temp/cdt.20160426185936.tgPyaYKRDx.samtools/samtools-1.3/test/addrprg/1_fixup.sam .. ok test_addrprg: /home/lamby/temp/cdt.20160426185936.tgPyaYKRDx.samtools/samtools-1.3/samtools addreplacerg -O sam -r '@RG\tID:1#8\tCN:SC' /home/lamby/temp/cdt.20160426185936.tgPyaYKRDx.samtools/samtools-1.3/test/addrprg/4_fixup_norg.sam .. ok test_addrprg: /home/lamby/temp/cdt.20160426185936.tgPyaYKRDx.samtools/samtools-1.3/samtools addreplacerg -O sam -m overwrite_all -R '1#8' /home/lamby/temp/cdt.20160426185936.tgPyaYKRDx.samtools/samtools-1.3/test/addrprg/1_fixup.sam .. ok test_addrprg: /home/lamby/temp/cdt.20160426185936.tgPyaYKRDx.samtools/samtools-1.3/samtools addreplacerg -O sam -r 'ID:1#8' -r 'CN:SC' /home/lamby/temp/cdt.20160426185936.tgPyaYKRDx.samtools/samtools-1.3/test/addrprg/4_fixup_norg.sam .. ok Number of tests: total .. 416 passed .. 398 failed .. 0 expected failure .. 18 unexpected pass .. 0 test/merge/test_bam_translate test/merge/test_bam_translate.tmp test/merge/test_rtrans_build test/merge/test_trans_tbl_init cd test/mpileup && ./regression.sh mpileup.reg === 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 Expected failures: 0 Unexpected failures: 0 => FAIL Makefile:201: recipe for target 'test' failed make[2]: *** [test] Error 1 make[2]: Leaving directory '/home/lamby/temp/cdt.20160426185936.tgPyaYKRDx.samtools/samtools-1.3' dh_auto_test: make -j9 test VERBOSE=1 BGZIP=/usr/bin/bgzip returned exit code 2 debian/rules:25: recipe for target 'override_dh_auto_test' failed make[1]: *** [override_dh_auto_test] Error 2 make[1]: Leaving directory '/home/lamby/temp/cdt.20160426185936.tgPyaYKRDx.samtools/samtools-1.3' debian/rules:6: recipe for target 'build' failed make: *** [build] Error 2 [..] The full build log is attached. Regards, -- ,''`. : :' : Chris Lamb `. `'` la...@debian.org / chris-lamb.co.uk `-
samtools.1.3-1.unstable.amd64.log.txt.gz
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--- Begin Message ---Control: forwarded -1 https://github.com/samtools/htslib/issues/374 Le Wed, May 04, 2016 at 09:10:48PM +0900, Charles Plessy a écrit : > Le Wed, May 04, 2016 at 11:29:27AM +0200, Andreas Tille a écrit : > > > > that developers of quite important libs (important in terms of breaking > > about 20 packages - probably way more unpackaged software) are not able > > to craft a reliable interface. I wonder whether we should try to > > explain them the trouble they are creating with their release management > > and whether we should upload any new version to experimental first and > > test other packages against it. > > let's not discard too quickly the possibility that this was really a bug > and not a design decision. > > I reported the problem at <https://github.com/samtools/htslib/issues/374>; > let's see the answer. Good news, the answer is that the "incompatibility" is only in the test suite of samtools, which took into account a failure caused by a bug present in htslib 1.3 and fixed in htslib 1.3.1. I expect that it applies to bcftools as well. Have a nice week-end, -- Charles
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