Your message dated Wed, 4 May 2016 20:55:17 +0900
with message-id <[email protected]>
and subject line Re: Bug#822701: [Debian-med-packaging] Bug#822701: samtools:
FTBFS: UNEXPECTED PASS: Task worked when we expected failure;
has caused the Debian Bug report #822701,
regarding samtools 1.3 fails to build against htslib 1.3.1.
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 [email protected]
immediately.)
--
822701: http://bugs.debian.org/cgi-bin/bugreport.cgi?bug=822701
Debian Bug Tracking System
Contact [email protected] with problems
--- Begin Message ---
Source: samtools
Version: 1.3-1
Severity: serious
Justification: fails to build from source
User: [email protected]
Usertags: ftbfs
X-Debbugs-Cc: [email protected]
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
`. `'` [email protected] / chris-lamb.co.uk
`-
samtools.1.3-1.unstable.amd64.log.txt.gz
Description: Binary data
--- End Message ---
--- Begin Message ---
Version: 1.3.1-1
Le Wed, Apr 27, 2016 at 10:12:31AM +0900, Charles Plessy a écrit :
>
> this was a race condition where you built samtools 1.3-1 against htslib
> 1.3.1-1. Now, with samtools 1.3.1-1 which entered the archive yesterday, the
> reproducibility build should work (as it did on the buildds).
Closing with this email as I forgot to do it through the chagelog.
--
Charles
--- End Message ---
