[med-svn] [Git][med-team/bcftools][master] 3 commits: d/watch: version=5
Andreas Tille (@tille)
gitlab at salsa.debian.org
Wed Sep 16 08:56:06 BST 2026
Andreas Tille pushed to branch master at Debian Med / bcftools
Commits:
aef1e6ee by Andreas Tille at 2026-09-16T09:49:02+02:00
d/watch: version=5
- - - - -
46bee527 by Andreas Tille at 2026-09-16T09:54:51+02:00
d/copyright: review; d/lrc.config: Exclude lots of false positives due to GPL only mentioned in LICENSE file
- - - - -
acc0349f by Andreas Tille at 2026-09-16T09:55:58+02:00
Do not depend on sse2-support since this is baseline now Closes: #1144268
- - - - -
5 changed files:
- debian/changelog
- debian/control
- debian/copyright
- + debian/lrc.config
- debian/watch
Changes:
=====================================
debian/changelog
=====================================
@@ -1,3 +1,15 @@
+bcftools (1.22-2) UNRELEASED; urgency=medium
+
+ * Team upload.
+ * d/watch: version=5
+ * d/copyright: review
+ * d/lrc.config: Exclude lots of false positives due to GPL only mentioned
+ in LICENSE file
+ * Do not depend on sse2-support since this is baseline now
+ Closes: #1144268
+
+ -- Andreas Tille <tille at debian.org> Wed, 16 Sep 2026 09:48:49 +0200
+
bcftools (1.22-1) unstable; urgency=medium
* Team upload.
=====================================
debian/control
=====================================
@@ -22,7 +22,6 @@ Package: bcftools
Architecture: any
Depends: ${shlibs:Depends},
${misc:Depends},
- sse2-support [i386]
Recommends: perl,
python3-gffutils,
python3-matplotlib
=====================================
debian/copyright
=====================================
@@ -20,6 +20,27 @@ Files: kmin.*
Copyright: 2008,2010 Attractive Chaos <attractor at live.co.uk>
License: MIT
+Files: utlist.h
+Copyright: 2007-2014, Troy D. Hanson
+License: BSD-1-clause
+ Redistribution and use in source and binary forms, with or without
+ modification, are permitted provided that the following conditions are met:
+ .
+ * Redistributions of source code must retain the above copyright
+ notice, this list of conditions and the following disclaimer.
+ .
+ THIS SOFTWARE IS PROVIDED BY THE COPYRIGHT HOLDERS AND CONTRIBUTORS "AS
+ IS" AND ANY EXPRESS OR IMPLIED WARRANTIES, INCLUDING, BUT NOT LIMITED
+ TO, THE IMPLIED WARRANTIES OF MERCHANTABILITY AND FITNESS FOR A
+ PARTICULAR PURPOSE ARE DISCLAIMED. IN NO EVENT SHALL THE COPYRIGHT OWNER
+ OR CONTRIBUTORS BE LIABLE FOR ANY DIRECT, INDIRECT, INCIDENTAL, SPECIAL,
+ EXEMPLARY, OR CONSEQUENTIAL DAMAGES (INCLUDING, BUT NOT LIMITED TO,
+ PROCUREMENT OF SUBSTITUTE GOODS OR SERVICES; LOSS OF USE, DATA, OR
+ PROFITS; OR BUSINESS INTERRUPTION) HOWEVER CAUSED AND ON ANY THEORY OF
+ LIABILITY, WHETHER IN CONTRACT, STRICT LIABILITY, OR TORT (INCLUDING
+ NEGLIGENCE OR OTHERWISE) ARISING IN ANY WAY OUT OF THE USE OF THIS
+ SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE.
+
Files: debian/*
Copyright: 2015-2016 Afif Elghraoui <afif at debian.org>
License: MIT
=====================================
debian/lrc.config
=====================================
@@ -0,0 +1,155 @@
+abuf.c
+abuf.h
+bam2bcf.c
+bam2bcf_edlib.c
+bam2bcf.h
+bam2bcf_iaux.c
+bam2bcf_indel.c
+bam_sample.c
+bam_sample.h
+bcftools.h
+bin.c
+bin.h
+call.h
+ccall.c
+cigar_state.h
+cols.c
+cols.h
+config.mk.in
+configure.ac
+consensus.c
+convert.c
+convert.h
+csq.c
+dbuf.h
+dist.c
+dist.h
+em.c
+extsort.c
+extsort.h
+filter.c
+filter.h
+gff.c
+gff.h
+gvcf.c
+gvcf.h
+hclust.c
+hclust.h
+hex.h
+HMM.c
+HMM.h
+khash_str2str.h
+kheap.h
+main.c
+Makefile
+mcall.c
+misc/color-chrs.pl
+misc/fix-broken-GATK-Double-vs-Integer
+misc/gencode-tables
+misc/gff2gff
+misc/guess-ploidy.py
+misc/plot-roh.py
+misc/plot-vcfstats
+misc/roh-viz
+misc/run-roh.pl
+misc/vcfutils.pl
+misc/vrfs-variances
+mpileup2/mpileup.c
+mpileup2/mpileup.h
+mpileup.c
+mw.h
+peakfit.c
+peakfit.h
+ploidy.c
+ploidy.h
+plugins/ad-bias.c
+plugins/add-variantkey.c
+plugins/af-dist.c
+plugins/allele-length.c
+plugins/check-ploidy.c
+plugins/check-sparsity.c
+plugins/color-chrs.c
+plugins/contrast.c
+plugins/counts.c
+plugins/dosage.c
+plugins/fill-AN-AC.c
+plugins/fill-from-fasta.c
+plugins/fill-tags.c
+plugins/fixploidy.c
+plugins/fixref.c
+plugins/frameshifts.c
+plugins/GTisec.c
+plugins/GTsubset.c
+plugins/guess-ploidy.c
+plugins/gvcfz.c
+plugins/impute-info.c
+plugins/indel-stats.c
+plugins/isecGT.c
+plugins/mendelian2.c
+plugins/missing2ref.c
+plugins/parental-origin.c
+plugins/prune.c
+plugins/remove-overlaps.c
+plugins/scatter.c
+plugins/setGT.c
+plugins/smpl-stats.c
+plugins/split.c
+plugins/split-vep.c
+plugins/tag2tag.c
+plugins/trio-dnm2.c
+plugins/trio-stats.c
+plugins/trio-switch-rate.c
+plugins/variant-distance.c
+plugins/variantkey-hex.c
+plugins/vcf2table.c
+plugins/vrfs.c
+polysomy.c
+prob1.c
+prob1.h
+rbuf.h
+read_consensus.c
+read_consensus.h
+regidx.c
+regidx.h
+reheader.c
+smpl_ilist.c
+smpl_ilist.h
+str_finder.c
+str_finder.h
+tabix.c
+test/test.pl
+test/test-rbuf.c
+test/test-regidx.c
+tsv2vcf.c
+tsv2vcf.h
+variantkey.h
+vcfannotate.c
+vcfbuf.c
+vcfbuf.h
+vcfcall.c
+vcfcnv.c
+vcfconcat.c
+vcfconvert.c
+vcffilter.c
+vcfgtcheck.c
+vcfhead.c
+vcfindex.c
+vcfisec.c
+vcfmerge.c
+vcfnorm.c
+vcfplugin.c
+vcfquery.c
+vcfroh.c
+vcfsom.c
+vcfsort.c
+vcfstats.c
+vcfview.c
+vcmp.c
+vcmp.h
+version.c
+version.sh
+INSTALL
+install-sh
+m4/ax_with_htslib.m4
+m4/hts_prog_cc_warnings.m4
+LICENSE
=====================================
debian/watch
=====================================
@@ -1,4 +1,4 @@
-version=4
+Version: 5
-opts="filenamemangle=s/(?:.*?)?v?(\d[\d.]*)\.tar\.gz/bcftools-$1.tar.gz/" \
- https://github.com/samtools/bcftools/tags (?:.*?/)?v?(\d[\d.]*)\.tar\.gz
+Template: Github
+Dist: https://github.com/samtools/bcftools
View it on GitLab: https://salsa.debian.org/med-team/bcftools/-/compare/7f818e8a29a900c7a15a0855695e5158b5b0f8f6...acc0349fcb59540662b94254b30f37d7c9f4e7c5
--
View it on GitLab: https://salsa.debian.org/med-team/bcftools/-/compare/7f818e8a29a900c7a15a0855695e5158b5b0f8f6...acc0349fcb59540662b94254b30f37d7c9f4e7c5
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