[med-svn] [Git][med-team/bcftools][master] 4 commits: Add missing Depends

[Andreas Tille (@tille)]

Andreas Tille pushed to branch master at Debian Med / bcftools


Commits:
a46c2e25 by Andreas Tille at 2024-04-18T16:34:52+02:00
Add missing Depends

- - - - -
f9ef9e75 by Andreas Tille at 2024-04-18T16:35:07+02:00
routine-update: Standards-Version: 4.7.0

- - - - -
c413305a by Andreas Tille at 2024-04-18T17:14:25+02:00
Refresh patches

- - - - -
f2576d2a by Andreas Tille at 2024-04-18T17:19:00+02:00
Upload to unstable

- - - - -


5 changed files:

- debian/changelog
- debian/control
- debian/patches/series
- debian/patches/skip_new_test_failing_on_32bit.patch
- debian/patches/tests-pluginpath.patch


Changes:

=====================================
debian/changelog
=====================================
@@ -1,9 +1,15 @@
-bcftools (1.20-1) UNRELEASED; urgency=medium
+bcftools (1.20-1) unstable; urgency=medium
 
+  [ Charles Plessy ]
   * Team upload.
   * New upstream version
 
- -- Charles Plessy <plessy at debian.org>  Thu, 18 Apr 2024 08:51:21 +0900
+  [ Andreas Tille ]
+  * Add missing Depends
+    Closes: #1069234
+  * Standards-Version: 4.7.0 (routine-update)
+
+ -- Andreas Tille <tille at debian.org>  Thu, 18 Apr 2024 17:14:39 +0200
 
 bcftools (1.19-1) unstable; urgency=medium
 


=====================================
debian/control
=====================================
@@ -12,7 +12,7 @@ Build-Depends: debhelper-compat (= 13),
                libgsl-dev,
                tabix <!nocheck>,
                libio-pty-perl <!nocheck>
-Standards-Version: 4.6.2
+Standards-Version: 4.7.0
 Vcs-Browser: https://salsa.debian.org/med-team/bcftools
 Vcs-Git: https://salsa.debian.org/med-team/bcftools.git
 Homepage: https://samtools.github.io/bcftools/
@@ -22,13 +22,14 @@ Package: bcftools
 Architecture: any
 Depends: ${shlibs:Depends},
          ${misc:Depends},
-         sse2-support [i386]
+         sse2-support [i386],
+         python3-gffutils,
+         python3-matplotlib
 Recommends: perl
 Suggests:
 # These are needed for plot-vcfstats
           python3,
           python3-numpy,
-          python3-matplotlib,
           texlive-latex-recommended
 Description: genomic variant calling and manipulation of VCF/BCF files
  BCFtools is a set of utilities that manipulate variant calls in the


=====================================
debian/patches/series
=====================================
@@ -1,4 +1,3 @@
 tests-pluginpath.patch
 skip_new_test_failing_on_32bit.patch
 2to3.patch
-typo.patch


=====================================
debian/patches/skip_new_test_failing_on_32bit.patch
=====================================
@@ -9,9 +9,9 @@ Description: Skip single test causing new failures
  .
  FIXME: This workaround needs to be reconsidered in future versions
 
---- bcftools.orig/test/test.pl
-+++ bcftools/test/test.pl
-@@ -206,7 +206,7 @@
+--- a/test/test.pl
++++ b/test/test.pl
+@@ -212,7 +212,7 @@ run_test(\&test_vcf_query,$opts,in=>'que
  run_test(\&test_vcf_query,$opts,in=>'query.filter.11',out=>'query.81.out',args=>q[-f'[%POS\\t%SAMPLE\\t%GT\\n]' -e'N_PASS(GT="alt")==1']);
  run_test(\&test_vcf_query,$opts,in=>'query.filter.11',out=>'query.80.out',args=>q[-f'[%POS\\t%SAMPLE\\t%GT\\n]' -e'N_PASS(GT="alt")!=1']);
  run_test(\&test_vcf_query,$opts,in=>'query',out=>'query.64.out',args=>q[-f'%CHROM\\t%POS\\t%INFO\\t%FORMAT\\n' -s D,C]);


=====================================
debian/patches/tests-pluginpath.patch
=====================================
@@ -8,9 +8,9 @@ Description: Set the bcftools plugin path to search system directories
 Author: Afif Elghraoui <afif at ghraoui.name>
 Forwarded: not-needed
 Last-Update: 2015-11-09
---- bcftools.orig/test/test.pl
-+++ bcftools/test/test.pl
-@@ -1742,7 +1742,7 @@
+--- a/test/test.pl
++++ b/test/test.pl
+@@ -1811,7 +1811,7 @@ sub test_vcf_plugin
  {
      my ($opts,%args) = @_;
      if ( !$$opts{test_plugins} ) { return; }



View it on GitLab: https://salsa.debian.org/med-team/bcftools/-/compare/0590dca4fe5ed1591d7a44fc573eb09199444bef...f2576d2a782334295689fe9c1d93c4ac97c287c8

-- 
View it on GitLab: https://salsa.debian.org/med-team/bcftools/-/compare/0590dca4fe5ed1591d7a44fc573eb09199444bef...f2576d2a782334295689fe9c1d93c4ac97c287c8
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