[med-svn] [Git][med-team/libvcflib][master] 8 commits: Move vcf2tsv and vcfkeepinfo to /usr/bin since it is needed by freebayes test

[Andreas Tille]

Andreas Tille pushed to branch master at Debian Med / libvcflib


Commits:
51c0f5a9 by Andreas Tille at 2019-07-31T14:06:15Z
Move vcf2tsv and vcfkeepinfo to /usr/bin since it is needed by freebayes test

- - - - -
adfd2325 by Andreas Tille at 2019-07-31T14:06:35Z
debhelper-compat 12

- - - - -
b9aa3923 by Andreas Tille at 2019-07-31T14:06:40Z
Standards-Version: 4.4.0

- - - - -
3fdb666d by Andreas Tille at 2019-07-31T14:07:10Z
Respect DEB_BUILD_OPTIONS in override_dh_auto_test target

- - - - -
4a0e02cb by Andreas Tille at 2019-07-31T14:07:10Z
Remove trailing whitespace in debian/control

- - - - -
b63dc7e2 by Andreas Tille at 2019-07-31T14:11:35Z
Fix typo

- - - - -
88e68af8 by Andreas Tille at 2019-07-31T14:12:33Z
Override dh_dwz to do nothing

- - - - -
b851032b by Andreas Tille at 2019-07-31T14:15:25Z
Upload to unstable

- - - - -


5 changed files:

- debian/changelog
- − debian/compat
- debian/control
- debian/libvcflib-tools.install
- debian/rules


Changes:

=====================================
debian/changelog
=====================================
@@ -1,3 +1,15 @@
+libvcflib (1.0.0~rc2+dfsg-3) unstable; urgency=medium
+
+  * Move vcf2tsv and vcfkeepinfo to /usr/bin since it is needed by freebayes
+    test
+  * debhelper-compat 12
+  * Standards-Version: 4.4.0
+  * Respect DEB_BUILD_OPTIONS in override_dh_auto_test target
+  * Remove trailing whitespace in debian/control
+  * Override dh_dwz to do nothing
+
+ -- Andreas Tille <tille at debian.org>  Wed, 31 Jul 2019 16:12:42 +0200
+
 libvcflib (1.0.0~rc2+dfsg-2) unstable; urgency=medium
 
   * Add libfastahack to pkg-config input file


=====================================
debian/compat deleted
=====================================
@@ -1 +0,0 @@
-11


=====================================
debian/control
=====================================
@@ -3,7 +3,7 @@ Maintainer: Debian Med Packaging Team <debian-med-packaging at lists.alioth.debian.
 Uploaders: Andreas Tille <tille at debian.org>
 Section: science
 Priority: optional
-Build-Depends: debhelper (>= 11~),
+Build-Depends: debhelper-compat (= 12),
                dh-exec,
                python-markdown,
                libtabixpp-dev,
@@ -14,7 +14,7 @@ Build-Depends: debhelper (>= 11~),
                libfastahack-dev (>= 0.0+git20160702.bbc645f+dfsg-5~),
                pkg-config,
                libipc-run3-perl
-Standards-Version: 4.2.1
+Standards-Version: 4.4.0
 Vcs-Browser: https://salsa.debian.org/med-team/libvcflib
 Vcs-Git: https://salsa.debian.org/med-team/libvcflib.git
 Homepage: https://github.com/ekg/vcflib
@@ -30,7 +30,7 @@ Description: C++ library for parsing and manipulating VCF files
  individuals. VCF provides a common interchange format for the description of
  variation in individuals and populations of samples, and has become the defacto
  standard reporting format for a wide array of genomic variant detectors.
- .    
+ .
  vcflib provides methods to manipulate and interpret sequence variation as it
  can be described by VCF. It is both:
  .
@@ -56,7 +56,7 @@ Description: C++ library for parsing and manipulating VCF files (development)
  individuals. VCF provides a common interchange format for the description of
  variation in individuals and populations of samples, and has become the defacto
  standard reporting format for a wide array of genomic variant detectors.
- .    
+ .
  vcflib provides methods to manipulate and interpret sequence variation as it
  can be described by VCF. It is both:
  .
@@ -83,7 +83,7 @@ Description: C++ library for parsing and manipulating VCF files (tools)
  individuals. VCF provides a common interchange format for the description of
  variation in individuals and populations of samples, and has become the defacto
  standard reporting format for a wide array of genomic variant detectors.
- .    
+ .
  vcflib provides methods to manipulate and interpret sequence variation as it
  can be described by VCF. It is both:
  .


=====================================
debian/libvcflib-tools.install
=====================================
@@ -1,3 +1,5 @@
+binaries/vcfkeepinfo	usr/bin
+binaries/vcf2tsv	usr/bin
 binaries/*.R		usr/lib/R/site-library/vcflib
 binaries		usr/lib/vcflib
 debian/wrapper/*	usr/bin


=====================================
debian/rules
=====================================
@@ -16,7 +16,9 @@ override_dh_auto_build:
 	markdown_py -f README.html README.md
 
 override_dh_auto_test:
+ifeq (,$(filter nocheck,$(DEB_BUILD_OPTIONS)))
 	export LD_LIBRARY_PATH=$(CURDIR)/lib/:$LD_LIBRARY_PATH dh_auto_test
+endif
 
 override_dh_install:
 	dh_install
@@ -36,3 +38,6 @@ override_dh_install:
 override_dh_fixperms:
 	dh_fixperms
 	chmod -x debian/*/usr/lib/R/site-library/*/*.R
+
+override_dh_dwz:
+	echo "Do nothing here"



View it on GitLab: https://salsa.debian.org/med-team/libvcflib/compare/db939ff0801681098f6d3714274c2d3196dc084a...b851032bd81e1aa643fcfb860998e505682e525f

-- 
View it on GitLab: https://salsa.debian.org/med-team/libvcflib/compare/db939ff0801681098f6d3714274c2d3196dc084a...b851032bd81e1aa643fcfb860998e505682e525f
You're receiving this email because of your account on salsa.debian.org.


-------------- next part --------------
An HTML attachment was scrubbed...
URL: <http://alioth-lists.debian.net/pipermail/debian-med-commit/attachments/20190731/96bee0f2/attachment-0001.html>