[med-svn] [Git][med-team/bio-eagle][master] 10 commits: Test only on available architectures
Andreas Tille
gitlab at salsa.debian.org
Fri Nov 6 15:24:13 GMT 2020
Andreas Tille pushed to branch master at Debian Med / bio-eagle
Commits:
c3ed4249 by Andreas Tille at 2020-11-06T15:44:34+01:00
Test only on available architectures
- - - - -
2e789ecd by Andreas Tille at 2020-11-06T15:44:54+01:00
routine-update: Standards-Version: 4.5.0
- - - - -
da0c228b by Andreas Tille at 2020-11-06T15:44:54+01:00
routine-update: debhelper-compat 13
- - - - -
f5b9d106 by Andreas Tille at 2020-11-06T15:44:59+01:00
routine-update: Add salsa-ci file
- - - - -
83621ba0 by Andreas Tille at 2020-11-06T15:45:00+01:00
routine-update: Rules-Requires-Root: no
- - - - -
c56140e9 by Andreas Tille at 2020-11-06T15:45:10+01:00
Set upstream metadata fields: Bug-Database, Bug-Submit, Repository, Repository-Browse.
Changes-By: lintian-brush
Fixes: lintian: upstream-metadata-missing-bug-tracking
See-also: https://lintian.debian.org/tags/upstream-metadata-missing-bug-tracking.html
Fixes: lintian: upstream-metadata-missing-repository
See-also: https://lintian.debian.org/tags/upstream-metadata-missing-repository.html
- - - - -
b2d49c05 by Andreas Tille at 2020-11-06T15:45:10+01:00
Remove obsolete fields Contact, Name from debian/upstream/metadata (already present in machine-readable debian/copyright).
Changes-By: lintian-brush
- - - - -
c5d5fa3d by Andreas Tille at 2020-11-06T15:45:10+01:00
Replace use of deprecated $ADTTMP with $AUTOPKGTEST_TMP.
Changes-By: lintian-brush
Fixes: lintian: uses-deprecated-adttmp
See-also: https://lintian.debian.org/tags/uses-deprecated-adttmp.html
- - - - -
4ab62ed3 by Andreas Tille at 2020-11-06T15:47:51+01:00
Cleanup changelog
- - - - -
c7c6ae86 by Andreas Tille at 2020-11-06T15:52:46+01:00
Upload to unstable
- - - - -
6 changed files:
- debian/changelog
- debian/control
- + debian/salsa-ci.yml
- debian/tests/control
- debian/tests/run-sample-analysis
- debian/upstream/metadata
Changes:
=====================================
debian/changelog
=====================================
@@ -1,10 +1,18 @@
-bio-eagle (2.4.1-2) UNRELEASED; urgency=medium
+bio-eagle (2.4.1-2) unstable; urgency=medium
* Team upload.
- * debhelper-compat 12
- * Standards-Version: 4.4.1 (no changes needed).
-
- -- Michael R. Crusoe <michael.crusoe at gmail.com> Tue, 17 Dec 2019 15:30:05 +0100
+ * Test only on available architectures
+ * Standards-Version: 4.5.0 (routine-update)
+ * debhelper-compat 13 (routine-update)
+ * Add salsa-ci file (routine-update)
+ * Rules-Requires-Root: no (routine-update)
+ * Set upstream metadata fields: Bug-Database, Bug-Submit, Repository,
+ Repository-Browse.
+ * Remove obsolete fields Contact, Name from debian/upstream/metadata (already
+ present in machine-readable debian/copyright).
+ * Replace use of deprecated $ADTTMP with $AUTOPKGTEST_TMP.
+
+ -- Andreas Tille <tille at debian.org> Fri, 06 Nov 2020 15:48:02 +0100
bio-eagle (2.4.1-1) unstable; urgency=medium
=====================================
debian/control
=====================================
@@ -3,17 +3,18 @@ Maintainer: Debian Med Packaging Team <debian-med-packaging at lists.alioth.debian.
Uploaders: Dylan Aïssi <daissi at debian.org>
Section: science
Priority: optional
-Build-Depends: debhelper-compat (= 12),
+Build-Depends: debhelper-compat (= 13),
libopenblas-dev,
libboost-dev,
libboost-iostreams-dev,
libboost-program-options-dev,
libhts-dev (>= 1.4),
zlib1g-dev
-Standards-Version: 4.4.1
+Standards-Version: 4.5.0
Vcs-Browser: https://salsa.debian.org/med-team/bio-eagle
Vcs-Git: https://salsa.debian.org/med-team/bio-eagle.git
Homepage: https://data.broadinstitute.org/alkesgroup/Eagle/
+Rules-Requires-Root: no
Package: bio-eagle
Architecture: any-amd64 any-i386
=====================================
debian/salsa-ci.yml
=====================================
@@ -0,0 +1,4 @@
+---
+include:
+ - https://salsa.debian.org/salsa-ci-team/pipeline/raw/master/salsa-ci.yml
+ - https://salsa.debian.org/salsa-ci-team/pipeline/raw/master/pipeline-jobs.yml
=====================================
debian/tests/control
=====================================
@@ -1,2 +1,3 @@
Tests: run-sample-analysis
Depends: @
+Architecture: any-amd64 any-i386
=====================================
debian/tests/run-sample-analysis
=====================================
@@ -5,11 +5,11 @@
# Last-Update: 2016-10-30
pkg=bio-eagle
-if [ "$ADTTMP" = "" ] ; then
- ADTTMP=`mktemp -d /tmp/${pkg}-test.XXXXXX`
+if [ "$AUTOPKGTEST_TMP" = "" ] ; then
+ AUTOPKGTEST_TMP=`mktemp -d /tmp/${pkg}-test.XXXXXX`
fi
-cd $ADTTMP
-cp -a /usr/share/doc/${pkg}/examples/* $ADTTMP
+cd $AUTOPKGTEST_TMP
+cp -a /usr/share/doc/${pkg}/examples/* $AUTOPKGTEST_TMP
gunzip EUR_test.bed.gz
gunzip EUR_test.bim.gz
@@ -41,5 +41,5 @@ bio-eagle \
--numThreads=4 \
--v1fast
-rm -rf $ADTTMP/*
+rm -rf $AUTOPKGTEST_TMP/*
=====================================
debian/upstream/metadata
=====================================
@@ -1,5 +1,5 @@
-Contact: Po-Ru Loh <loh at hsph.harvard.edu>
-Name: eagle
+Bug-Database: https://github.com/poruloh/Eagle/issues
+Bug-Submit: https://github.com/poruloh/Eagle/issues/new
Reference:
- Author: Po-Ru Loh and Pier Francesco Palamara and Alkes L Price
Title: Fast and accurate long-range phasing in a UK Biobank cohort
@@ -25,3 +25,5 @@ Registry:
Entry: NA
- Name: SciCrunch
Entry: NA
+Repository: https://github.com/poruloh/Eagle.git
+Repository-Browse: https://github.com/poruloh/Eagle
View it on GitLab: https://salsa.debian.org/med-team/bio-eagle/-/compare/d119598987524dd4dd2c5c85da67b180915707ed...c7c6ae867b86fb82e78260fcecb73ade9b3ed594
--
View it on GitLab: https://salsa.debian.org/med-team/bio-eagle/-/compare/d119598987524dd4dd2c5c85da67b180915707ed...c7c6ae867b86fb82e78260fcecb73ade9b3ed594
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