[med-svn] [Git][med-team/reprof][master] 9 commits: Stop using pp_popcon
Andreas Tille (@tille)
gitlab at salsa.debian.org
Tue Jan 18 19:56:14 GMT 2022
Andreas Tille pushed to branch master at Debian Med / reprof
Commits:
72f83116 by Andreas Tille at 2022-01-18T20:48:55+01:00
Stop using pp_popcon
- - - - -
200d9c3c by Andreas Tille at 2022-01-18T20:49:27+01:00
Upstream download vanished
- - - - -
5f2884dd by Andreas Tille at 2022-01-18T20:49:39+01:00
routine-update: Standards-Version: 4.6.0
- - - - -
f7904949 by Andreas Tille at 2022-01-18T20:49:39+01:00
routine-update: debhelper-compat 13
- - - - -
867c5756 by Andreas Tille at 2022-01-18T20:49:43+01:00
routine-update: Add salsa-ci file
- - - - -
53f094f3 by Andreas Tille at 2022-01-18T20:49:43+01:00
routine-update: Rules-Requires-Root: no
- - - - -
7d5eee03 by Andreas Tille at 2022-01-18T20:49:45+01:00
Add missing build dependency on dh addon.
Changes-By: lintian-brush
Fixes: lintian: missing-build-dependency-for-dh_-command
See-also: https://lintian.debian.org/tags/missing-build-dependency-for-dh_-command.html
- - - - -
710ac439 by Andreas Tille at 2022-01-18T20:49:47+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
- - - - -
b5ea9e7d by Andreas Tille at 2022-01-18T20:52:25+01:00
routine-update: Ready to upload to unstable
- - - - -
7 changed files:
- debian/changelog
- debian/control
- + debian/patches/no_pp-popcon.patch
- debian/patches/series
- + debian/salsa-ci.yml
- debian/tests/installation-test
- debian/watch
Changes:
=====================================
debian/changelog
=====================================
@@ -1,3 +1,16 @@
+reprof (1.0.1-8) unstable; urgency=medium
+
+ * Stop using pp_popcon
+ * Upstream download vanished
+ * Standards-Version: 4.6.0 (routine-update)
+ * debhelper-compat 13 (routine-update)
+ * Add salsa-ci file (routine-update)
+ * Rules-Requires-Root: no (routine-update)
+ * Add missing build dependency on dh addon.
+ * Replace use of deprecated $ADTTMP with $AUTOPKGTEST_TMP.
+
+ -- Andreas Tille <tille at debian.org> Tue, 18 Jan 2022 20:49:55 +0100
+
reprof (1.0.1-7) unstable; urgency=medium
[ Xavier Guimard ]
=====================================
debian/control
=====================================
@@ -5,19 +5,20 @@ Uploaders: Peter Hoenigschmid <hoenigschmid at rostlab.org>,
Andreas Tille <tille at debian.org>
Section: science
Priority: optional
-Build-Depends: debhelper-compat (= 12),
- libmodule-build-perl
-Standards-Version: 4.4.0
+Build-Depends: debhelper-compat (= 13),
+ libmodule-build-perl,
+ debhelper
+Standards-Version: 4.6.0
Vcs-Browser: https://salsa.debian.org/med-team/reprof
Vcs-Git: https://salsa.debian.org/med-team/reprof.git
Homepage: https://rostlab.org/
+Rules-Requires-Root: no
Package: reprof
Architecture: all
Depends: ${perl:Depends},
${misc:Depends},
librg-reprof-bundle-perl
-Suggests: pp-popularity-contest
Description: protein secondary structure and accessibility predictor
'reprof' is an improved implementation of 'prof', a popular protein secondary
structure and accessibility predictor. Prediction is either
=====================================
debian/patches/no_pp-popcon.patch
=====================================
@@ -0,0 +1,38 @@
+Author: Andreas Tille <tille at debian.org>
+Last-Update: Tue, 18 Jan 2022 19:02:40 +0100
+Description: Stop using pp_popcon
+
+--- a/reprof.spec
++++ b/reprof.spec
+@@ -9,7 +9,7 @@ URL: http://rostlab.org/
+ BuildArch: noarch
+ BuildRoot: %{_tmppath}/%{name}-%{version}-root
+ BuildRequires: autoconf, automake, make, perl
+-Requires: librg-reprof-bundle-perl, perl, pp-popularity-contest
++Requires: librg-reprof-bundle-perl, perl
+
+ %define common_desc 'reprof' is an improved implementation of 'prof', a popular protein secondary \
+ structure and accessibility predictor. Prediction is either \
+--- a/reprof.spec.in
++++ b/reprof.spec.in
+@@ -9,7 +9,7 @@ URL: http://rostlab.org/
+ BuildArch: noarch
+ BuildRoot: %{_tmppath}/%{name}-%{version}-root
+ BuildRequires: autoconf, automake, make, perl
+-Requires: librg-reprof-bundle-perl, perl, pp-popularity-contest
++Requires: librg-reprof-bundle-perl, perl
+
+ %define common_desc 'reprof' is an improved implementation of 'prof', a popular protein secondary \
+ structure and accessibility predictor. Prediction is either \
+--- a/scripts/reprof
++++ b/scripts/reprof
+@@ -14,9 +14,6 @@ use Pod::Usage;
+
+ use RG::Reprof;
+
+-# popularity contest
+-if( system('pp_popcon_cnt', '-p', 'reprof') == -1 ){ warn("The Rost Lab recommends you install the pp-popularity-contest package that provides pp_popcon_cnt:\n\nsudo apt-get install pp-popularity-contest\n"); }
+-
+ # Parameters
+ my $input_file;
+ my $out_file;
=====================================
debian/patches/series
=====================================
@@ -1 +1,2 @@
+no_pp-popcon.patch
update-model-files.patch
=====================================
debian/salsa-ci.yml
=====================================
@@ -0,0 +1,4 @@
+---
+include:
+ - https://salsa.debian.org/salsa-ci-team/pipeline/raw/master/salsa-ci.yml
+ - https://salsa.debian.org/salsa-ci-team/pipeline/raw/master/pipeline-jobs.yml
=====================================
debian/tests/installation-test
=====================================
@@ -9,12 +9,12 @@ set -e
pkg=reprof
-if [ "$ADTTMP" = "" ] ; then
- ADTTMP=$(mktemp -d /tmp/${pkg}-test.XXXXXX)
- trap "rm -rf $ADTTMP" 0 INT QUIT ABRT PIPE TERM
+if [ "$AUTOPKGTEST_TMP" = "" ] ; then
+ AUTOPKGTEST_TMP=$(mktemp -d /tmp/${pkg}-test.XXXXXX)
+ trap "rm -rf $AUTOPKGTEST_TMP" 0 INT QUIT ABRT PIPE TERM
fi
-cd $ADTTMP
+cd $AUTOPKGTEST_TMP
cp -a /usr/share/doc/${pkg}/examples/* .
find . -type f -name "*.gz" -exec gunzip \{\} \;
=====================================
debian/watch
=====================================
@@ -1,3 +1,4 @@
-version=3
-
-ftp://rostlab.org/reprof/reprof-([0-9.]*)\.tar\.gz debian uupdate
+version=4
+opts=dversionmangle=s/.*/0.No-Site/ \
+https://people.debian.org/~eriberto/ FakeWatchNoUpstreamSiteForThisPackage-(\d\S+)\.gz
+
View it on GitLab: https://salsa.debian.org/med-team/reprof/-/compare/6097628693537e76c85624bec7fc3394bd4695b7...b5ea9e7dbfcf414a98a88902fda5c431a7b93f65
--
View it on GitLab: https://salsa.debian.org/med-team/reprof/-/compare/6097628693537e76c85624bec7fc3394bd4695b7...b5ea9e7dbfcf414a98a88902fda5c431a7b93f65
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