[med-svn] [Git][med-team/gatk_old][master] 5 commits: Removing gradle/ dir with its embedded jar

[Pierre Gruet]

Pierre Gruet pushed to branch master at Debian Med / gatk_old


Commits:
31a5e4d3 by Pierre Gruet at 2020-09-25T22:48:52+02:00
Removing gradle/ dir with its embedded jar

- - - - -
e782647d by Pierre Gruet at 2020-09-25T22:50:17+02:00
Depending on debhelper-compat 13

- - - - -
d92f0be7 by Pierre Gruet at 2020-09-25T22:51:20+02:00
Bumping Standards version to 4.5.0 (Rules-Requires-Root field added)

- - - - -
a38d62f7 by Pierre Gruet at 2020-09-25T22:52:02+02:00
Deleting old Maven patches as gradle is now used

- - - - -
aa7a3a38 by Pierre Gruet at 2020-09-25T23:00:02+02:00
Switching build system to gradle

- - - - -


7 changed files:

- debian/changelog
- − debian/compat
- debian/control
- debian/copyright
- − debian/patches/only-free-parts.patch
- − debian/patches/series
- debian/rules


Changes:

=====================================
debian/changelog
=====================================
@@ -1,5 +1,5 @@
-gatk (4.1.2.0+dfsg-1) UNRELEASED; urgency=low
+gatk (4.1.8.1+dfsg-1) UNRELEASED; urgency=medium
 
   * Initial release (Closes: #<bug>)
 
- -- Andreas Tille <tille at debian.org>  Thu, 26 Mar 2015 13:20:02 +0100
+ -- Pierre Gruet <pgtdebian at free.fr>  Fri, 25 Sep 2020 22:56:23 +0200


=====================================
debian/compat deleted
=====================================
@@ -1 +0,0 @@
-12


=====================================
debian/control
=====================================
@@ -2,15 +2,16 @@ Source: gatk
 Section: science
 Priority: optional
 Maintainer: Debian Med Packaging Team <debian-med-packaging at lists.alioth.debian.org>
-Uploaders: Andreas Tille <tille at debian.org>
-Build-Depends: debhelper (>= 12~),
-               javahelper,
+Uploaders: Andreas Tille <tille at debian.org>,
+           Pierre Gruet <pgtdebian at free.fr>
+Build-Depends: debhelper-compat (= 13),
                default-jdk,
-               maven-debian-helper
-Standards-Version: 4.3.0
+               gradle-debian-helper
+Standards-Version: 4.5.0
 Vcs-Browser: https://salsa.debian.org/med-team/gatk
 Vcs-Git: https://salsa.debian.org/med-team/gatk.git
 Homepage: https://www.broadinstitute.org/gatk/
+Rules-Requires-Root: no
 
 Package: gatk
 Architecture: any


=====================================
debian/copyright
=====================================
@@ -6,6 +6,7 @@ Files-Excluded: *.data
                 .gitignore
                 .gitattributes
                 .dockerignore
+                gradle
 
 Files: *
 Copyright: 2012-2014 The Broad Institute


=====================================
debian/patches/only-free-parts.patch deleted
=====================================
@@ -1,39 +0,0 @@
-Author: Andreas Tille <tille at debian.org>
-Last-Update: Thu, 26 Mar 2015 13:20:02 +0100
-Description: When leaving these chunks mh_make fails - so just remove it
-
---- a/pom.xml
-+++ b/pom.xml
-@@ -777,31 +777,7 @@
-     </reporting>
- 
-     <profiles>
--        <!-- Optionally include protected -->
--        <profile>
--            <id>protected</id>
--            <activation>
--                <file>
--                    <exists>${basedir}/protected/pom.xml</exists>
--                </file>
--            </activation>
--            <modules>
--                <module>protected</module>
--            </modules>
--        </profile>
--
--        <!-- Optionally include private -->
--        <profile>
--            <id>private</id>
--            <activation>
--                <file>
--                    <exists>${basedir}/private/pom.xml</exists>
--                </file>
--            </activation>
--            <modules>
--                <module>private</module>
--            </modules>
--        </profile>
-+        <!-- Optionally include private ... mh_make stumbles upon this missing directories -->
- 
-         <!-- Optionally do not shade/package jars -->
-         <!--


=====================================
debian/patches/series deleted
=====================================
@@ -1 +0,0 @@
-only-free-parts.patch


=====================================
debian/rules
=====================================
@@ -18,4 +18,4 @@
 
 JAVA_HOME=/usr/lib/jvm/default-java
 %:
-	dh $@ --buildsystem=maven --with javahelper
+	dh $@



View it on GitLab: https://salsa.debian.org/med-team/gatk_old/-/compare/70879254fff34de077503462bb64f72f9dae46fb...aa7a3a3804e4d4e22a1bad5ec83dfbacabf3e663

-- 
View it on GitLab: https://salsa.debian.org/med-team/gatk_old/-/compare/70879254fff34de077503462bb64f72f9dae46fb...aa7a3a3804e4d4e22a1bad5ec83dfbacabf3e663
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