[med-svn] r17088 - in trunk/packages/babraham/fastqc/tags: . 0.11.2+dfsg-1/debian 0.11.2+dfsg-1/debian/patches
Olivier Sallou
osallou at moszumanska.debian.org
Mon Jun 9 10:10:42 UTC 2014
Author: osallou
Date: 2014-06-09 10:10:42 +0000 (Mon, 09 Jun 2014)
New Revision: 17088
Added:
trunk/packages/babraham/fastqc/tags/0.11.2+dfsg-1/
trunk/packages/babraham/fastqc/tags/0.11.2+dfsg-1/debian/changelog
trunk/packages/babraham/fastqc/tags/0.11.2+dfsg-1/debian/control
trunk/packages/babraham/fastqc/tags/0.11.2+dfsg-1/debian/copyright
trunk/packages/babraham/fastqc/tags/0.11.2+dfsg-1/debian/patches/Makefile.patch
trunk/packages/babraham/fastqc/tags/0.11.2+dfsg-1/debian/patches/fastqc.patch
trunk/packages/babraham/fastqc/tags/0.11.2+dfsg-1/debian/patches/fix-help-call.patch
trunk/packages/babraham/fastqc/tags/0.11.2+dfsg-1/debian/patches/series
trunk/packages/babraham/fastqc/tags/0.11.2+dfsg-1/debian/rules
Removed:
trunk/packages/babraham/fastqc/tags/0.11.2+dfsg-1/debian/changelog
trunk/packages/babraham/fastqc/tags/0.11.2+dfsg-1/debian/control
trunk/packages/babraham/fastqc/tags/0.11.2+dfsg-1/debian/copyright
trunk/packages/babraham/fastqc/tags/0.11.2+dfsg-1/debian/patches/Makefile.patch
trunk/packages/babraham/fastqc/tags/0.11.2+dfsg-1/debian/patches/fastqc.patch
trunk/packages/babraham/fastqc/tags/0.11.2+dfsg-1/debian/patches/fix-help-call.patch
trunk/packages/babraham/fastqc/tags/0.11.2+dfsg-1/debian/patches/series
trunk/packages/babraham/fastqc/tags/0.11.2+dfsg-1/debian/rules
Log:
[svn-buildpackage] Tagging fastqc 0.11.2+dfsg-1
Deleted: trunk/packages/babraham/fastqc/tags/0.11.2+dfsg-1/debian/changelog
===================================================================
--- trunk/packages/babraham/fastqc/trunk/debian/changelog 2013-06-05 15:21:34 UTC (rev 13843)
+++ trunk/packages/babraham/fastqc/tags/0.11.2+dfsg-1/debian/changelog 2014-06-09 10:10:42 UTC (rev 17088)
@@ -1,12 +0,0 @@
-fastqc (0.10.1+dfsg-2) unstable; urgency=low
-
- * Add patch to fix Templates and Contaminants loading
- in non interactive mode (Closes: #697604)
-
- -- Olivier Sallou <osallou at debian.org> Wed, 05 Jun 2013 17:08:44 +0200
-
-fastqc (0.10.1+dfsg-1) unstable; urgency=low
-
- * Initial release (Closes: #670353)
-
- -- Andreas Tille <tille at debian.org> Tue, 20 Nov 2012 13:38:32 +0100
Copied: trunk/packages/babraham/fastqc/tags/0.11.2+dfsg-1/debian/changelog (from rev 17087, trunk/packages/babraham/fastqc/trunk/debian/changelog)
===================================================================
--- trunk/packages/babraham/fastqc/tags/0.11.2+dfsg-1/debian/changelog (rev 0)
+++ trunk/packages/babraham/fastqc/tags/0.11.2+dfsg-1/debian/changelog 2014-06-09 10:10:42 UTC (rev 17088)
@@ -0,0 +1,18 @@
+fastqc (0.11.2+dfsg-1) unstable; urgency=medium
+
+ * New upstream release
+
+ -- Olivier Sallou <osallou at debian.org> Mon, 09 Jun 2014 10:41:06 +0200
+
+fastqc (0.10.1+dfsg-2) unstable; urgency=low
+
+ * Add patch to fix Templates and Contaminants loading
+ in non interactive mode (Closes: #697604)
+
+ -- Olivier Sallou <osallou at debian.org> Wed, 05 Jun 2013 17:08:44 +0200
+
+fastqc (0.10.1+dfsg-1) unstable; urgency=low
+
+ * Initial release (Closes: #670353)
+
+ -- Andreas Tille <tille at debian.org> Tue, 20 Nov 2012 13:38:32 +0100
Deleted: trunk/packages/babraham/fastqc/tags/0.11.2+dfsg-1/debian/control
===================================================================
--- trunk/packages/babraham/fastqc/trunk/debian/control 2013-06-05 15:21:34 UTC (rev 13843)
+++ trunk/packages/babraham/fastqc/tags/0.11.2+dfsg-1/debian/control 2014-06-09 10:10:42 UTC (rev 17088)
@@ -1,32 +0,0 @@
-Source: fastqc
-Section: science
-Priority: optional
-Maintainer: Debian Med Packaging Team <debian-med-packaging at lists.alioth.debian.org>
-Uploaders: Steffen Moeller <moeller at debian.org>,
- Andreas Tille <tille at debian.org>,
- Olivier Sallou <osallou at debian.org>
-Build-Depends: debhelper (>= 9), javahelper, default-jdk, libsam-java, libjbzip2-java
-Standards-Version: 3.9.4
-Homepage: http://www.bioinformatics.babraham.ac.uk/projects/fastqc/
-Vcs-Svn: http://svn.debian.org/debian-med/trunk/packages/babraham/fastqc/trunk/
-Vcs-Browser: http://svn.debian.org/wsvn/debian-med/trunk/packages/babraham/fastqc/trunk/
-
-Package: fastqc
-Architecture: all
-Depends: ${shlibs:Depends}, ${misc:Depends}, ${java:Depends}, libsam-java, libjbzip2-java
-Description: quality control for high throughput sequence data
- FastQC aims to provide a simple way to do some quality control checks on
- raw sequence data coming from high throughput sequencing pipelines. It
- provides a modular set of analyses which you can use to give a quick
- impression of whether your data has any problems of which you should
- be aware before doing any further analysis.
- .
- The main functions of FastQC are
- * Import of data from BAM, SAM or FastQ files (any variant)
- * Providing a quick overview to tell you in which areas there may
- be problems
- * Summary graphs and tables to quickly assess your data
- * Export of results to an HTML based permanent report
- * Offline operation to allow automated generation of reports without
- running the interactive application
-
Copied: trunk/packages/babraham/fastqc/tags/0.11.2+dfsg-1/debian/control (from rev 17085, trunk/packages/babraham/fastqc/trunk/debian/control)
===================================================================
--- trunk/packages/babraham/fastqc/tags/0.11.2+dfsg-1/debian/control (rev 0)
+++ trunk/packages/babraham/fastqc/tags/0.11.2+dfsg-1/debian/control 2014-06-09 10:10:42 UTC (rev 17088)
@@ -0,0 +1,32 @@
+Source: fastqc
+Section: science
+Priority: optional
+Maintainer: Debian Med Packaging Team <debian-med-packaging at lists.alioth.debian.org>
+Uploaders: Steffen Moeller <moeller at debian.org>,
+ Andreas Tille <tille at debian.org>,
+ Olivier Sallou <osallou at debian.org>
+Build-Depends: debhelper (>= 9), javahelper, default-jdk, libsam-java, libjbzip2-java, libcommons-math3-java
+Standards-Version: 3.9.5
+Homepage: http://www.bioinformatics.babraham.ac.uk/projects/fastqc/
+Vcs-Svn: svn://anonscm.debian.org/debian-med/trunk/packages/babraham/fastqc/trunk/
+Vcs-Browser: http://anonscm.debian.org/viewvc/debian-med/trunk/packages/babraham/fastqc/trunk/
+
+Package: fastqc
+Architecture: all
+Depends: ${shlibs:Depends}, ${misc:Depends}, ${java:Depends}, libsam-java, libjbzip2-java, libcommons-math3-java
+Description: quality control for high throughput sequence data
+ FastQC aims to provide a simple way to do some quality control checks on
+ raw sequence data coming from high throughput sequencing pipelines. It
+ provides a modular set of analyses which you can use to give a quick
+ impression of whether your data has any problems of which you should
+ be aware before doing any further analysis.
+ .
+ The main functions of FastQC are
+ * Import of data from BAM, SAM or FastQ files (any variant)
+ * Providing a quick overview to tell you in which areas there may
+ be problems
+ * Summary graphs and tables to quickly assess your data
+ * Export of results to an HTML based permanent report
+ * Offline operation to allow automated generation of reports without
+ running the interactive application
+
Deleted: trunk/packages/babraham/fastqc/tags/0.11.2+dfsg-1/debian/copyright
===================================================================
--- trunk/packages/babraham/fastqc/trunk/debian/copyright 2013-06-05 15:21:34 UTC (rev 13843)
+++ trunk/packages/babraham/fastqc/tags/0.11.2+dfsg-1/debian/copyright 2014-06-09 10:10:42 UTC (rev 17088)
@@ -1,30 +0,0 @@
-Format: http://www.debian.org/doc/packaging-manuals/copyright-format/1.0/
-Upstream-Name: FastQC
-Source: http://www.bioinformatics.babraham.ac.uk/projects/fastqc/
-Files-Excluded: *.jar
-
-Files: *
-Copyright: Simon Adrews <simon.andrews at bbsrc.ac.uk>
-License: GPL-3.0+
-
-Files: debian/*
-Copyright: 2012 Steffen Moeller <moeller at debian.org>
-License: GPL-3.0+
-
-License: GPL-3.0+
- This program is free software: you can redistribute it and/or modify
- it under the terms of the GNU General Public License as published by
- the Free Software Foundation, either version 3 of the License, or
- (at your option) any later version.
- .
- This package is distributed in the hope that it will be useful,
- but WITHOUT ANY WARRANTY; without even the implied warranty of
- MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
- GNU General Public License for more details.
- .
- You should have received a copy of the GNU General Public License
- along with this program. If not, see <http://www.gnu.org/licenses/>.
- .
- On Debian systems, the complete text of the GNU General
- Public License version 3 can be found in "/usr/share/common-licenses/GPL-3".
-
Copied: trunk/packages/babraham/fastqc/tags/0.11.2+dfsg-1/debian/copyright (from rev 17086, trunk/packages/babraham/fastqc/trunk/debian/copyright)
===================================================================
--- trunk/packages/babraham/fastqc/tags/0.11.2+dfsg-1/debian/copyright (rev 0)
+++ trunk/packages/babraham/fastqc/tags/0.11.2+dfsg-1/debian/copyright 2014-06-09 10:10:42 UTC (rev 17088)
@@ -0,0 +1,38 @@
+Format: http://www.debian.org/doc/packaging-manuals/copyright-format/1.0/
+Upstream-Name: FastQC
+Source: http://www.bioinformatics.babraham.ac.uk/projects/fastqc/
+Files-Excluded:
+ *.jar
+ org
+
+Files: net/sourceforge/iharder/base64/*
+Copyright: Robert Harder <rob at iharder.net>
+License: public-domain
+ These files are under public domain.
+ That means you can do whatever you want with it.
+
+Files: *
+Copyright: Simon Adrews <simon.andrews at bbsrc.ac.uk>
+License: GPL-3.0+
+
+Files: debian/*
+Copyright: 2012 Steffen Moeller <moeller at debian.org>
+License: GPL-3.0+
+
+License: GPL-3.0+
+ This program is free software: you can redistribute it and/or modify
+ it under the terms of the GNU General Public License as published by
+ the Free Software Foundation, either version 3 of the License, or
+ (at your option) any later version.
+ .
+ This package is distributed in the hope that it will be useful,
+ but WITHOUT ANY WARRANTY; without even the implied warranty of
+ MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
+ GNU General Public License for more details.
+ .
+ You should have received a copy of the GNU General Public License
+ along with this program. If not, see <http://www.gnu.org/licenses/>.
+ .
+ On Debian systems, the complete text of the GNU General
+ Public License version 3 can be found in "/usr/share/common-licenses/GPL-3".
+
Deleted: trunk/packages/babraham/fastqc/tags/0.11.2+dfsg-1/debian/patches/Makefile.patch
===================================================================
--- trunk/packages/babraham/fastqc/trunk/debian/patches/Makefile.patch 2013-06-05 15:21:34 UTC (rev 13843)
+++ trunk/packages/babraham/fastqc/tags/0.11.2+dfsg-1/debian/patches/Makefile.patch 2014-06-09 10:10:42 UTC (rev 17088)
@@ -1,27 +0,0 @@
-From: Steffen Moeller <moeller at debian.org>
-Subject: Simplyfy installation by creating a Makefile
-
---- /dev/null
-+++ b/Makefile
-@@ -0,0 +1,19 @@
-+
-+all: fastqc.jar
-+
-+fastqc.jar:
-+ javac -cp /usr/share/java/sam.jar:/usr/share/java/jbzip2.jar `find uk -name "*.java"`
-+ jar cf fastqc.jar `find uk -name "*.class" -o -name "*.png"`
-+
-+DESTDIR=
-+PREFIX=/usr
-+install: fastqc.jar
-+ mkdir -p $(DESTDIR)$(PREFIX)/bin/
-+ cp -a fastqc $(DESTDIR)$(PREFIX)/bin/
-+ chmod +x $(DESTDIR)$(PREFIX)/bin/fastqc
-+ mkdir -p $(DESTDIR)$(PREFIX)/share/fastqc/
-+ cp -a fastqc.jar $(DESTDIR)$(PREFIX)/share/fastqc/
-+ cp -r Contaminants Templates Help $(DESTDIR)$(PREFIX)/share/fastqc/
-+
-+clean:
-+ find . -name "*.jar" -o -name "*.class" | xargs -r rm
-+
-+.PHONY: all install
Copied: trunk/packages/babraham/fastqc/tags/0.11.2+dfsg-1/debian/patches/Makefile.patch (from rev 17086, trunk/packages/babraham/fastqc/trunk/debian/patches/Makefile.patch)
===================================================================
--- trunk/packages/babraham/fastqc/tags/0.11.2+dfsg-1/debian/patches/Makefile.patch (rev 0)
+++ trunk/packages/babraham/fastqc/tags/0.11.2+dfsg-1/debian/patches/Makefile.patch 2014-06-09 10:10:42 UTC (rev 17088)
@@ -0,0 +1,27 @@
+From: Steffen Moeller <moeller at debian.org>
+Subject: Simplyfy installation by creating a Makefile
+
+--- /dev/null
++++ b/Makefile
+@@ -0,0 +1,19 @@
++
++all: fastqc.jar
++
++fastqc.jar:
++ javac -source 1.6 -target 1.6 -cp /usr/share/java/commons-math3.jar:/usr/share/java/sam.jar:/usr/share/java/jbzip2.jar `find uk -name "*.java"` `find net -name "*.java"`
++ jar cf fastqc.jar `find uk -name "*.class" -o -name "*.png"`
++
++DESTDIR=
++PREFIX=/usr
++install: fastqc.jar
++ mkdir -p $(DESTDIR)$(PREFIX)/bin/
++ cp -a fastqc $(DESTDIR)$(PREFIX)/bin/
++ chmod +x $(DESTDIR)$(PREFIX)/bin/fastqc
++ mkdir -p $(DESTDIR)$(PREFIX)/share/fastqc/
++ cp -a fastqc.jar $(DESTDIR)$(PREFIX)/share/fastqc/
++ cp -r Configuration Templates Help $(DESTDIR)$(PREFIX)/share/fastqc/
++
++clean:
++ find . -name "*.jar" -o -name "*.class" | xargs -r rm
++
++.PHONY: all install
Deleted: trunk/packages/babraham/fastqc/tags/0.11.2+dfsg-1/debian/patches/fastqc.patch
===================================================================
--- trunk/packages/babraham/fastqc/trunk/debian/patches/fastqc.patch 2013-06-05 15:21:34 UTC (rev 13843)
+++ trunk/packages/babraham/fastqc/tags/0.11.2+dfsg-1/debian/patches/fastqc.patch 2014-06-09 10:10:42 UTC (rev 17088)
@@ -1,42 +0,0 @@
-From: Steffen Moeller <moeller at debian.org>
-Subject: Ensure proper CLASSPATH according to location of Debian JARs
-
---- a/fastqc
-+++ b/fastqc
-@@ -17,12 +17,12 @@
- $delimiter = ';';
- }
-
-+my $JavaClasspathExtraDir="/usr/share/java";
-+
- if ($ENV{CLASSPATH}) {
-- $ENV{CLASSPATH} .= "$delimiter$RealBin$delimiter$RealBin/sam-1.32.jar$delimiter$RealBin/jbzip2-0.9.jar";
--}
--else {
-- $ENV{CLASSPATH} = "$RealBin$delimiter$RealBin/sam-1.32.jar$delimiter$RealBin/jbzip2-0.9.jar";
-+ $ENV{CLASSPATH} .= "$delimiter";
- }
-+$ENV{CLASSPATH} .= "$JavaClasspathExtraDir/sam.jar$delimiter$JavaClasspathExtraDir/jbzip2.jar:$RealBin/fastqc.jar";
-
- my @java_args;
- my @files;
-@@ -177,10 +177,10 @@
-
-
- if ($java_bin ne 'java') {
-- system $java_bin, at java_args, "uk.ac.babraham.FastQC.FastQCApplication", @files;
-+ system $java_bin, at java_args,"-jar","/usr/share/fastqc/fastqc.jar", @files;
- }
- else {
-- exec $java_bin, at java_args, "uk.ac.babraham.FastQC.FastQCApplication", @files;
-+ exec $java_bin, at java_args,"-jar","/usr/share/fastqc/fastqc.jar", @files;
- }
-
- __DATA__
-@@ -273,4 +273,4 @@
- Any bugs in fastqc should be reported either to simon.andrews at babraham.ac.uk
- or in www.bioinformatics.babraham.ac.uk/bugzilla/
-
--
-\ No newline at end of file
-+
Copied: trunk/packages/babraham/fastqc/tags/0.11.2+dfsg-1/debian/patches/fastqc.patch (from rev 17085, trunk/packages/babraham/fastqc/trunk/debian/patches/fastqc.patch)
===================================================================
--- trunk/packages/babraham/fastqc/tags/0.11.2+dfsg-1/debian/patches/fastqc.patch (rev 0)
+++ trunk/packages/babraham/fastqc/tags/0.11.2+dfsg-1/debian/patches/fastqc.patch 2014-06-09 10:10:42 UTC (rev 17088)
@@ -0,0 +1,45 @@
+From: Steffen Moeller <moeller at debian.org>
+Subject: Ensure proper CLASSPATH according to location of Debian JARs
+
+--- a/fastqc
++++ b/fastqc
+@@ -33,16 +33,15 @@
+ }
+
+ my $delimiter = ':';
++my $JavaClasspathExtraDir="/usr/share/java";
+
+ if ($^O =~ /Win/) {
+ $delimiter = ';';
+ }
+
+ if ($ENV{CLASSPATH}) {
+- $ENV{CLASSPATH} .= "$delimiter$RealBin$delimiter$RealBin/sam-1.103.jar$delimiter$RealBin/jbzip2-0.9.jar";
+-}
+-else {
+- $ENV{CLASSPATH} = "$RealBin$delimiter$RealBin/sam-1.103.jar$delimiter$RealBin/jbzip2-0.9.jar";
++ $ENV{CLASSPATH} .= "$delimiter";
++ $ENV{CLASSPATH} .= "$JavaClasspathExtraDir/commons-math3.jar$delimiter$JavaClasspathExtraDir/sam.jar$delimiter$JavaClasspathExtraDir/jbzip2.jar:$RealBin/fastqc.jar";
+ }
+
+ my @java_args;
+@@ -251,10 +250,10 @@
+
+
+ if ($java_bin ne 'java') {
+- system $java_bin, at java_args, "uk.ac.babraham.FastQC.FastQCApplication", @files;
++ system $java_bin, at java_args,"-jar","/usr/share/fastqc/fastqc.jar", @files;
+ }
+ else {
+- exec $java_bin, at java_args, "uk.ac.babraham.FastQC.FastQCApplication", @files;
++ exec $java_bin, at java_args,"-jar","/usr/share/fastqc/fastqc.jar", @files;
+ }
+
+ __DATA__
+@@ -367,4 +366,4 @@
+ Any bugs in fastqc should be reported either to simon.andrews at babraham.ac.uk
+ or in www.bioinformatics.babraham.ac.uk/bugzilla/
+
+-
+\ No newline at end of file
++
Deleted: trunk/packages/babraham/fastqc/tags/0.11.2+dfsg-1/debian/patches/fix-help-call.patch
===================================================================
--- trunk/packages/babraham/fastqc/trunk/debian/patches/fix-help-call.patch 2013-06-05 15:21:34 UTC (rev 13843)
+++ trunk/packages/babraham/fastqc/tags/0.11.2+dfsg-1/debian/patches/fix-help-call.patch 2014-06-09 10:10:42 UTC (rev 17088)
@@ -1,18 +0,0 @@
-From: Andreas Tille <tille at debian.org>
-Subject: The original way to open Help text ends up in an exception
- Setting the explicite file name as well as avoiding the call to
- ClassLoader.getSystemResource
- helps fixing this. Specifically the later is important, see
- https://lists.debian.org/debian-med/2012/11/msg00073.html
-
---- a/uk/ac/babraham/FastQC/FastQCMenuBar.java
-+++ b/uk/ac/babraham/FastQC/FastQCMenuBar.java
-@@ -132,7 +132,7 @@ public class FastQCMenuBar extends JMenu
- }
- else if (command.equals("help_contents")) {
- try {
-- new HelpDialog(application,new File(URLDecoder.decode(ClassLoader.getSystemResource("Help").getFile(),"UTF-8")));
-+ new HelpDialog(application,new File(URLDecoder.decode("/usr/share/fastqc/Help","UTF-8")));
- }
- catch (UnsupportedEncodingException e1) {
- e1.printStackTrace();
Copied: trunk/packages/babraham/fastqc/tags/0.11.2+dfsg-1/debian/patches/fix-help-call.patch (from rev 17084, trunk/packages/babraham/fastqc/trunk/debian/patches/fix-help-call.patch)
===================================================================
--- trunk/packages/babraham/fastqc/tags/0.11.2+dfsg-1/debian/patches/fix-help-call.patch (rev 0)
+++ trunk/packages/babraham/fastqc/tags/0.11.2+dfsg-1/debian/patches/fix-help-call.patch 2014-06-09 10:10:42 UTC (rev 17088)
@@ -0,0 +1,18 @@
+From: Andreas Tille <tille at debian.org>
+Subject: The original way to open Help text ends up in an exception
+ Setting the explicite file name as well as avoiding the call to
+ ClassLoader.getSystemResource
+ helps fixing this. Specifically the later is important, see
+ https://lists.debian.org/debian-med/2012/11/msg00073.html
+
+--- a/uk/ac/babraham/FastQC/FastQCMenuBar.java
++++ b/uk/ac/babraham/FastQC/FastQCMenuBar.java
+@@ -132,7 +132,7 @@ public class FastQCMenuBar extends JMenu
+ }
+ else if (command.equals("help_contents")) {
+ try {
+- new HelpDialog(application,new File(URLDecoder.decode(ClassLoader.getSystemResource("Help").getFile(),"UTF-8")));
++ new HelpDialog(application,new File(URLDecoder.decode("/usr/share/fastqc/Help","UTF-8")));
+ }
+ catch (UnsupportedEncodingException e1) {
+ e1.printStackTrace();
Deleted: trunk/packages/babraham/fastqc/tags/0.11.2+dfsg-1/debian/patches/series
===================================================================
--- trunk/packages/babraham/fastqc/trunk/debian/patches/series 2013-06-05 15:21:34 UTC (rev 13843)
+++ trunk/packages/babraham/fastqc/tags/0.11.2+dfsg-1/debian/patches/series 2014-06-09 10:10:42 UTC (rev 17088)
@@ -1,4 +0,0 @@
-Makefile.patch
-fastqc.patch
-fix-help-call.patch
-fix_icon_loading
Copied: trunk/packages/babraham/fastqc/tags/0.11.2+dfsg-1/debian/patches/series (from rev 17084, trunk/packages/babraham/fastqc/trunk/debian/patches/series)
===================================================================
--- trunk/packages/babraham/fastqc/tags/0.11.2+dfsg-1/debian/patches/series (rev 0)
+++ trunk/packages/babraham/fastqc/tags/0.11.2+dfsg-1/debian/patches/series 2014-06-09 10:10:42 UTC (rev 17088)
@@ -0,0 +1,3 @@
+Makefile.patch
+fastqc.patch
+fix-help-call.patch
Deleted: trunk/packages/babraham/fastqc/tags/0.11.2+dfsg-1/debian/rules
===================================================================
--- trunk/packages/babraham/fastqc/trunk/debian/rules 2013-06-05 15:21:34 UTC (rev 13843)
+++ trunk/packages/babraham/fastqc/tags/0.11.2+dfsg-1/debian/rules 2014-06-09 10:10:42 UTC (rev 17088)
@@ -1,17 +0,0 @@
-#!/usr/bin/make -f
-
-# Uncomment this to turn on verbose mode.
-#export DH_VERBOSE=1
-
-%:
- dh $@ --with javahelper
-
-get-orig-source:
- mkdir -p ../tarballs
- uscan --verbose --force-download --repack --destdir ../tarballs
- # Alternatively you might like to use the following uscan command
- # that requires devscripts > 2.12.4 which is not yet released at
- # the time writing. The code can be obtained via
- # git clone git://tille@git.debian.org/git/users/tille/devscripts.git
- # and then use scripts/uscan.pl
- # uscan --verbose --force-download --repack-compression xz --destdir ../tarballs
Copied: trunk/packages/babraham/fastqc/tags/0.11.2+dfsg-1/debian/rules (from rev 17086, trunk/packages/babraham/fastqc/trunk/debian/rules)
===================================================================
--- trunk/packages/babraham/fastqc/tags/0.11.2+dfsg-1/debian/rules (rev 0)
+++ trunk/packages/babraham/fastqc/tags/0.11.2+dfsg-1/debian/rules 2014-06-09 10:10:42 UTC (rev 17088)
@@ -0,0 +1,21 @@
+#!/usr/bin/make -f
+
+# Uncomment this to turn on verbose mode.
+#export DH_VERBOSE=1
+
+%:
+ dh $@ --with javahelper
+
+get-orig-source:
+ mkdir -p ../tarballs
+ uscan --verbose --force-download --repack --destdir ../tarballs
+ # Alternatively you might like to use the following uscan command
+ # that requires devscripts > 2.12.4 which is not yet released at
+ # the time writing. The code can be obtained via
+ # git clone git://tille@git.debian.org/git/users/tille/devscripts.git
+ # and then use scripts/uscan.pl
+ # uscan --verbose --force-download --repack-compression xz --destdir ../tarballs
+
+override_dh_clean:
+ rm -f fastqc.jar
+ dh_clean
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