Your message dated Thu, 06 Sep 2012 07:17:40 +0000
with message-id <[email protected]>
and subject line Bug#684172: fixed in picard-tools 1.75-1
has caused the Debian Bug report #684172,
regarding picard-tools: Transition package to default java implementation
to be marked as done.
This means that you claim that the problem has been dealt with.
If this is not the case it is now your responsibility to reopen the
Bug report if necessary, and/or fix the problem forthwith.
(NB: If you are a system administrator and have no idea what this
message is talking about, this may indicate a serious mail system
misconfiguration somewhere. Please contact [email protected]
immediately.)
--
684172: http://bugs.debian.org/cgi-bin/bugreport.cgi?bug=684172
Debian Bug Tracking System
Contact [email protected] with problems
--- Begin Message ---
Package: picard-tools
Version: 1.46-1
Severity: normal
Tags: patch
User: [email protected]
Usertags: origin-ubuntu quantal ubuntu-patch openjdk-7-transition
-----BEGIN PGP SIGNED MESSAGE-----
Hash: SHA256
Dear Maintainer,
In Ubuntu, the attached patch was applied to achieve the following:
* Transition package to use default java implementation:
- d/control: BD on default-jdk, switch runtime dependency to
default-jre | java6-runtime.
- d/rules: Specify source/target = 1.5 to ensure that backwards
compatible bytecode is built.
Ubuntu quantal is transitioning default java from openjdk-6 to openjdk-7. This
patch eases the transition and ensures backwards compatible bytecode is built.
Note that this is not a release goal for wheezy.
Thanks for considering the patch.
- -- System Information:
Debian Release: wheezy/sid
APT prefers quantal-updates
APT policy: (500, 'quantal-updates'), (500, 'quantal-security'), (500,
'quantal')
Architecture: amd64 (x86_64)
Foreign Architectures: i386
Kernel: Linux 3.5.0-8-generic (SMP w/8 CPU cores)
Locale: LANG=en_US.UTF-8, LC_CTYPE=en_US.UTF-8 (charmap=UTF-8)
Shell: /bin/sh linked to /bin/dash
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diff -Nru picard-tools-1.46/debian/changelog picard-tools-1.46/debian/changelog
diff -Nru picard-tools-1.46/debian/control picard-tools-1.46/debian/control
--- picard-tools-1.46/debian/control 2011-06-03 12:49:09.000000000 +0100
+++ picard-tools-1.46/debian/control 2012-08-07 15:09:48.000000000 +0100
@@ -5,7 +5,7 @@
DM-Upload-Allowed: yes
Uploaders: Shaun Jackman <[email protected]>,
Charles Plessy <[email protected]>
-Build-Depends: ant, openjdk-6-jdk|java-compiler, testng,
+Build-Depends: ant, default-jdk, testng,
debhelper (>= 7.0.50~)
Standards-Version: 3.9.2
Homepage: http://picard.sourceforge.net/
@@ -23,7 +23,7 @@
Package: picard-tools
Architecture: all
-Depends: openjdk-6-jre|java-runtime, ${misc:Depends},
+Depends: default-jre | java6-runtime, ${misc:Depends},
libsam-java (>= ${source:Version}), ${python:Depends}
Suggests: python, r-base-core
Description: Command line tools to manipulate SAM and BAM files
diff -Nru picard-tools-1.46/debian/rules picard-tools-1.46/debian/rules
--- picard-tools-1.46/debian/rules 2011-06-03 12:00:33.000000000 +0100
+++ picard-tools-1.46/debian/rules 2012-08-07 15:06:28.000000000 +0100
@@ -5,6 +5,9 @@
%:
dh $@
+override_dh_auto_build:
+ dh_auto_build -- -Dant.build.javac.source=1.5 -Dant.build.javac.target=1.5
+
override_dh_auto_configure:
[ -d lib ] || mkdir lib # This empty directory is lost in the packages's Git clone.
dh_auto_configure
--- End Message ---
--- Begin Message ---
Source: picard-tools
Source-Version: 1.75-1
We believe that the bug you reported is fixed in the latest version of
picard-tools, which is due to be installed in the Debian FTP archive.
A summary of the changes between this version and the previous one is
attached.
Thank you for reporting the bug, which will now be closed. If you
have further comments please address them to [email protected],
and the maintainer will reopen the bug report if appropriate.
Debian distribution maintenance software
pp.
Olivier Sallou <[email protected]> (supplier of updated picard-tools package)
(This message was generated automatically at their request; if you
believe that there is a problem with it please contact the archive
administrators by mailing [email protected])
-----BEGIN PGP SIGNED MESSAGE-----
Hash: SHA256
Format: 1.8
Date: Thu, 06 Sep 2012 09:10:11 +0900
Source: picard-tools
Binary: libsam-java picard-tools
Architecture: source all
Version: 1.75-1
Distribution: unstable
Urgency: low
Maintainer: Debian Med Packaging Team
<[email protected]>
Changed-By: Olivier Sallou <[email protected]>
Description:
libsam-java - Java library to manipulate SAM and BAM files
picard-tools - Command line tools to manipulate SAM and BAM files
Closes: 684172
Changes:
picard-tools (1.75-1) unstable; urgency=low
.
[Olivier Sallou]
* New upstream releases.
* Build-depend on libsnappy1.0.3-java (debian/control).
[Charles Plessy]
* Refreshed debian/patches/01-build.xml.
* Use default java implementation.
- debian/control: BD on default-jdk, switch runtime dependency to
default-jre | java6-runtime.
- debian/rules: Specify source/target = 1.5 to ensure that backwards
compatible bytecode is built.
- Closes: #684172, thanks to J. Page and Ubuntu.
Checksums-Sha1:
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picard-tools_1.75.orig.tar.bz2
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Checksums-Sha256:
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picard-tools_1.75.orig.tar.bz2
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picard-tools_1.75-1.debian.tar.gz
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libsam-java_1.75-1_all.deb
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picard-tools_1.75-1_all.deb
Files:
35004948e9c61cde0b10212bbfb468e8 2164 science optional picard-tools_1.75-1.dsc
8194de92e7226480ee6de1e80a3a1e8b 13217185 science optional
picard-tools_1.75.orig.tar.bz2
aeabb85ef9026e167d608a5b35540099 7763 science optional
picard-tools_1.75-1.debian.tar.gz
c0ed54b55f69d86fc7a0b3dddc7b4e7d 205936 java optional
libsam-java_1.75-1_all.deb
7c9c233f320d810a454550643e3b8b41 469108 science optional
picard-tools_1.75-1_all.deb
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