[med-svn] r23888 - in trunk/packages/plink/tags: . 1.07-8/debian 1.07-8/debian/upstream
Dylan Aïssi
bob.dybian-guest at moszumanska.debian.org
Sun Jul 23 22:45:57 UTC 2017
Author: bob.dybian-guest
Date: 2017-07-23 22:45:56 +0000 (Sun, 23 Jul 2017)
New Revision: 23888
Added:
trunk/packages/plink/tags/1.07-8/
trunk/packages/plink/tags/1.07-8/debian/changelog
trunk/packages/plink/tags/1.07-8/debian/compat
trunk/packages/plink/tags/1.07-8/debian/control
trunk/packages/plink/tags/1.07-8/debian/upstream/metadata
trunk/packages/plink/tags/1.07-8/debian/watch
Removed:
trunk/packages/plink/tags/1.07-8/debian/changelog
trunk/packages/plink/tags/1.07-8/debian/compat
trunk/packages/plink/tags/1.07-8/debian/control
trunk/packages/plink/tags/1.07-8/debian/upstream/metadata
trunk/packages/plink/tags/1.07-8/debian/watch
Log:
[svn-buildpackage] Tagging plink 1.07-8
Deleted: trunk/packages/plink/tags/1.07-8/debian/changelog
===================================================================
--- trunk/packages/plink/trunk/debian/changelog 2017-07-21 22:35:36 UTC (rev 23884)
+++ trunk/packages/plink/tags/1.07-8/debian/changelog 2017-07-23 22:45:56 UTC (rev 23888)
@@ -1,152 +0,0 @@
-plink (1.07-8) UNRELEASED; urgency=medium
-
- * Update upstream website.
-
- -- Dylan Aïssi <bob.dybian at gmail.com> Wed, 22 Feb 2017 23:11:15 +0100
-
-plink (1.07-7) unstable; urgency=medium
-
- * Add a patch to fix spelling errors
- * Install an upstream changelog
- * Standards-Version: 3.9.8 (no changes needed)
- * Use secure Vcs-Browser
- * Set all hardening options
- * Update uscan options
-
- -- Dylan Aïssi <bob.dybian at gmail.com> Tue, 11 Oct 2016 22:20:19 +0200
-
-plink (1.07-6) unstable; urgency=medium
-
- * Recommends: med-config (>= 2.1)
- * Update NEWS.Debian and install this file
-
- -- Andreas Tille <tille at debian.org> Sat, 04 Jul 2015 13:44:46 +0200
-
-plink (1.07-5) experimental; urgency=medium
-
- * Also create a manpage in Debian Med name space
-
- -- Andreas Tille <tille at debian.org> Sat, 31 Jan 2015 10:02:28 +0100
-
-plink (1.07-4) experimental; urgency=low
-
- [ Andreas Tille ]
- * debian/copyright: - Add Files-Excluded to document what was removed
- from original source
- * debian/watch: Enable '+dfsg' suffix in Debian versions for future
- upstream version upgrades
- * debian/README.source: removed since redundant
- * debian/get-orig-source: removed since not needed any more
-
- [ Dylan Aïssi ]
- * Moved plink executable to usr/lib/debian-med/bin/plink (and symlinked
- old locations to this new location) in order to prepare cohabitation
- with plink1.9 and plink2; renamed manpage accordingly
- Added explicit hint in README.Debian how to proceed if you
- need the original name.
- * debian/control:
- - Standards-Version: 3.9.6 (no changes needed)
- - Fixed lintian vcs-field-not-canonical
- * debian/rules:
- - Activate hardening
- - Repack using uscan
- * debian/tests: Add autopkgtest
-
- -- Dylan Aïssi <bob.dybian at gmail.com> Thu, 22 Jan 2015 08:00:59 +0100
-
-plink (1.07-3) unstable; urgency=low
-
- * debian/patches/gcc-4.7.patch: previous patch was incomplete
- because the same problem occured in more files. Now really
- Closes: #667325
-
- -- Andreas Tille <tille at debian.org> Mon, 23 Apr 2012 07:23:07 +0000
-
-plink (1.07-2) unstable; urgency=low
-
- * debian/control:
- - Standards-Version: 3.9.3 (no changes needed)
- - Fixed Vcs fields
- - Removed quilt from Build-Depends
- * debian/upstream: Added citation information
- * debian/source/format: 3.0 (quilt)
- * debian/get-orig-source: Better chances to get a unique upstream
- tarball after repackaging
- * debian/copyright:
- - Rewritten to match DEP5 and verified using
- cme fix dpkg-copyright
- - Fix FSF address
- * debian/rules: Rewritten to use short dh
- * debian/patches/gcc-4.7.patch: Fix nested declaration
- Thanks for the hints on debian-mentors list to
- Rodolfo García Peñas <kix at kix.es>, Dmitry Nezhevenko <dion at inhex.net>,
- Fernando Lemos <fernandotcl at gmail.com
- Closes: 667325
- * Debhelper 9 (control+compat)
-
- -- Andreas Tille <tille at debian.org> Sun, 22 Apr 2012 18:55:34 +0200
-
-plink (1.07-1) unstable; urgency=low
-
- * New upstream version
- * Removed debian/patches/20_plink-1.06-gcc4.4.patch because it
- is applied upstream
- * Standards-Version: 3.8.3 (no changes needed)
- * Debhelper 7
- * Build-Depends: zlib1g-dev
-
- -- Andreas Tille <tille at debian.org> Fri, 23 Oct 2009 13:35:02 +0200
-
-plink (1.06-4) unstable; urgency=low
-
- * debian/rules:
- - Add support for DEB_BUILD_OPTIONS (Policy § 4.9.1).
- - Set FORCE_DYNAMIC=1 instead of patching the Makefile
- (deleted debian/patches/dynamic.patch).
- * debian/control:
- - Added myself to the uploaders.
- - Incremented Standards-Version to reflect conformance with
- Policy 3.8.2 (no changes needed).
- * documented in README.source how to find help with quilt.
-
- -- Charles Plessy <plessy at debian.org> Wed, 15 Jul 2009 08:08:15 +0900
-
-plink (1.06-3) unstable; urgency=low
-
- * Now really applying the patch to fix 64bit problems
- which really
- Closes: #528659
-
- -- Andreas Tille <tille at debian.org> Tue, 19 May 2009 08:11:21 +0200
-
-plink (1.06-2) unstable; urgency=low
-
- * Fallback to endian.h if all else fails on 64bit machines
- (Thanks to Peter Green <plugwash at p10link.net> for the patch)
- Closes: #528659
-
- -- Andreas Tille <tille at debian.org> Sat, 16 May 2009 21:19:32 +0200
-
-plink (1.06-1) unstable; urgency=low
-
- * New upstream version
- * debian/get-orig-source
- * Standards-Version: 3.8.1 (no changes needed)
- * Moved plink executable to /usr/lib/plink and symlinked
- /usr/bin/p-link to this location; renamed manpage accordingly
- Added explicit hint in README.Debian how to proceed if you
- need the original name.
- Closes: #503367
- * debian/patches/20_plink-1.06-gcc4.4.patch: Patch to compile
- using gcc 4.4
- * debian/rules: Make sure example data files are not executable
- * debian/patches/dynamic.patch: do not link statically
-
- -- Andreas Tille <tille at debian.org> Mon, 04 May 2009 10:17:04 +0200
-
-plink (1.03p1-1) unstable; urgency=low
-
- * Initial release (Closes: #490832).
-
- -- Steffen Moeller <moeller at debian.org> Sun, 24 Aug 2008 17:10:55 +0200
-
Copied: trunk/packages/plink/tags/1.07-8/debian/changelog (from rev 23887, trunk/packages/plink/trunk/debian/changelog)
===================================================================
--- trunk/packages/plink/tags/1.07-8/debian/changelog (rev 0)
+++ trunk/packages/plink/tags/1.07-8/debian/changelog 2017-07-23 22:45:56 UTC (rev 23888)
@@ -0,0 +1,157 @@
+plink (1.07-8) unstable; urgency=medium
+
+ * Update upstream website.
+ * Add OMICtools and RRID refs.
+ * Standards-Version: 4.0.0 (no changes needed).
+ * Bump debhelper 10.
+ * Bump watch file v4.
+ * Remove Testsuite field from d/control, now automatically add.
+
+ -- Dylan Aïssi <bob.dybian at gmail.com> Mon, 24 Jul 2017 00:43:16 +0200
+
+plink (1.07-7) unstable; urgency=medium
+
+ * Add a patch to fix spelling errors
+ * Install an upstream changelog
+ * Standards-Version: 3.9.8 (no changes needed)
+ * Use secure Vcs-Browser
+ * Set all hardening options
+ * Update uscan options
+
+ -- Dylan Aïssi <bob.dybian at gmail.com> Tue, 11 Oct 2016 22:20:19 +0200
+
+plink (1.07-6) unstable; urgency=medium
+
+ * Recommends: med-config (>= 2.1)
+ * Update NEWS.Debian and install this file
+
+ -- Andreas Tille <tille at debian.org> Sat, 04 Jul 2015 13:44:46 +0200
+
+plink (1.07-5) experimental; urgency=medium
+
+ * Also create a manpage in Debian Med name space
+
+ -- Andreas Tille <tille at debian.org> Sat, 31 Jan 2015 10:02:28 +0100
+
+plink (1.07-4) experimental; urgency=low
+
+ [ Andreas Tille ]
+ * debian/copyright: - Add Files-Excluded to document what was removed
+ from original source
+ * debian/watch: Enable '+dfsg' suffix in Debian versions for future
+ upstream version upgrades
+ * debian/README.source: removed since redundant
+ * debian/get-orig-source: removed since not needed any more
+
+ [ Dylan Aïssi ]
+ * Moved plink executable to usr/lib/debian-med/bin/plink (and symlinked
+ old locations to this new location) in order to prepare cohabitation
+ with plink1.9 and plink2; renamed manpage accordingly
+ Added explicit hint in README.Debian how to proceed if you
+ need the original name.
+ * debian/control:
+ - Standards-Version: 3.9.6 (no changes needed)
+ - Fixed lintian vcs-field-not-canonical
+ * debian/rules:
+ - Activate hardening
+ - Repack using uscan
+ * debian/tests: Add autopkgtest
+
+ -- Dylan Aïssi <bob.dybian at gmail.com> Thu, 22 Jan 2015 08:00:59 +0100
+
+plink (1.07-3) unstable; urgency=low
+
+ * debian/patches/gcc-4.7.patch: previous patch was incomplete
+ because the same problem occured in more files. Now really
+ Closes: #667325
+
+ -- Andreas Tille <tille at debian.org> Mon, 23 Apr 2012 07:23:07 +0000
+
+plink (1.07-2) unstable; urgency=low
+
+ * debian/control:
+ - Standards-Version: 3.9.3 (no changes needed)
+ - Fixed Vcs fields
+ - Removed quilt from Build-Depends
+ * debian/upstream: Added citation information
+ * debian/source/format: 3.0 (quilt)
+ * debian/get-orig-source: Better chances to get a unique upstream
+ tarball after repackaging
+ * debian/copyright:
+ - Rewritten to match DEP5 and verified using
+ cme fix dpkg-copyright
+ - Fix FSF address
+ * debian/rules: Rewritten to use short dh
+ * debian/patches/gcc-4.7.patch: Fix nested declaration
+ Thanks for the hints on debian-mentors list to
+ Rodolfo García Peñas <kix at kix.es>, Dmitry Nezhevenko <dion at inhex.net>,
+ Fernando Lemos <fernandotcl at gmail.com
+ Closes: 667325
+ * Debhelper 9 (control+compat)
+
+ -- Andreas Tille <tille at debian.org> Sun, 22 Apr 2012 18:55:34 +0200
+
+plink (1.07-1) unstable; urgency=low
+
+ * New upstream version
+ * Removed debian/patches/20_plink-1.06-gcc4.4.patch because it
+ is applied upstream
+ * Standards-Version: 3.8.3 (no changes needed)
+ * Debhelper 7
+ * Build-Depends: zlib1g-dev
+
+ -- Andreas Tille <tille at debian.org> Fri, 23 Oct 2009 13:35:02 +0200
+
+plink (1.06-4) unstable; urgency=low
+
+ * debian/rules:
+ - Add support for DEB_BUILD_OPTIONS (Policy § 4.9.1).
+ - Set FORCE_DYNAMIC=1 instead of patching the Makefile
+ (deleted debian/patches/dynamic.patch).
+ * debian/control:
+ - Added myself to the uploaders.
+ - Incremented Standards-Version to reflect conformance with
+ Policy 3.8.2 (no changes needed).
+ * documented in README.source how to find help with quilt.
+
+ -- Charles Plessy <plessy at debian.org> Wed, 15 Jul 2009 08:08:15 +0900
+
+plink (1.06-3) unstable; urgency=low
+
+ * Now really applying the patch to fix 64bit problems
+ which really
+ Closes: #528659
+
+ -- Andreas Tille <tille at debian.org> Tue, 19 May 2009 08:11:21 +0200
+
+plink (1.06-2) unstable; urgency=low
+
+ * Fallback to endian.h if all else fails on 64bit machines
+ (Thanks to Peter Green <plugwash at p10link.net> for the patch)
+ Closes: #528659
+
+ -- Andreas Tille <tille at debian.org> Sat, 16 May 2009 21:19:32 +0200
+
+plink (1.06-1) unstable; urgency=low
+
+ * New upstream version
+ * debian/get-orig-source
+ * Standards-Version: 3.8.1 (no changes needed)
+ * Moved plink executable to /usr/lib/plink and symlinked
+ /usr/bin/p-link to this location; renamed manpage accordingly
+ Added explicit hint in README.Debian how to proceed if you
+ need the original name.
+ Closes: #503367
+ * debian/patches/20_plink-1.06-gcc4.4.patch: Patch to compile
+ using gcc 4.4
+ * debian/rules: Make sure example data files are not executable
+ * debian/patches/dynamic.patch: do not link statically
+
+ -- Andreas Tille <tille at debian.org> Mon, 04 May 2009 10:17:04 +0200
+
+plink (1.03p1-1) unstable; urgency=low
+
+ * Initial release (Closes: #490832).
+
+ -- Steffen Moeller <moeller at debian.org> Sun, 24 Aug 2008 17:10:55 +0200
+
Deleted: trunk/packages/plink/tags/1.07-8/debian/compat
===================================================================
--- trunk/packages/plink/trunk/debian/compat 2017-07-21 22:35:36 UTC (rev 23884)
+++ trunk/packages/plink/tags/1.07-8/debian/compat 2017-07-23 22:45:56 UTC (rev 23888)
@@ -1 +0,0 @@
-9
Copied: trunk/packages/plink/tags/1.07-8/debian/compat (from rev 23886, trunk/packages/plink/trunk/debian/compat)
===================================================================
--- trunk/packages/plink/tags/1.07-8/debian/compat (rev 0)
+++ trunk/packages/plink/tags/1.07-8/debian/compat 2017-07-23 22:45:56 UTC (rev 23888)
@@ -0,0 +1 @@
+10
Deleted: trunk/packages/plink/tags/1.07-8/debian/control
===================================================================
--- trunk/packages/plink/trunk/debian/control 2017-07-21 22:35:36 UTC (rev 23884)
+++ trunk/packages/plink/tags/1.07-8/debian/control 2017-07-23 22:45:56 UTC (rev 23888)
@@ -1,37 +0,0 @@
-Source: plink
-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>,
- Charles Plessy <plessy at debian.org>,
- Dylan Aïssi <bob.dybian at gmail.com>
-Section: science
-Testsuite: autopkgtest
-Priority: optional
-Build-Depends: debhelper (>= 9),
- zlib1g-dev
-Standards-Version: 3.9.8
-Vcs-Browser: https://anonscm.debian.org/viewvc/debian-med/trunk/packages/plink/trunk/
-Vcs-Svn: svn://anonscm.debian.org/debian-med/trunk/packages/plink/trunk/
-Homepage: http://zzz.bwh.harvard.edu/plink/
-
-Package: plink
-Architecture: any
-Depends: ${shlibs:Depends},
- ${misc:Depends}
-Recommends: med-config (>= 2.1)
-Description: whole-genome association analysis toolset
- plink expects as input the data from SNP (single
- nucleotide polymorphism) chips of many individuals
- and their phenotypical description of a disease.
- It finds associations of single or pairs of DNA
- variations with a phenotype and can retrieve
- SNP annotation from an online source.
- .
- SNPs can evaluated individually or as pairs for their
- association with the disease phenotypes. The joint
- investigation of copy number variations is supported.
- A variety of statistical tests have been implemented.
- .
- Please note: The executable was renamed to plink1
- because of a name clash. Please read more about this
- in /usr/share/doc/README.Debian.
Copied: trunk/packages/plink/tags/1.07-8/debian/control (from rev 23886, trunk/packages/plink/trunk/debian/control)
===================================================================
--- trunk/packages/plink/tags/1.07-8/debian/control (rev 0)
+++ trunk/packages/plink/tags/1.07-8/debian/control 2017-07-23 22:45:56 UTC (rev 23888)
@@ -0,0 +1,36 @@
+Source: plink
+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>,
+ Charles Plessy <plessy at debian.org>,
+ Dylan Aïssi <bob.dybian at gmail.com>
+Section: science
+Priority: optional
+Build-Depends: debhelper (>= 10),
+ zlib1g-dev
+Standards-Version: 4.0.0
+Vcs-Browser: https://anonscm.debian.org/viewvc/debian-med/trunk/packages/plink/trunk/
+Vcs-Svn: svn://anonscm.debian.org/debian-med/trunk/packages/plink/trunk/
+Homepage: http://zzz.bwh.harvard.edu/plink/
+
+Package: plink
+Architecture: any
+Depends: ${shlibs:Depends},
+ ${misc:Depends}
+Recommends: med-config (>= 2.1)
+Description: whole-genome association analysis toolset
+ plink expects as input the data from SNP (single
+ nucleotide polymorphism) chips of many individuals
+ and their phenotypical description of a disease.
+ It finds associations of single or pairs of DNA
+ variations with a phenotype and can retrieve
+ SNP annotation from an online source.
+ .
+ SNPs can evaluated individually or as pairs for their
+ association with the disease phenotypes. The joint
+ investigation of copy number variations is supported.
+ A variety of statistical tests have been implemented.
+ .
+ Please note: The executable was renamed to plink1
+ because of a name clash. Please read more about this
+ in /usr/share/doc/README.Debian.
Deleted: trunk/packages/plink/tags/1.07-8/debian/upstream/metadata
===================================================================
--- trunk/packages/plink/trunk/debian/upstream/metadata 2017-07-21 22:35:36 UTC (rev 23884)
+++ trunk/packages/plink/tags/1.07-8/debian/upstream/metadata 2017-07-23 22:45:56 UTC (rev 23888)
@@ -1,10 +0,0 @@
-Reference:
- Author: Shaun Purcell and Benjamin Neale and Kathe Todd-Brown and Lori Thomas and Manuel A. R. Ferreira and David Bender and Julian Maller and Pamela Sklar and Paul I. W. de Bakker and Mark J. Daly and Pak C. Sham
- Title: "PLINK: a toolset for whole-genome association and population-based linkage analysis"
- Journal: American Journal of Human Genetics
- Volume: 81
- Number: 3
- Pages: 559-75
- Year: 2007
- PMID: 17701901
- URL: http://www.ncbi.nlm.nih.gov/pmc/articles/PMC1950838/
Copied: trunk/packages/plink/tags/1.07-8/debian/upstream/metadata (from rev 23885, trunk/packages/plink/trunk/debian/upstream/metadata)
===================================================================
--- trunk/packages/plink/tags/1.07-8/debian/upstream/metadata (rev 0)
+++ trunk/packages/plink/tags/1.07-8/debian/upstream/metadata 2017-07-23 22:45:56 UTC (rev 23888)
@@ -0,0 +1,17 @@
+Name: plink
+Reference:
+ - Author: Shaun Purcell and Benjamin Neale and Kathe Todd-Brown and Lori Thomas and Manuel A. R. Ferreira and David Bender and Julian Maller and Pamela Sklar and Paul I. W. de Bakker and Mark J. Daly and Pak C. Sham
+ Title: "PLINK: a toolset for whole-genome association and population-based linkage analysis"
+ Journal: American Journal of Human Genetics
+ Volume: 81
+ Number: 3
+ Pages: 559-75
+ Year: 2007
+ PMID: 17701901
+ URL: http://www.ncbi.nlm.nih.gov/pmc/articles/PMC1950838/
+ DOI: 10.1086/519795
+Registry:
+ - Name: OMICtools
+ Entry: OMIC_00206
+ - Name: RRID
+ Entry: SCR_001757
Deleted: trunk/packages/plink/tags/1.07-8/debian/watch
===================================================================
--- trunk/packages/plink/trunk/debian/watch 2017-07-21 22:35:36 UTC (rev 23884)
+++ trunk/packages/plink/tags/1.07-8/debian/watch 2017-07-23 22:45:56 UTC (rev 23888)
@@ -1,3 +0,0 @@
-version=3
-opts="repacksuffix=+dfsg,dversionmangle=s/\+dfsg//g,repack,compression=xz" \
- http://zzz.bwh.harvard.edu/plink/dist/plink-(\d\S*)-src.zip
Copied: trunk/packages/plink/tags/1.07-8/debian/watch (from rev 23886, trunk/packages/plink/trunk/debian/watch)
===================================================================
--- trunk/packages/plink/tags/1.07-8/debian/watch (rev 0)
+++ trunk/packages/plink/tags/1.07-8/debian/watch 2017-07-23 22:45:56 UTC (rev 23888)
@@ -0,0 +1,3 @@
+version=4
+opts="repacksuffix=+dfsg,dversionmangle=s/\+dfsg//g,repack,compression=xz" \
+ http://zzz.bwh.harvard.edu/plink/dist/plink-(\d\S*)-src.zip
More information about the debian-med-commit
mailing list