[med-svn] r3455 - trunk/packages/altree/trunk/debian
Charles Plessy
plessy at alioth.debian.org
Wed Jun 3 11:34:39 UTC 2009
Author: plessy
Date: 2009-06-03 11:34:39 +0000 (Wed, 03 Jun 2009)
New Revision: 3455
Added:
trunk/packages/altree/trunk/debian/altree.bash-completion
trunk/packages/altree/trunk/debian/reference
Modified:
trunk/packages/altree/trunk/debian/altree.docs
trunk/packages/altree/trunk/debian/changelog
trunk/packages/altree/trunk/debian/compat
trunk/packages/altree/trunk/debian/control
trunk/packages/altree/trunk/debian/copyright
trunk/packages/altree/trunk/debian/rules
Log:
Ready, except that libtamuanova-perl is not yet in Debian.
* Depends on libtamuanova-perl (debian/control).
* Added a BibTeX reference in debian/reference and install it through
debian/altree.docs.
* Refreshed debian/copyright.
* Using debhelper 7 (debian/compat, debian/control).
* Incremented Standards-Version to reflect conformance to Policy 3.8.1
(no changes needed).
* Bash completion:
- Build-depend on bash-completion >= 1:1 in debian/control.
- Install the altree completion file using dh_bash-completion.
Added: trunk/packages/altree/trunk/debian/altree.bash-completion
===================================================================
--- trunk/packages/altree/trunk/debian/altree.bash-completion (rev 0)
+++ trunk/packages/altree/trunk/debian/altree.bash-completion 2009-06-03 11:34:39 UTC (rev 3455)
@@ -0,0 +1 @@
+bash_completion altree
Modified: trunk/packages/altree/trunk/debian/altree.docs
===================================================================
--- trunk/packages/altree/trunk/debian/altree.docs 2009-06-03 01:01:49 UTC (rev 3454)
+++ trunk/packages/altree/trunk/debian/altree.docs 2009-06-03 11:34:39 UTC (rev 3455)
@@ -1,2 +1,3 @@
README
Documentation/manual.pdf
+debian/reference
Modified: trunk/packages/altree/trunk/debian/changelog
===================================================================
--- trunk/packages/altree/trunk/debian/changelog 2009-06-03 01:01:49 UTC (rev 3454)
+++ trunk/packages/altree/trunk/debian/changelog 2009-06-03 11:34:39 UTC (rev 3455)
@@ -1,13 +1,21 @@
altree (1.1.0-1) UNRELEASED; urgency=low
+Do not upload until libtamuanova-perl is in Debian.
+
+ * New upstream release.
+
[ Charles Plessy ]
- TODO:
- - Summarise what is new.
- - integrate bash completion.
- - Update description to reflect new functionalities.
+ * Depends on libtamuanova-perl (debian/control).
+ * Added a BibTeX reference in debian/reference and install it through
+ debian/altree.docs.
+ * Refreshed debian/copyright.
+ * Using debhelper 7 (debian/compat, debian/control).
+ * Incremented Standards-Version to reflect conformance to Policy 3.8.1
+ (no changes needed).
+ * Bash completion:
+ - Build-depend on bash-completion >= 1:1 in debian/control.
+ - Install the altree completion file using dh_bash-completion.
- * New upstream version available.
-
[ David Paleino ]
* debian/control:
- removed unneeded Build-Dependencies
@@ -16,7 +24,7 @@
* debian/rules:
- removing unneeded included Makefile
- -- David Paleino <d.paleino at gmail.com> Sat, 23 May 2009 14:52:22 +0200
+ -- Charles Plessy <plessy at debian.org> Wed, 03 Jun 2009 19:30:05 +0900
altree (1.0.1-3) unstable; urgency=low
Modified: trunk/packages/altree/trunk/debian/compat
===================================================================
--- trunk/packages/altree/trunk/debian/compat 2009-06-03 01:01:49 UTC (rev 3454)
+++ trunk/packages/altree/trunk/debian/compat 2009-06-03 11:34:39 UTC (rev 3455)
@@ -1 +1 @@
-5
+7
Modified: trunk/packages/altree/trunk/debian/control
===================================================================
--- trunk/packages/altree/trunk/debian/control 2009-06-03 01:01:49 UTC (rev 3454)
+++ trunk/packages/altree/trunk/debian/control 2009-06-03 11:34:39 UTC (rev 3455)
@@ -5,24 +5,24 @@
DM-Upload-Allowed: yes
Uploaders: Charles Plessy <plessy at debian.org>,
Vincent Danjean <vdanjean at debian.org>
-Build-Depends: debhelper (>= 5.0.0), cdbs (>= 0.4.27), perl (>= 5.6.0), latex-make, texlive-lang-french, texlive-latex-extra, texlive-latex-recommended, texlive-fonts-recommended
-Standards-Version: 3.8.0
+Build-Depends: bash-completion (>= 1:1), debhelper (>= 7), cdbs, latex-make, texlive-lang-french, texlive-latex-extra, texlive-latex-recommended, texlive-fonts-recommended
+Standards-Version: 3.8.1
Vcs-Browser: http://svn.debian.org/wsvn/debian-med/trunk/packages/altree/trunk/?rev=0&sc=0
-Vcs-Svn: svn://svn.debian.org/svn/debian-med/trunk/packages/altree
-Homepage: http://claire.bardel.free.fr/
+Vcs-Svn: svn://svn.debian.org/svn/debian-med/trunk/packages/altree/trunk
+Homepage: http://claire.bardel.free.fr/software.html
Package: altree
Architecture: any
Conflicts: libcutils-perl, alphy
Replaces: libcutils-perl, alphy
Provides: libcutils-perl, alphy
-Depends: ${shlibs:Depends}, ${misc:Depends}, ${perl:Depends}
+Depends: ${shlibs:Depends}, ${misc:Depends}, ${perl:Depends}, libtamuanova-perl
Suggests: altree-examples
-Description: program to perform phylogeny based analyses
- ALTree was designed to perform phylogeny based analysis: first,
- it allows the detection of an association between a candidate gene and
- a disease, and second, it enables to make hypothesis about the
- susceptibility loci.
+Description: program to perform phylogeny-based association and localization analysis
+ ALTree was designed to perform association detection and localization of
+ susceptibility sites using haplotype phylogenetic trees: first, it allows the
+ detection of an association between a candidate gene and a disease, and second,
+ it enables to make hypothesis about the susceptibility loci.
Package: altree-examples
Architecture: all
Modified: trunk/packages/altree/trunk/debian/copyright
===================================================================
--- trunk/packages/altree/trunk/debian/copyright 2009-06-03 01:01:49 UTC (rev 3454)
+++ trunk/packages/altree/trunk/debian/copyright 2009-06-03 11:34:39 UTC (rev 3455)
@@ -1,10 +1,9 @@
-Format-Specification: http://wiki.debian.org/Proposals/CopyrightFormat?action=recall&rev=139
-Upstream-Author: Claire Bardel
-Packaged-By: Vincent Danjean <Vincent.Danjean at ens-lyon.org>
-Packaged-Date: Mon, 25 Jul 2005 22:22:50 +0200
-Original-Source-Location: http://claire.bardel.free.fr/files/altree-1.1.0.tar.gz
+Format: Machine-readable license summary, see ‘http://dep.debian.net/deps/dep5/’.
-Files: *
+Name: ALTree
+Contact: Claire Bardel
+Source: http://claire.bardel.free.fr/files/altree-1.1.0.tar.gz
+
Copyright: © 2005-2008 Claire Bardel <Claire.Bardel at univ-lyon1.fr>
© 2005-2007 Vincent Danjean <vdanjean.ml at free.fr>
License: GPL-2+
@@ -22,11 +21,11 @@
along with this package; if not, write to the Free Software
Foundation, Inc., 51 Franklin St, Fifth Floor, Boston,
MA 02110-1301, USA.
-X-Comment: On Debian systems, the complete text of the GNU General
- Public License can be found in `/usr/share/common-licenses/GPL'.
+Comment: On Debian systems, the complete text of the GNU General Public License
+ version 2 can be found in ‘/usr/share/common-licenses/GPL-2’.
Files: debian/*
Copyright: © 2005—2008 Vincean Danjean <Vincent.Danjean at ens-lyon.org>
- © 2008 David Paleino <d.paleino at gmail.com>
- © 2008 Charles Plessy <plessy at debian.org>
+ © 2008 David Paleino <d.paleino at gmail.com>
+ © 2008–2009 Charles Plessy <plessy at debian.org>
License: Same as altree
Added: trunk/packages/altree/trunk/debian/reference
===================================================================
--- trunk/packages/altree/trunk/debian/reference (rev 0)
+++ trunk/packages/altree/trunk/debian/reference 2009-06-03 11:34:39 UTC (rev 3455)
@@ -0,0 +1,12 @@
+ at article{ClaireBardel06012006,
+author = {Bardel, Claire and Danjean, Vincent and Genin, Emmanuelle},
+title = {{ALTree: association detection and localization of susceptibility sites using haplotype phylogenetic trees}},
+journal = {Bioinformatics},
+volume = {22},
+number = {11},
+pages = {1402-1403},
+doi = {10.1093/bioinformatics/btl131},
+year = {2006},
+URL = {http://bioinformatics.oxfordjournals.org/cgi/content/abstract/22/11/1402},
+eprint = {http://bioinformatics.oxfordjournals.org/cgi/reprint/22/11/1402.pdf}
+}
Modified: trunk/packages/altree/trunk/debian/rules
===================================================================
--- trunk/packages/altree/trunk/debian/rules 2009-06-03 01:01:49 UTC (rev 3454)
+++ trunk/packages/altree/trunk/debian/rules 2009-06-03 11:34:39 UTC (rev 3455)
@@ -10,5 +10,8 @@
build/altree::
$(MAKE) -C Documentation pdf
+binary-install/altree::
+ dh_bash-completion
+
clean::
$(MAKE) -C Documentation distclean
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