[med-svn] r4195 - trunk/packages/infernal/trunk/debian

[Charles Plessy]

Author: plessy
Date: 2009-10-09 00:59:56 +0000 (Fri, 09 Oct 2009)
New Revision: 4195

Added:
   trunk/packages/infernal/trunk/debian/upstream-metadata.yaml
Modified:
   trunk/packages/infernal/trunk/debian/changelog
   trunk/packages/infernal/trunk/debian/control
   trunk/packages/infernal/trunk/debian/rules
Log:
Do not ignore autotools-dev, and updated bibliographic reference.

  * Switch to CDBS to benefit from automagical config.{sub,guess}
    update (debian/rules). Closes: #550253.
  * debian/control:
    - Depend on cdbs, downgraded requirement on debhelper from 7.1 to 7.
    - Transferred bibliographic information from the package description
      to debian/upstream-metadata.yaml.


Modified: trunk/packages/infernal/trunk/debian/changelog
===================================================================
--- trunk/packages/infernal/trunk/debian/changelog	2009-10-08 10:28:34 UTC (rev 4194)
+++ trunk/packages/infernal/trunk/debian/changelog	2009-10-09 00:59:56 UTC (rev 4195)
@@ -1,3 +1,14 @@
+infernal (1.0-2) UNRELEASED; urgency=low
+
+  * Switch to CDBS to benefit from automagical config.{sub,guess}
+    update (debian/rules). Closes: #550253.
+  * debian/control:
+    - Depend on cdbs, downgraded requirement on debhelper from 7.1 to 7.
+    - Transferred bibliographic information from the package description
+      to debian/upstream-metadata.yaml.
+
+ -- Charles Plessy <plessy at debian.org>  Fri, 09 Oct 2009 09:45:00 +0900
+
 infernal (1.0-1) unstable; urgency=low
 
   [ Charles Plessy ]

Modified: trunk/packages/infernal/trunk/debian/control
===================================================================
--- trunk/packages/infernal/trunk/debian/control	2009-10-08 10:28:34 UTC (rev 4194)
+++ trunk/packages/infernal/trunk/debian/control	2009-10-09 00:59:56 UTC (rev 4195)
@@ -6,7 +6,7 @@
 Uploaders: Steffen Moeller <moeller at debian.org>,
  Charles Plessy <plessy at debian.org>,
  Andreas Tille <tille at debian.org>
-Build-Depends: debhelper (>= 7.1), autotools-dev
+Build-Depends: cdbs, debhelper (>= 7), autotools-dev
 Standards-Version: 3.8.3
 Vcs-Browser: http://svn.debian.org/wsvn/debian-med/trunk/packages/infernal/trunk/?rev=0&sc=0
 Vcs-Svn: svn://svn.debian.org/svn/debian-med/trunk/packages/infernal/trunk/
@@ -26,10 +26,6 @@
  than their primary sequence.
  .
  The tool is an integral component of the Rfam database.
- .
- Users of this package should cite:
- "Query-Dependent Banding (QDB) for Faster RNA Similarity Searches."
- E. P. Nawrocki, S. R. Eddy. PLoS Comput. Biol., 3:e56, 2007.
 
 Package: infernal-doc
 Architecture: all

Modified: trunk/packages/infernal/trunk/debian/rules
===================================================================
--- trunk/packages/infernal/trunk/debian/rules	2009-10-08 10:28:34 UTC (rev 4194)
+++ trunk/packages/infernal/trunk/debian/rules	2009-10-09 00:59:56 UTC (rev 4195)
@@ -1,20 +1,18 @@
 #!/usr/bin/make -f
 # -*- makefile -*-
 
-%:
-	dh $@
+include /usr/share/cdbs/1/class/autotools.mk
+include /usr/share/cdbs/1/rules/debhelper.mk
 
-override_dh_compress:
-	dh_compress --exclude=.pdf
+DEB_COMPRESS_EXCLUDE = .pdf
 
-override_dh_auto_clean:
+clean::
 	if [ -r Makefile ]; then $(MAKE) distclean; fi
 	cd documentation/userguide; make distclean
 	cd easel/documentation; make distclean
 	dh_clean *.1 */*.log *.log */Makefile Makefile documentation/manpages/*.1
 
-override_dh_auto_install:
-        $(MAKE) install PREFIX=`pwd`/debian/tmp
+DEB_MAKE_INSTALL_TARGET = install prefix=$(CURDIR)/debian/tmp
 
 get-orig-source:
 	VERSION=`dpkg-parsechangelog | grep Ver | cut -d' ' -f2 | cut -d- -f1` ; \

Added: trunk/packages/infernal/trunk/debian/upstream-metadata.yaml
===================================================================
--- trunk/packages/infernal/trunk/debian/upstream-metadata.yaml	                        (rev 0)
+++ trunk/packages/infernal/trunk/debian/upstream-metadata.yaml	2009-10-09 00:59:56 UTC (rev 4195)
@@ -0,0 +1,16 @@
+DOI: 10.1093/bioinformatics/btp157
+Homepage: http://infernal.janelia.org/
+PubMed: 19307242
+Reference: |
+ at article{EricP. Nawrocki05152009,
+ author = {Nawrocki, Eric P. and Kolbe, Diana L. and Eddy, Sean R.},
+ title = {{Infernal 1.0: inference of RNA alignments}},
+ journal = {Bioinformatics},
+ volume = {25},
+ number = {10},
+ pages = {1335-1337},
+ doi = {10.1093/bioinformatics/btp157},
+ year = {2009},
+ URL = {http://bioinformatics.oxfordjournals.org/cgi/content/abstract/25/10/1335},
+ eprint = {http://bioinformatics.oxfordjournals.org/cgi/reprint/25/10/1335.pdf}
+ }