[med-svn] r11746 - trunk/packages/profbval/trunk/debian

Laszlo Kajan lkajan-guest at alioth.debian.org
Wed Jul 11 16:19:26 UTC 2012 

Author: lkajan-guest
Date: 2012-07-11 16:19:26 +0000 (Wed, 11 Jul 2012)
New Revision: 11746

Modified:
   trunk/packages/profbval/trunk/debian/changelog
   trunk/packages/profbval/trunk/debian/control
   trunk/packages/profbval/trunk/debian/copyright
   trunk/packages/profbval/trunk/debian/rules
   trunk/packages/profbval/trunk/debian/upstream
Log:
reviewed Debianization

Modified: trunk/packages/profbval/trunk/debian/changelog
===================================================================
--- trunk/packages/profbval/trunk/debian/changelog	2012-07-11 15:58:36 UTC (rev 11745)
+++ trunk/packages/profbval/trunk/debian/changelog	2012-07-11 16:19:26 UTC (rev 11746)
@@ -1,4 +1,4 @@
-profbval (1.0.18-1) UNRELEASED; urgency=low
+profbval (1.0.19-1) UNRELEASED; urgency=low
 
   * GPL license
 

Modified: trunk/packages/profbval/trunk/debian/control
===================================================================
--- trunk/packages/profbval/trunk/debian/control	2012-07-11 15:58:36 UTC (rev 11745)
+++ trunk/packages/profbval/trunk/debian/control	2012-07-11 16:19:26 UTC (rev 11746)
@@ -1,25 +1,32 @@
 Source: profbval
 Section: science
 Priority: extra
-Maintainer: Guy Yachdav <gyachdav at rostlab.org>
-Uploaders: Laszlo Kajan <lkajan at rostlab.org>
+Maintainer: Debian Med Packaging Team <debian-med-packaging at lists.alioth.debian.org>
+Uploaders: Laszlo Kajan <lkajan at rostlab.org>, Christof Angermüller <angermue at in.tum.de>
 Build-Depends: debhelper (>= 8), perl
 Standards-Version: 3.9.3
-Homepage: http://www.predictprotein.org/docs.php
+Homepage: http://rostlab.org/
+Vcs-Svn: svn://svn.debian.org/debian-med/trunk/packages/profbval/trunk/
+Vcs-Browser: http://svn.debian.org/wsvn/debian-med/trunk/packages/profbval/trunk/
+DM-Upload-Allowed: yes
 
 Package: profbval
 Architecture: all
-Depends: ${perl:Depends}, ${shlibs:Depends}, ${misc:Depends}, debconf (>= 0.5), profnet-bval
+Depends: ${perl:Depends}, ${misc:Depends}, profnet-bval
 Recommends: profphd
-Description: predicts flexibile/rigid residues from sequence
- The mobility of a given residue on the protein surface is related to its 
- functional role. Therefore, identification of extremely rigid or flexible 
- residues on the protein surface is helpful for identifying functionally 
- important residues in proteins. A common measure of atom mobility in proteins 
- is B-value data from x-ray crystallography structures. PROFbval is the first
- web server to predict normalized backbone B-values from 
- amino-acid sequence. PROFbval can be useful for both protein structure and 
+Description: predicts flexibile/rigid protein residues from sequence
+ PROFbval can be useful for both protein structure and 
  function predictions. For instance, a biologist can locate potentially 
  antigenic determinants by identifying the most flexible residues on the 
  protein surface. Additionally, a crystallographer can locate residues that 
  potentially have high experimental B-values. 
+ .
+ Background: the mobility of a given residue on the protein surface is related
+ to its functional role.
+ Therefore, identification of extremely rigid or flexible 
+ residues on the protein surface is helpful for identifying functionally 
+ important residues in proteins. A common measure of atom mobility in proteins 
+ is B-value data from x-ray crystallography structures. PROFbval is the first
+ tool to predict normalized backbone B-values from amino-acid sequence.
+ .
+

Modified: trunk/packages/profbval/trunk/debian/copyright
===================================================================
--- trunk/packages/profbval/trunk/debian/copyright	2012-07-11 15:58:36 UTC (rev 11745)
+++ trunk/packages/profbval/trunk/debian/copyright	2012-07-11 16:19:26 UTC (rev 11746)
@@ -3,12 +3,15 @@
 Upstream-Contact: A. Schlessinger <avnersch at gmail.com>
 Source: ftp://rostlab.org/profbval/
 
-Files: *
+Files: debian/*
 Copyright: 2012 Laszlo Kajan <lkajan at rostlab.org>
+           2012 Christof Angermüller <angermue at in.tum.de>
 License: GPL-3+
 
-Files: debian/*
-Copyright: 2012 Laszlo Kajan <lkajan at rostlab.org>
+Files: *
+Copyright: 2005, 2006 Avner Schlessinger
+           2005, 2006 Burhard Rost
+	   2006 Guy Yachdav
 License: GPL-3+
 
 License: GPL-3+

Modified: trunk/packages/profbval/trunk/debian/rules
===================================================================
--- trunk/packages/profbval/trunk/debian/rules	2012-07-11 15:58:36 UTC (rev 11745)
+++ trunk/packages/profbval/trunk/debian/rules	2012-07-11 16:19:26 UTC (rev 11746)
@@ -1,109 +1,7 @@
 #!/usr/bin/make -f
-# -*- makefile -*-
-# Sample debian/rules that uses debhelper.
-# This file was originally written by Joey Hess and Craig Small.
-# As a special exception, when this file is copied by dh-make into a
-# dh-make output file, you may use that output file without restriction.
-# This special exception was added by Craig Small in version 0.37 of dh-make.
 
 # Uncomment this to turn on verbose mode.
 #export DH_VERBOSE=1
 
-
-# These are used for cross-compiling and for saving the configure script
-# from having to guess our platform (since we know it already)
-DEB_HOST_GNU_TYPE   ?= $(shell dpkg-architecture -qDEB_HOST_GNU_TYPE)
-DEB_BUILD_GNU_TYPE  ?= $(shell dpkg-architecture -qDEB_BUILD_GNU_TYPE)
-ifneq ($(DEB_HOST_GNU_TYPE),$(DEB_BUILD_GNU_TYPE))
-CROSS= --build $(DEB_BUILD_GNU_TYPE) --host $(DEB_HOST_GNU_TYPE)
-else
-CROSS= --build $(DEB_BUILD_GNU_TYPE)
-endif
-
-
-
-config.status: configure
-	dh_testdir
-	# Add here commands to configure the package.
-ifneq "$(wildcard /usr/share/misc/config.sub)" ""
-	cp -f /usr/share/misc/config.sub config.sub
-endif
-ifneq "$(wildcard /usr/share/misc/config.guess)" ""
-	cp -f /usr/share/misc/config.guess config.guess
-endif
-	./configure $(CROSS) --prefix=/usr --mandir=\$${prefix}/share/man --infodir=\$${prefix}/share/info CFLAGS="$(CFLAGS)" LDFLAGS="-Wl,-z,defs" --sysconfdir=/etc
-
-
-build: build-stamp build-arch build-indep
-
-build-stamp:  config.status 
-	dh_testdir
-
-	# Add here commands to compile the package.
-	$(MAKE)
-	#docbook-to-man debian/profbval.sgml > profbval.1
-
-	touch $@
-
-build-arch:
-
-build-indep:
-
-clean: 
-	dh_testdir
-	dh_testroot
-	rm -f build-stamp 
-
-	# Add here commands to clean up after the build process.
-	[ ! -f Makefile ] || $(MAKE) distclean
-	rm -f config.sub config.guess
-
-	dh_clean 
-
-install: build
-	dh_testdir
-	dh_testroot
-	dh_prep
-	dh_installdirs
-
-	# Add here commands to install the package into debian/profbval.
-	$(MAKE) DESTDIR=$(CURDIR)/debian/profbval install
-
-
-# Build architecture-independent files here.
-binary-indep: build install
-	dh_testdir
-	dh_testroot
-	dh_installchangelogs ChangeLog
-	dh_installdocs
-	dh_installexamples
-#	dh_install
-#	dh_installmenu
-#	dh_installdebconf	
-#	dh_installlogrotate
-#	dh_installemacsen
-#	dh_installpam
-#	dh_installmime
-#	dh_python
-#	dh_installinit
-#	dh_installcron
-#	dh_installinfo
-	dh_installman
-	dh_link
-	dh_strip
-	dh_compress
-	dh_fixperms
-#	dh_perl
-#	dh_makeshlibs
-	dh_installdeb
-	dh_shlibdeps
-	dh_gencontrol
-	dh_md5sums
-	dh_builddeb
-
-# Build architecture-dependent files here.
-binary-arch: build install
-# We have nothing to do by default.
-
-binary: binary-indep binary-arch
-.PHONY: build clean binary-indep binary-arch binary install 
+%:
+	dh $@

Modified: trunk/packages/profbval/trunk/debian/upstream
===================================================================
--- trunk/packages/profbval/trunk/debian/upstream	2012-07-11 15:58:36 UTC (rev 11745)
+++ trunk/packages/profbval/trunk/debian/upstream	2012-07-11 16:19:26 UTC (rev 11746)
@@ -1,20 +1,20 @@
 Name: profbval
 Reference:
-- Author: Schlessinger A, Rost B.
-  Title: 'Protein flexibility and rigidity predicted from sequence.'
-  Journal: Proteins
-  Year: 2005
-  Volume: 61
-  Number: 1
-  Pages: 115-26
-  URL: http://www.ncbi.nlm.nih.gov/pubmed/16080156
-  PMID: 16080156
-- Author: Schlessinger A, Yachdav G, & Rost B.
-  Title: 'PROFbval: predict flexible and rigid residues in proteins.'
-  Journal: Bioinformatics
-  Year: 2006
-  Volume: 22
-  Number: 7
-  Pages: 891-3
-  URL: http://www.ncbi.nlm.nih.gov/pubmed?term=PROFbval%3A%20predict%20flexible%20and%20rigid%20residues%20in%20proteins
-  PMID: 16455751
+ - Author: Avner Schlessinger and Guy Yachdav and Burkhard Rost
+   Title: 'PROFbval: predict flexible and rigid residues in proteins.'
+   Journal: Bioinformatics
+   Year: 2006
+   Volume: 22
+   Number: 7
+   Pages: 891-3
+   URL: http://www.ncbi.nlm.nih.gov/pubmed?term=PROFbval%3A%20predict%20flexible%20and%20rigid%20residues%20in%20proteins
+   PMID: 16455751
+ - Author: Avner Schlessinger and Burkhard Rost
+   Title: 'Protein flexibility and rigidity predicted from sequence.'
+   Journal: Proteins
+   Year: 2005
+   Volume: 61
+   Number: 1
+   Pages: 115-26
+   URL: http://www.ncbi.nlm.nih.gov/pubmed/16080156
+   PMID: 16080156

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