[med-svn] r1920 - trunk/packages/pdb2pqr/trunk/debian
smoe-guest at alioth.debian.org
smoe-guest at alioth.debian.org
Tue May 27 23:01:57 UTC 2008
Author: smoe-guest
Date: 2008-05-27 23:01:56 +0000 (Tue, 27 May 2008)
New Revision: 1920
Modified:
trunk/packages/pdb2pqr/trunk/debian/README.source
trunk/packages/pdb2pqr/trunk/debian/changelog
trunk/packages/pdb2pqr/trunk/debian/control
trunk/packages/pdb2pqr/trunk/debian/dirs
trunk/packages/pdb2pqr/trunk/debian/rules
Log:
Added Manuel's changes ... who is now also a member of Debian-Med and can commit himself :)
SM
Modified: trunk/packages/pdb2pqr/trunk/debian/README.source
===================================================================
--- trunk/packages/pdb2pqr/trunk/debian/README.source 2008-05-26 05:26:57 UTC (rev 1919)
+++ trunk/packages/pdb2pqr/trunk/debian/README.source 2008-05-27 23:01:56 UTC (rev 1920)
@@ -1 +0,0 @@
-The source was stripped from .svn directories.
Modified: trunk/packages/pdb2pqr/trunk/debian/changelog
===================================================================
--- trunk/packages/pdb2pqr/trunk/debian/changelog 2008-05-26 05:26:57 UTC (rev 1919)
+++ trunk/packages/pdb2pqr/trunk/debian/changelog 2008-05-27 23:01:56 UTC (rev 1920)
@@ -1,20 +1,5 @@
-pdb2pqr (1.3.0-1) UNRELEASED; urgency=low
+pdb2pqr (1.3.0-1) experimental; urgency=low
- [ Steffen Moeller ]
+ * Initial release (Closes: #416269)
- * New upstream release
- * Removed artifacts from first upload
- * Corrected debian/copyright
-
- [ David Paleino ]
-
- * Updated to Standards-Version 3.7.3 (no changes needed)
-
-- Steffen Moeller <moeller at debian.org> Fri, 23 May 2008 14:51:41 +0200
-
-pdb2pqr (1.2.1-1) UNRELEASED; urgency=low
-
- * Initial release.
-
- -- Steffen Moeller <moeller at debian.org> Thu, 20 Dec 2007 16:27:31 +0100
-
Modified: trunk/packages/pdb2pqr/trunk/debian/control
===================================================================
--- trunk/packages/pdb2pqr/trunk/debian/control 2008-05-26 05:26:57 UTC (rev 1919)
+++ trunk/packages/pdb2pqr/trunk/debian/control 2008-05-27 23:01:56 UTC (rev 1920)
@@ -3,8 +3,8 @@
Priority: optional
Maintainer: Debian-Med Packaging Team <debian-med-packaging at lists.alioth.debian.org>
DM-Upload-Allowed: yes
-Uploaders: Steffen Moeller <moeller at debian.org>
-Build-Depends: debhelper (>= 5.0.38), python-central (>= 0.5.6), cdbs (>= 0.4.49), python-all-dev (>= 2.3.5-11), swig
+Uploaders: Steffen Moeller <moeller at debian.org>, Manuel Prinz <debian at pinguinkiste.de>
+Build-Depends: debhelper (>= 5.0.38), python-central (>= 0.5.6), cdbs (>= 0.4.49), python-all-dev (>= 2.3.5-11), swig, python-numpy, gfortran
Standards-Version: 3.7.3
XS-Python-Version: 2.5
Vcs-Browser: http://svn.debian.org/wsvn/debian-med/trunk/packages/pdb2pqr/trunk/?rev=0&sc=0
@@ -14,7 +14,8 @@
Package: pdb2pqr
XB-Python-Version: ${python:Versions}
Architecture: any
-Depends: ${shlibs:Depends}, ${misc:Depends}, ${python:Depends}, python-xml, python-zsi, libgfortran3
+Depends: ${shlibs:Depends}, ${misc:Depends}, ${python:Depends}, python-xml
+Suggests: apbs
Description: Preparation of protein structures for electrostatics calculations
PDB2PQR is a Python software package that automates many of the common
tasks of preparing structures for continuum electrostatics calculations,
Modified: trunk/packages/pdb2pqr/trunk/debian/dirs
===================================================================
--- trunk/packages/pdb2pqr/trunk/debian/dirs 2008-05-26 05:26:57 UTC (rev 1919)
+++ trunk/packages/pdb2pqr/trunk/debian/dirs 2008-05-27 23:01:56 UTC (rev 1920)
@@ -1,3 +1,4 @@
/usr/bin
+/usr/share/doc/pdb2pqr
/usr/share/pdb2pqr
-/usr/share/doc/pdb2pqr
+/usr/share/pdb2pqr/propka
Modified: trunk/packages/pdb2pqr/trunk/debian/rules
===================================================================
--- trunk/packages/pdb2pqr/trunk/debian/rules 2008-05-26 05:26:57 UTC (rev 1919)
+++ trunk/packages/pdb2pqr/trunk/debian/rules 2008-05-27 23:01:56 UTC (rev 1920)
@@ -1,51 +1,31 @@
#!/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
+include /usr/share/cdbs/1/class/autotools.mk
+include /usr/share/cdbs/1/rules/debhelper.mk
+# Do not execute "install" target. We'll take care of that since
+# upstream's build system installs *everything* to $prefix (if set)
+DEB_MAKE_INSTALL_TARGET =
+# pdb2pka made a little trouble, disabling for now
+DEB_CONFIGURE_EXTRA_FLAGS := --disable-pdb2pka
-configure: config.status
-
-config.status:
- ./configure --enable-pdb2pka
- touch $@
-
-
-build: build-stamp
-
-build-stamp: configure
- make
- touch $@
-
-install: build
- if [ ! -d $(CURDIR)/debian/pdb2pqr/usr/share/pdb2pqr ]; then \
- echo directory $(CURDIR)/debian/pdb2pqr/usr/share/pdb2pqr/ should have been created via debian/dirs ; \
- mkdir -p $(CURDIR)/debian/pdb2pqr/usr/share/pdb2pqr ; \
- fi
- cp dat/* $(CURDIR)/debian/pdb2pqr/usr/share/pdb2pqr/
- cp -r pdb2pqr.py src extensions $(CURDIR)/debian/pdb2pqr/usr/share/pdb2pqr/
- if [ ! -d $(CURDIR)/debian/pdb2pqr/usr/bin ]; then \
- echo directory $(CURDIR)/debian/pdb2pqr/usr/bin should have been created via debian/dirs ; \
- mkdir -p $(CURDIR)/debian/pdb2pqr/usr/bin ; \
- fi
+binary-post-install/pdb2pqr::
+# Install PDB2PQR
+ cp -r pdb2pqr.py src dat extensions $(CURDIR)/debian/pdb2pqr/usr/share/pdb2pqr/
+ for file in __init__.py _propkalib.so propkalib.py; do \
+ cp propka/$${file} $(CURDIR)/debian/pdb2pqr/usr/share/pdb2pqr/propka/ ; \
+ done
+# Install "binaries"
cp debian/wrapper.sh $(CURDIR)/debian/pdb2pqr/usr/bin/pdb2pqr
chmod 755 $(CURDIR)/debian/pdb2pqr/usr/bin/pdb2pqr
cp propka/propka $(CURDIR)/debian/pdb2pqr/usr/bin/
-include /usr/share/cdbs/1/rules/debhelper.mk
-
-common-binary-predeb-arch::install
-
+# Clean files that are not removed in upstream's "distclean" target
clean::
- rm -rf build-stamp config.status propka/propka
- find . -name *.o -o -name *.so | xargs -r rm
- find . -name "*.pdb" -exec chmod 644 {} \;
-
-.PHONY: install
+ rm -f index.html html/server.html querystatus.cgi
+ rm -f pdb2pqr.py pdb2pqr.cgi pdb2pqr-opal.cgi src/server.py
+ rm -f tests/adv-test/test.cpp tests/adv-test/test.sh
+ rm -f tests/test/test.cpp tests/test/test.sh
+ rm -r -f tmp/
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