[med-svn] r1574 - in trunk/packages: . ecell ecell/trunk ecell/trunk/debian
tille at alioth.debian.org
tille at alioth.debian.org
Thu Mar 13 10:50:11 UTC 2008
Author: tille
Date: 2008-03-13 10:50:10 +0000 (Thu, 13 Mar 2008)
New Revision: 1574
Added:
trunk/packages/ecell/
trunk/packages/ecell/trunk/
trunk/packages/ecell/trunk/README
trunk/packages/ecell/trunk/debian/
trunk/packages/ecell/trunk/debian/README.Debian
trunk/packages/ecell/trunk/debian/changelog
trunk/packages/ecell/trunk/debian/compat
trunk/packages/ecell/trunk/debian/control
trunk/packages/ecell/trunk/debian/copyright
trunk/packages/ecell/trunk/debian/ecell-doc.dirs
trunk/packages/ecell/trunk/debian/ecell-doc.doc-base
trunk/packages/ecell/trunk/debian/ecell.dirs
trunk/packages/ecell/trunk/debian/ecell.docs
trunk/packages/ecell/trunk/debian/manpages
trunk/packages/ecell/trunk/debian/rules
Log:
Moved Steffen M?\195?\182llers work which was stalled to svn to keep track of previous work.
Added: trunk/packages/ecell/trunk/README
===================================================================
--- trunk/packages/ecell/trunk/README (rev 0)
+++ trunk/packages/ecell/trunk/README 2008-03-13 10:50:10 UTC (rev 1574)
@@ -0,0 +1,3 @@
+Work on this project was started by Steffen Möller but has stalled.
+Feel free to take it over.
+
Added: trunk/packages/ecell/trunk/debian/README.Debian
===================================================================
--- trunk/packages/ecell/trunk/debian/README.Debian (rev 0)
+++ trunk/packages/ecell/trunk/debian/README.Debian 2008-03-13 10:50:10 UTC (rev 1574)
@@ -0,0 +1,8 @@
+ecell for Debian
+----------------
+
+The required python libraries for boochs are only available for python 2.2 at the time the package was created. Since python2.3 is usually parallel installed, I suggest to manually reset the link from /usr/bin/python to /usr/bin/python2.2 until the packages for 2.3 are avaialble.
+
+The package is not yet lintian-clean.
+
+ -- Steffen Moeller <moeller at pzr.uni-rostock.de>, Wed, 10 Mar 2004 22:08:00 +0100
Added: trunk/packages/ecell/trunk/debian/changelog
===================================================================
--- trunk/packages/ecell/trunk/debian/changelog (rev 0)
+++ trunk/packages/ecell/trunk/debian/changelog 2008-03-13 10:50:10 UTC (rev 1574)
@@ -0,0 +1,7 @@
+ecell (3.1.100-1) unstable; urgency=low
+
+ * Initial Release (Closes: #241195).
+ Requires /usr/bin/python to symlink to python2.2
+
+ -- Steffen Moeller <moeller at pzr.uni-rostock.de> Wed, 10 Mar 2004 22:08:00 +0100
+
Added: trunk/packages/ecell/trunk/debian/compat
===================================================================
--- trunk/packages/ecell/trunk/debian/compat (rev 0)
+++ trunk/packages/ecell/trunk/debian/compat 2008-03-13 10:50:10 UTC (rev 1574)
@@ -0,0 +1 @@
+4
Added: trunk/packages/ecell/trunk/debian/control
===================================================================
--- trunk/packages/ecell/trunk/debian/control (rev 0)
+++ trunk/packages/ecell/trunk/debian/control 2008-03-13 10:50:10 UTC (rev 1574)
@@ -0,0 +1,36 @@
+Source: ecell
+Section: science
+Priority: optional
+Maintainer: Steffen Moeller <moeller at pzr.uni-rostock.de>
+Build-Depends: debhelper (>= 4.0.0), python2.2-numeric, python2.2-xmlbase, python2.2-dev, python2.2-gtk2, python2.2-glade2, g++ (>= 3.3), libgsl0-dev, libboost-python-dev, automake1.8, autoconf, libtool, python2.2-gnome2, expect, doxygen, graphviz, docbook-utils, gs, docbook-to-man
+Standards-Version: 3.6.0
+
+Package: ecell
+Architecture: any
+Depends: ${shlibs:Depends}, ${misc:Depends}, libgsl0, libgnome2-0, python2.2-numeric, python2.2-xmlbase, python2.2-glade2
+Description: Concept and environment for constructing virtual cells on computers
+ The E-Cell Project is an international research project aiming at
+ developing necessary theoretical supports, technologies and software
+ platforms to allow precise whole cell simulation.
+ .
+ The E-Cell System is an object-oriented software suite for modeling,
+ simulation, and analysis of large scale complex systems such as
+ biological cells, architected by Kouichi Takahashi and written by
+ a team of developers.
+ .
+ The core part of the system, E-Cell
+ Simulation Environment version 3, allows many components driven by
+ multiple algorithms with different timescales to coexist.
+ .
+ E-Cell System consists of the following three major parts:
+ * E-Cell Simulation Environment (or E-Cell SE)
+ * E-Cell Modeling Environment (or E-Cell ME)
+ * E-Cell Analysis Toolkit
+ .
+ This package contains all these parts, only the documentation is distributed separately.
+Recommends: ecell-doc
+
+Package: ecell-doc
+Architecture: all
+Description: Documentation for ECell
+ HTML docs as provided by the source package of E-Cell.
Added: trunk/packages/ecell/trunk/debian/copyright
===================================================================
--- trunk/packages/ecell/trunk/debian/copyright (rev 0)
+++ trunk/packages/ecell/trunk/debian/copyright 2008-03-13 10:50:10 UTC (rev 1574)
@@ -0,0 +1,10 @@
+This package was debianized by Steffen Moeller <moeller at unknown> on
+Wed, 10 Mar 2004 22:08:00 +0100.
+
+It was downloaded from <fill in ftp site>
+
+Upstream Author(s): <put author(s) name and email here>
+
+Copyright:
+
+<Must follow here>
Added: trunk/packages/ecell/trunk/debian/ecell-doc.dirs
===================================================================
--- trunk/packages/ecell/trunk/debian/ecell-doc.dirs (rev 0)
+++ trunk/packages/ecell/trunk/debian/ecell-doc.dirs 2008-03-13 10:50:10 UTC (rev 1574)
@@ -0,0 +1 @@
+/usr/share/doc/ecell
Added: trunk/packages/ecell/trunk/debian/ecell-doc.doc-base
===================================================================
--- trunk/packages/ecell/trunk/debian/ecell-doc.doc-base (rev 0)
+++ trunk/packages/ecell/trunk/debian/ecell-doc.doc-base 2008-03-13 10:50:10 UTC (rev 1574)
@@ -0,0 +1,35 @@
+Document: refman
+Title: E-cell reference Manual
+Author: E-cell developers
+Abstract: Detailed description of the E-Cell API
+Section: science
+
+Format: pdf
+Files: ecell-doc/usr/share/doc/ecell/refman/refman.pdf
+
+Format: HTML
+Index: /usr/share/doc/ecell/refman/html/index.html
+Files: /usr/share/doc/ecell/refman/html/*.html
+
+Format: latex
+Files: /usr/share/doc/ecell/refman/latex/*.latex
+
+Document: user-manual
+Title: E-cell user manual
+Author: E-cell developers
+Abstract: Guide to the E-cell system
+Section: science
+
+Format: debiandoc-sgml
+Files: /usr/share/doc/ecell/user-manual/*.xml
+
+Format: postscript
+Files: /usr/share/doc/ecell/users-manual/ecell3-users-manual.ps
+
+Format: pdf
+Files: /usr/share/doc/ecell/users-manual/ecell3-users-manual.pdf
+
+Format: html
+Index: ecell-doc/usr/share/doc/ecell/users-manual/ecell3-users-manual/index.html
+Files: ecell-doc/usr/share/doc/ecell/users-manual/ecell3-users-manual/*.html
+
Added: trunk/packages/ecell/trunk/debian/ecell.dirs
===================================================================
--- trunk/packages/ecell/trunk/debian/ecell.dirs (rev 0)
+++ trunk/packages/ecell/trunk/debian/ecell.dirs 2008-03-13 10:50:10 UTC (rev 1574)
@@ -0,0 +1 @@
+/usr
Added: trunk/packages/ecell/trunk/debian/ecell.docs
===================================================================
--- trunk/packages/ecell/trunk/debian/ecell.docs (rev 0)
+++ trunk/packages/ecell/trunk/debian/ecell.docs 2008-03-13 10:50:10 UTC (rev 1574)
@@ -0,0 +1,2 @@
+NEWS
+README
Added: trunk/packages/ecell/trunk/debian/manpages
===================================================================
--- trunk/packages/ecell/trunk/debian/manpages (rev 0)
+++ trunk/packages/ecell/trunk/debian/manpages 2008-03-13 10:50:10 UTC (rev 1574)
@@ -0,0 +1 @@
+ecell.1
Added: trunk/packages/ecell/trunk/debian/rules
===================================================================
--- trunk/packages/ecell/trunk/debian/rules (rev 0)
+++ trunk/packages/ecell/trunk/debian/rules 2008-03-13 10:50:10 UTC (rev 1574)
@@ -0,0 +1,150 @@
+#!/usr/bin/make -f
+# -*- makefile -*-
+# Sample debian/rules that uses debhelper.
+# GNU copyright 1997 to 1999 by Joey Hess.
+#
+# Modified to make a template file for a multi-binary package with separated
+# build-arch and build-indep targets by Bill Allombert 2001
+
+# Uncomment this to turn on verbose mode.
+#export DH_VERBOSE=1
+
+# This has to be exported to make some magic below work.
+export DH_OPTIONS
+
+# 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 ?= $(shell dpkg-architecture -qDEB_BUILD_GNU_TYPE)
+
+
+CFLAGS = -Wall -g
+
+ifneq (,$(findstring noopt,$(DEB_BUILD_OPTIONS)))
+ CFLAGS += -O0
+else
+ CFLAGS += -O2
+endif
+ifeq (,$(findstring nostrip,$(DEB_BUILD_OPTIONS)))
+ INSTALL_PROGRAM += -s
+endif
+
+configure: configure.in
+ dh_testdir
+ ./autogen.sh --enable-static=no --host=$(DEB_HOST_GNU_TYPE) --build=$(DEB_BUILD_GNU_TYPE) --prefix=/usr --mandir=\$${prefix}/share/man --infodir=\$${prefix}/share/info
+
+config.status: configure
+ dh_testdir
+ # Add here commands to configure the package.
+ CFLAGS="$(CFLAGS)" ./configure --enable-static=no --host=$(DEB_HOST_GNU_TYPE) --build=$(DEB_BUILD_GNU_TYPE) --prefix=/usr --mandir=\$${prefix}/share/man --infodir=\$${prefix}/share/info
+ #CFLAGS="$(CFLAGS)" ./configure --disable-gtk --host=$(DEB_HOST_GNU_TYPE) --build=$(DEB_BUILD_GNU_TYPE) --prefix=/usr --mandir=\$${prefix}/share/man --infodir=\$${prefix}/share/info
+
+
+#Architecture
+build: ecell.1 build-arch build-indep
+
+build-arch: build-arch-stamp
+build-arch-stamp: config.status
+
+ # Add here commands to compile the arch part of the package.
+ $(MAKE)
+ touch build-arch-stamp
+
+build-indep: build-indep-stamp
+build-indep-stamp: config.status
+
+ # Add here commands to compile the indep part of the package.
+ $(MAKE) doc
+ touch build-indep-stamp
+
+clean:
+ dh_testdir
+ dh_testroot
+ rm -f build-arch-stamp build-indep-stamp #CONFIGURE-STAMP#
+
+ # Add here commands to clean up after the build process.
+ -$(MAKE) clean
+ -$(MAKE) -C doc clean
+ifneq "$(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
+ dh_clean ecell.1 install-sh mkinstalldirs missing py-compile ecell/libecs/libecs.so doc/users-manual/ecell3-users-manual.pdf doc/users-manual/ecell3-users-manual.pdf doc/refman/refman.pdf
+
+ecell.1: ecell.sgml
+ docbook-to-man $< > $@
+ -mkdir -p $(CURDIR)/debian/ecell/usr/share/man/man1
+ for i in dmcompile ecell3-em2eml ecell3-python ecell3-session-manager gecell3-session dmgen ecell3-eml2em ecell3-sbml2eml eri2eml rd2dm ecell3-dmc ecell3-model-editor ecell3-session gecell toollauncher; do (cd $(CURDIR)/debian/ecell/usr/share/man/man1 && ln -sf ecell.1 $$i.1); done
+
+
+install: install-indep install-arch
+install-indep:
+ dh_testdir
+ dh_testroot
+ dh_clean -k -i
+ dh_installdirs -i
+
+ # Add here commands to install the indep part of the package into
+ # debian/<package>-doc.
+ #INSTALLDOC#
+ mkdir -p $(CURDIR)/debian/ecell-doc/usr/share/doc/ecell-3.1.100
+ $(MAKE) prefix=$(CURDIR)/debian/ecell-doc/usr doc-install
+ mv $(CURDIR)/debian/ecell-doc/usr/share/doc/ecell-3.1.100 $(CURDIR)/debian/ecell-doc/usr/share/doc/ecell
+
+ dh_install -i
+
+install-arch:
+ dh_testdir
+ dh_testroot
+ dh_clean -k -s
+ dh_installdirs -s
+
+ # Add here commands to install the arch part of the package into
+ # debian/tmp.
+ $(MAKE) prefix=$(CURDIR)/debian/ecell/usr install
+
+ dh_install -s
+
+# Must not depend on anything. This is to be called by
+# binary-arch/binary-indep
+# in another 'make' thread.
+binary-common:
+ dh_testdir
+ dh_testroot
+ dh_installchangelogs ChangeLog
+ dh_installdocs
+ dh_installexamples
+# dh_installmenu
+# dh_installdebconf
+# dh_installlogrotate
+# dh_installemacsen
+# dh_installpam
+# dh_installmime
+# dh_installinit
+# dh_installcron
+# dh_installinfo
+ dh_installman
+ dh_link
+ dh_strip
+ dh_compress
+ dh_fixperms
+# dh_perl
+ dh_python -V 2.2
+ dh_makeshlibs
+ dh_installdeb
+ dh_shlibdeps
+ dh_gencontrol
+ dh_md5sums
+ dh_builddeb
+# Build architecture independant packages using the common target.
+binary-indep: build-indep install-indep
+ $(MAKE) -f debian/rules DH_OPTIONS=-i binary-common
+
+# Build architecture dependant packages using the common target.
+binary-arch: build-arch install-arch
+ $(MAKE) -f debian/rules DH_OPTIONS=-a binary-common
+
+binary: binary-arch binary-indep
+.PHONY: build clean binary-indep binary-arch binary install install-indep install-arch
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