[med-svn] r2574 - trunk/packages/biococoa/trunk/debian
schristley-guest at alioth.debian.org
schristley-guest at alioth.debian.org
Wed Oct 15 20:10:08 UTC 2008
Author: schristley-guest
Date: 2008-10-15 20:10:08 +0000 (Wed, 15 Oct 2008)
New Revision: 2574
Added:
trunk/packages/biococoa/trunk/debian/watch
Removed:
trunk/packages/biococoa/trunk/debian/BioCocoa.desktop
trunk/packages/biococoa/trunk/debian/dirs
trunk/packages/biococoa/trunk/debian/lintian-override
trunk/packages/biococoa/trunk/debian/menu
trunk/packages/biococoa/trunk/debian/patches/
Modified:
trunk/packages/biococoa/trunk/debian/BioCocoa.1
trunk/packages/biococoa/trunk/debian/changelog
trunk/packages/biococoa/trunk/debian/control
trunk/packages/biococoa/trunk/debian/rules
Log:
update biococoa package to contain the biococoa libraries instead of the demo application
Modified: trunk/packages/biococoa/trunk/debian/BioCocoa.1
===================================================================
--- trunk/packages/biococoa/trunk/debian/BioCocoa.1 2008-10-15 12:02:51 UTC (rev 2573)
+++ trunk/packages/biococoa/trunk/debian/BioCocoa.1 2008-10-15 20:10:08 UTC (rev 2574)
@@ -1,27 +1,33 @@
-.TH BIOCOCOA 1 "December 21, 2004"
+.TH BIOCOCOA 3 "October 15, 2008"
.SH NAME
-BioCocoa \- Sequence file format conversion
+BioCocoa \- Bioinformatics framework for GNUstep and Cocoa
.SH SYNOPSIS
-.B BioCocoa
+.B #include <BioCocoa/BCFoundation.h>
.SH DESCRIPTION
This manual page documents briefly the
.B BioCocoa
-command.
+framework.
This manual page was written for the Debian distribution
because the original program does not have a manual page.
.PP
-\fBBioCocoa\fP provides developers with the opportunity to add
-support for reading and writing BEAST, Clustal, EMBL, Fasta, GCG-MSF, GDE,
-Hennig86, NCBI, NEXUS, NONA, PDB, Phylip, PIR, Plain/Raw, Swiss-Prot and
-TNT files by writing only three lines of code. The framework is written in
-Cocoa (Objective-C).
-.SH OPTIONS
-These programs follow the usual GNU command line syntax, with long
-options starting with two dashes (`-').
-A summary of options is included below.
+\fBBioCocoa\fP is an open source framework for bioinformatics written
+in Objective-C. It provides Cocoa and GNUstep programmers with a full
+suite of APIs for handling and manipulating biological sequences.
.SH SEE ALSO
-.BR GNUstep (7).
+GNUstep(7), SequenceConverter.app(1)
+.PP
+.B Websites:
+.TP
+http://www.bioinformatics.org/biococoa
+Official BioCocoa website
+.P
+.B Mailing lists:
+.TP
+http://bioinformatics.org/mailman/listinfo/biococoa-dev
+BioCocoa Developers mailing list and archives.
.br
.SH AUTHOR
-This manual page was written by G\[:u]rkan Seng\[:u]n <gurkan at linuks.mine.nu>,
-for the Debian project (but may be used by others).
+This manual page was written by G\[:u]rkan Seng\[:u]n
+<gurkan at linuks.mine.nu>, for the Debian project (but may be used by
+others). Updated by Scott Christley <schristley at mac.com> for BioCocoa
+version 2.
Deleted: trunk/packages/biococoa/trunk/debian/BioCocoa.desktop
===================================================================
--- trunk/packages/biococoa/trunk/debian/BioCocoa.desktop 2008-10-15 12:02:51 UTC (rev 2573)
+++ trunk/packages/biococoa/trunk/debian/BioCocoa.desktop 2008-10-15 20:10:08 UTC (rev 2574)
@@ -1,8 +0,0 @@
-[Desktop Entry]
-Type=Application
-Version=0.94
-Categories=Education;Science;Biology;
-Name=BioCocoa
-Comment=GNUstep BioCocoa
-Icon=/usr/lib/GNUstep/Applications/BioCocoa.app/Resources/biococoa.tiff
-Exec=BioCocoa
Modified: trunk/packages/biococoa/trunk/debian/changelog
===================================================================
--- trunk/packages/biococoa/trunk/debian/changelog 2008-10-15 12:02:51 UTC (rev 2573)
+++ trunk/packages/biococoa/trunk/debian/changelog 2008-10-15 20:10:08 UTC (rev 2574)
@@ -1,3 +1,11 @@
+biococoa (2.1.0-1) unstable; urgency=low
+
+ * Change package to contain the biococoa libraries instead of
+ the demo application. SequenceConverter demo application
+ moved to its own package.
+
+ -- Scott Christley <schristley at mac.com> Sun, 05 Oct 2008 13:44:56 -0700
+
biococoa.app (1.6.0-8) unstable; urgency=low
* Changed the description of the binary package `biococoa.app' to reflect
Modified: trunk/packages/biococoa/trunk/debian/control
===================================================================
--- trunk/packages/biococoa/trunk/debian/control 2008-10-15 12:02:51 UTC (rev 2573)
+++ trunk/packages/biococoa/trunk/debian/control 2008-10-15 20:10:08 UTC (rev 2574)
@@ -1,28 +1,21 @@
-Source: biococoa.app
+Source: biococoa
Section: science
Priority: optional
Maintainer: Debian-Med Packaging Team <debian-med-packaging at lists.alioth.debian.org>
DM-Upload-Allowed: yes
Uploaders: Andreas Tille <tille at debian.org>, Charles Plessy <plessy at debian.org>
-Build-Depends: debhelper (>= 5), gnustep-make, libgnustep-gui-dev (>= 0.12.0), quilt
+Build-Depends: debhelper (>= 5), gnustep-make, libgnustep-base-dev (>= 1.16.1), libgnustep-gui-dev (>= 0.12.0)
Standards-Version: 3.7.3
Homepage: http://bioinformatics.org/biococoa/
Vcs-Browser: http://svn.debian.org/wsvn/debian-med/trunk/packages/biococoa/trunk/?rev=0&sc=0
Vcs-Svn: svn://svn.debian.org/svn/debian-med/trunk/packages/biococoa/trunk/
-Package: biococoa.app
+Package: biococoa
Architecture: any
Depends: ${shlibs:Depends}
-Description: biological sequence file format conversion applet for GNUstep
- Demo application to demonstrate the possibilities of the BioCocoa framework.
+Description: Bioinformatics framework for GNUstep and Cocoa
.
- This package contains a GNUstep applet to convert between sequence file
- formats. The BioCocoa framework provides developers with the opportunity to
- add support for reading and writing BEAST, Clustal, EMBL, Fasta, GCG-MSF, GDE,
- Hennig86, NCBI, NEXUS, NONA, PDB, Phylip, PIR, Plain/Raw, Swiss-Prot and TNT
- files by writing only three lines of code. The framework is written in Cocoa
- (Objective-C).
- .
- Version 1.6 is the last upstream version that works with GNUstep. If
- newer versions are needed to work under Linux try to convince upstream to
- support GNUstep.
+ BioCocoa is an open source framework for bioinformatics
+ written in Objective-C. It provides Cocoa and GNUstep programmers with
+ a full suite of APIs for handling and manipulating biological
+ sequences.
Deleted: trunk/packages/biococoa/trunk/debian/dirs
===================================================================
--- trunk/packages/biococoa/trunk/debian/dirs 2008-10-15 12:02:51 UTC (rev 2573)
+++ trunk/packages/biococoa/trunk/debian/dirs 2008-10-15 20:10:08 UTC (rev 2574)
@@ -1,2 +0,0 @@
-usr/bin
-usr/share/lintian/overrides
Deleted: trunk/packages/biococoa/trunk/debian/lintian-override
===================================================================
--- trunk/packages/biococoa/trunk/debian/lintian-override 2008-10-15 12:02:51 UTC (rev 2573)
+++ trunk/packages/biococoa/trunk/debian/lintian-override 2008-10-15 20:10:08 UTC (rev 2574)
@@ -1 +0,0 @@
-biococoa.app: image-file-in-usr-lib
Deleted: trunk/packages/biococoa/trunk/debian/menu
===================================================================
--- trunk/packages/biococoa/trunk/debian/menu 2008-10-15 12:02:51 UTC (rev 2573)
+++ trunk/packages/biococoa/trunk/debian/menu 2008-10-15 20:10:08 UTC (rev 2574)
@@ -1,2 +0,0 @@
-?package(biococoa.app):needs="X11" section="Applications/Science/Biology"\
- title="BioCocoa" command="/usr/bin/BioCocoa"
Modified: trunk/packages/biococoa/trunk/debian/rules
===================================================================
--- trunk/packages/biococoa/trunk/debian/rules 2008-10-15 12:02:51 UTC (rev 2573)
+++ trunk/packages/biococoa/trunk/debian/rules 2008-10-15 20:10:08 UTC (rev 2574)
@@ -2,19 +2,19 @@
# Uncomment this to turn on verbose mode.
#export DH_VERBOSE=1
-include /usr/share/quilt/quilt.make
+#include /usr/share/quilt/quilt.make
include /usr/share/GNUstep/debian/config.mk
GNUSTEP_MAKEFILES=$(GS_MAKE_DIR)
-build: patch build-stamp
+build: build-stamp
build-stamp:
dh_testdir
gs_make
touch build-stamp
-clean: unpatch
+clean:
dh_testdir
dh_testroot
rm -f build-stamp
@@ -26,10 +26,7 @@
dh_testroot
dh_clean -k
dh_installdirs
- gs_make install DESTDIR=$(CURDIR)/debian/biococoa.app GNUSTEP_INSTALLATION_DOMAIN=SYSTEM
- find `pwd`/debian/biococoa.app -name "*.plist" -exec chmod -x {} \;
- dh_install debian/*.desktop usr/share/applications/
- rm $(CURDIR)/debian/*.app/usr/lib/GNUstep/Applications/*.app/Resources/*.desktop
+ gs_make install DESTDIR=$(CURDIR)/debian/biococoa GNUSTEP_INSTALLATION_DOMAIN=SYSTEM
# Build architecture-independent files here.
binary-indep: build install
@@ -40,10 +37,10 @@
dh_testdir
dh_testroot
dh_installchangelogs
- install -m 644 debian/lintian-override $(CURDIR)/debian/biococoa.app/usr/share/lintian/overrides/biococoa.app
dh_installdocs
dh_installmenu
dh_installman
+ dh_link
dh_strip
dh_compress
dh_fixperms
Added: trunk/packages/biococoa/trunk/debian/watch
===================================================================
--- trunk/packages/biococoa/trunk/debian/watch (rev 0)
+++ trunk/packages/biococoa/trunk/debian/watch 2008-10-15 20:10:08 UTC (rev 2574)
@@ -0,0 +1,2 @@
+version=2
+http://www.bioinformatics.org/biococoa/downloads/biococoa-(.+)-src\.tgz
More information about the debian-med-commit
mailing list