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 <[EMAIL PROTECTED]>, -for the Debian project (but may be used by others). +This manual page was written by G\[:u]rkan Seng\[:u]n +<[EMAIL PROTECTED]>, for the Debian project (but may be used by +others). Updated by Scott Christley <[EMAIL PROTECTED]> 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 <[EMAIL PROTECTED]> 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 <[EMAIL PROTECTED]> DM-Upload-Allowed: yes Uploaders: Andreas Tille <[EMAIL PROTECTED]>, Charles Plessy <[EMAIL PROTECTED]> -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 _______________________________________________ debian-med-commit mailing list [email protected] http://lists.alioth.debian.org/mailman/listinfo/debian-med-commit
