[med-svn] r2073 - in trunk/packages/velvet/trunk: . debian debian/patches
plessy at alioth.debian.org
plessy at alioth.debian.org
Fri Jun 20 02:19:31 UTC 2008
Author: plessy
Date: 2008-06-20 02:19:30 +0000 (Fri, 20 Jun 2008)
New Revision: 2073
Added:
trunk/packages/velvet/trunk/debian/
trunk/packages/velvet/trunk/debian/README.Debian
trunk/packages/velvet/trunk/debian/changelog
trunk/packages/velvet/trunk/debian/compat
trunk/packages/velvet/trunk/debian/control
trunk/packages/velvet/trunk/debian/copyright
trunk/packages/velvet/trunk/debian/docs
trunk/packages/velvet/trunk/debian/install
trunk/packages/velvet/trunk/debian/patches/
trunk/packages/velvet/trunk/debian/patches/build-on-debians-zlib
trunk/packages/velvet/trunk/debian/patches/series
trunk/packages/velvet/trunk/debian/rules
trunk/packages/velvet/trunk/debian/velvet.doc-base
trunk/packages/velvet/trunk/debian/watch
Log:
[svn-inject] Applying Debian modifications to trunk
Property changes on: trunk/packages/velvet/trunk/debian
___________________________________________________________________
Name: mergeWithUpstream
+ 1
Added: trunk/packages/velvet/trunk/debian/README.Debian
===================================================================
--- trunk/packages/velvet/trunk/debian/README.Debian (rev 0)
+++ trunk/packages/velvet/trunk/debian/README.Debian 2008-06-20 02:19:30 UTC (rev 2073)
@@ -0,0 +1,8 @@
+velvet for Debian
+-----------------
+
+This is just a draft. In particular, I cut-pasted some compilation options from
+the web until the building worked, and I do not know that I am doing. Use it at
+your own risk !
+
+ -- Charles Plessy <plessy at debian.org> Thu, 19 Jun 2008 11:57:43 +0900
Added: trunk/packages/velvet/trunk/debian/changelog
===================================================================
--- trunk/packages/velvet/trunk/debian/changelog (rev 0)
+++ trunk/packages/velvet/trunk/debian/changelog 2008-06-20 02:19:30 UTC (rev 2073)
@@ -0,0 +1,6 @@
+velvet (0.6.03-1) UNRELEASED; urgency=low
+
+ * Initial release (Closes: #nnnn) <nnnn is the bug number of your ITP>
+
+ -- Charles Plessy <plessy at debian.org> Thu, 19 Jun 2008 11:57:43 +0900
+
Added: trunk/packages/velvet/trunk/debian/compat
===================================================================
--- trunk/packages/velvet/trunk/debian/compat (rev 0)
+++ trunk/packages/velvet/trunk/debian/compat 2008-06-20 02:19:30 UTC (rev 2073)
@@ -0,0 +1 @@
+7
Added: trunk/packages/velvet/trunk/debian/control
===================================================================
--- trunk/packages/velvet/trunk/debian/control (rev 0)
+++ trunk/packages/velvet/trunk/debian/control 2008-06-20 02:19:30 UTC (rev 2073)
@@ -0,0 +1,24 @@
+Source: velvet
+Section: science
+Priority: optional
+Maintainer: Charles Plessy <plessy at debian.org>
+Build-Depends: cdbs, debhelper (>= 7), quilt
+Standards-Version: 3.7.3
+Homepage: http://www.ebi.ac.uk/~zerbino/velvet/
+
+Package: velvet
+Architecture: any
+Depends: ${shlibs:Depends}, ${misc:Depends}
+Description: Sequence assembler for very short reads
+ Velvet is a de novo genomic assembler specially designed for short read
+ sequencing technologies, such as Solexa or 454, developed by Daniel Zerbino and
+ Ewan Birney at the European Bioinformatics Institute (EMBL-EBI), near
+ Cambridge, in the United Kingdom.
+ .
+ Velvet currently takes in short read sequences, removes errors then produces
+ high quality unique contigs. It then uses paired read information, if
+ available, to retrieve the repeated areas between contigs.
+ .
+ Velvet was published in: `Velvet: algorithms for de novo short read assembly
+ using de Bruijn graphs. D.R. Zerbino and E. Birney. Genome Research
+ 18:821-829.'
Added: trunk/packages/velvet/trunk/debian/copyright
===================================================================
--- trunk/packages/velvet/trunk/debian/copyright (rev 0)
+++ trunk/packages/velvet/trunk/debian/copyright 2008-06-20 02:19:30 UTC (rev 2073)
@@ -0,0 +1,24 @@
+This package was debianized by Charles Plessy <plessy at debian.org> on
+Thu, 19 Jun 2008 11:57:43 +0900.
+
+It was downloaded from <url://example.com>
+
+Upstream Author(s):
+
+ <put author's name and email here>
+ <likewise for another author>
+
+Copyright:
+
+ <Copyright (C) YYYY Name OfAuthor>
+ <likewise for another author>
+
+License:
+
+ <Put the license of the package here indented by 4 spaces>
+
+The Debian packaging is (C) 2008, Charles Plessy <plessy at debian.org> and
+is licensed under the GPL, see `/usr/share/common-licenses/GPL'.
+
+# Please also look if there are files or directories which have a
+# different copyright/license attached and list them here.
Added: trunk/packages/velvet/trunk/debian/docs
===================================================================
--- trunk/packages/velvet/trunk/debian/docs (rev 0)
+++ trunk/packages/velvet/trunk/debian/docs 2008-06-20 02:19:30 UTC (rev 2073)
@@ -0,0 +1,3 @@
+CREDITS.txt
+README.txt
+Manual.pdf
Added: trunk/packages/velvet/trunk/debian/install
===================================================================
--- trunk/packages/velvet/trunk/debian/install (rev 0)
+++ trunk/packages/velvet/trunk/debian/install 2008-06-20 02:19:30 UTC (rev 2073)
@@ -0,0 +1,2 @@
+velvetg usr/bin
+velveth usr/bin
Added: trunk/packages/velvet/trunk/debian/patches/build-on-debians-zlib
===================================================================
--- trunk/packages/velvet/trunk/debian/patches/build-on-debians-zlib (rev 0)
+++ trunk/packages/velvet/trunk/debian/patches/build-on-debians-zlib 2008-06-20 02:19:30 UTC (rev 2073)
@@ -0,0 +1,11 @@
+--- velvet.orig/src/readSet.c
++++ velvet/src/readSet.c
+@@ -27,7 +27,7 @@
+ #include "globals.h"
+ #include "tightString.h"
+ #include "readSet.h"
+-#include "../third-party/zlib-1.2.3/zlib.h"
++#include <zlib.h>
+
+ ReadSet *newReadSet()
+ {
Added: trunk/packages/velvet/trunk/debian/patches/series
===================================================================
--- trunk/packages/velvet/trunk/debian/patches/series (rev 0)
+++ trunk/packages/velvet/trunk/debian/patches/series 2008-06-20 02:19:30 UTC (rev 2073)
@@ -0,0 +1 @@
+build-on-debians-zlib
Added: trunk/packages/velvet/trunk/debian/rules
===================================================================
--- trunk/packages/velvet/trunk/debian/rules (rev 0)
+++ trunk/packages/velvet/trunk/debian/rules 2008-06-20 02:19:30 UTC (rev 2073)
@@ -0,0 +1,10 @@
+#!/usr/bin/make -f
+
+DEB_COMPRESS_EXCLUDE := .pdf # The PDF doc will not be compressed
+
+include /usr/share/cdbs/1/rules/patchsys-quilt.mk
+include /usr/share/cdbs/1/rules/debhelper.mk
+include /usr/share/cdbs/1/class/makefile.mk
+
+CFLAGS += -lm -lz
+DEB_MAKE_BUILD_TARGET = velveth velvetg Z_LIB_FILES=''
Property changes on: trunk/packages/velvet/trunk/debian/rules
___________________________________________________________________
Name: svn:executable
+ *
Added: trunk/packages/velvet/trunk/debian/velvet.doc-base
===================================================================
--- trunk/packages/velvet/trunk/debian/velvet.doc-base (rev 0)
+++ trunk/packages/velvet/trunk/debian/velvet.doc-base 2008-06-20 02:19:30 UTC (rev 2073)
@@ -0,0 +1,9 @@
+Document: velvet
+Title: Velvet Manual
+Author: Daniel Zerbino
+Abstract: This manual describes how to install,
+ use and tweak Velvet, a short sequence read assembler.
+Section: Science/Biology
+
+Format: PDF
+Files: /usr/share/doc/velvet/Manual.pdf
Added: trunk/packages/velvet/trunk/debian/watch
===================================================================
--- trunk/packages/velvet/trunk/debian/watch (rev 0)
+++ trunk/packages/velvet/trunk/debian/watch 2008-06-20 02:19:30 UTC (rev 2073)
@@ -0,0 +1,22 @@
+# Example watch control file for uscan
+# Rename this file to "watch" and then you can run the "uscan" command
+# to check for upstream updates and more.
+# See uscan(1) for format
+
+# Compulsory line, this is a version 3 file
+version=3
+
+# Uncomment to examine a Webpage
+# <Webpage URL> <string match>
+#http://www.example.com/downloads.php velvet-(.*)\.tar\.gz
+
+# Uncomment to examine a Webserver directory
+#http://www.example.com/pub/velvet-(.*)\.tar\.gz
+
+# Uncommment to examine a FTP server
+#ftp://ftp.example.com/pub/velvet-(.*)\.tar\.gz debian uupdate
+
+# Uncomment to find new files on sourceforge, for devscripts >= 2.9
+# http://sf.net/velvet/velvet-(.*)\.tar\.gz
+
+
More information about the debian-med-commit
mailing list