[med-svn] r19361 - in trunk/packages/sickle/trunk/debian: . patches

[Andreas Tille]

Author: tille
Date: 2015-06-23 17:01:06 +0000 (Tue, 23 Jun 2015)
New Revision: 19361

Added:
   trunk/packages/sickle/trunk/debian/watch
Modified:
   trunk/packages/sickle/trunk/debian/changelog
   trunk/packages/sickle/trunk/debian/control
   trunk/packages/sickle/trunk/debian/copyright
   trunk/packages/sickle/trunk/debian/patches/makefile_ldflags
Log:
Take over to Debian Med team maintenance; adapted to new upstream version


Modified: trunk/packages/sickle/trunk/debian/changelog
===================================================================
--- trunk/packages/sickle/trunk/debian/changelog	2015-06-23 16:51:25 UTC (rev 19360)
+++ trunk/packages/sickle/trunk/debian/changelog	2015-06-23 17:01:06 UTC (rev 19361)
@@ -1,3 +1,9 @@
+sickle (1.33-1) UNRELEASED; urgency=medium
+
+  * Initial upload to Debian (Closes: #???)
+
+ -- Andreas Tille <tille at debian.org>  Tue, 23 Jun 2015 18:53:25 +0200
+
 sickle (0.94-1biolinux1.1) trusty; urgency=low
 
   * Rebuild for Trusty

Modified: trunk/packages/sickle/trunk/debian/control
===================================================================
--- trunk/packages/sickle/trunk/debian/control	2015-06-23 16:51:25 UTC (rev 19360)
+++ trunk/packages/sickle/trunk/debian/control	2015-06-23 17:01:06 UTC (rev 19361)
@@ -1,14 +1,21 @@
 Source: sickle
+Maintainer: Debian Med Packaging Team <debian-med-packaging at lists.alioth.debian.org>
+Uploaders: Andreas Tille <tille at debian.org>,
+           Tim Booth <tbooth at ceh.ac.uk>
 Section: science
 Priority: optional
-Maintainer: Tim Booth <tbooth at ceh.ac.uk>
-Build-Depends: zlib1g-dev, help2man (>= 1.40.4), debhelper (>= 9)
-Standards-Version: 3.9.3
+Build-Depends: zlib1g-dev,
+               help2man (>= 1.40.4),
+               debhelper (>= 9)
+Standards-Version: 3.9.6
+Vcs-Browser: http://anonscm.debian.org/viewvc/debian-med/trunk/packages/sickle/trunk/
+Vcs-Svn: svn://anonscm.debian.org/debian-med/trunk/packages/sickle/trunk/
 Homepage: https://github.com/vsbuffalo/sickle
 
 Package: sickle
 Architecture: any
-Depends: ${shlibs:Depends}, ${misc:Depends}
+Depends: ${shlibs:Depends},
+         ${misc:Depends}
 Description: windowed adaptive trimming tool for FASTQ files using quality
  Most modern sequencing technologies produce reads that have deteriorating
  quality towards the 3'-end. Incorrectly called bases here negatively impact

Modified: trunk/packages/sickle/trunk/debian/copyright
===================================================================
--- trunk/packages/sickle/trunk/debian/copyright	2015-06-23 16:51:25 UTC (rev 19360)
+++ trunk/packages/sickle/trunk/debian/copyright	2015-06-23 17:01:06 UTC (rev 19361)
@@ -1,11 +1,17 @@
 Format: http://www.debian.org/doc/packaging-manuals/copyright-format/1.0/
 Source: https://github.com/vsbuffalo/sickle/archive/master.zip
-License: MIT
 
 Files: *
-Copyright: © 2008 Genome Research Ltd (GRL).,
+Copyright: 2008 Genome Research Ltd (GRL).,
  © 2012 - Vince Buffalo
 License: MIT
+
+Files: debian/*
+Copyright: 2013-2014 Tim Booth <tbooth at ceh.ac.uk>
+           2015 Andreas Tille <tille at debian.org>
+License: MIT
+
+License: MIT
  Permission is hereby granted, free of charge, to any person
  obtaining a copy of this software and associated documentation
  files (the "Software"), to deal in the Software without
@@ -25,3 +31,4 @@
  ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, OUT OF OR IN
  CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN THE
  SOFTWARE.
+

Modified: trunk/packages/sickle/trunk/debian/patches/makefile_ldflags
===================================================================
--- trunk/packages/sickle/trunk/debian/patches/makefile_ldflags	2015-06-23 16:51:25 UTC (rev 19360)
+++ trunk/packages/sickle/trunk/debian/patches/makefile_ldflags	2015-06-23 17:01:06 UTC (rev 19361)
@@ -1,20 +1,19 @@
+Author: Tim Booth <tbooth at ceh.ac.uk>
+Last-Update: Tue, 23 Jun 2015 18:53:25 +0200
+Description: Propagate build flags
+
 --- a/Makefile
 +++ b/Makefile
-@@ -1,7 +1,7 @@
+@@ -1,11 +1,10 @@
  PROGRAM_NAME = sickle
- VERSION = 0.94
+ VERSION = 1.33
  CC = gcc
 -CFLAGS = -Wall -pedantic -DVERSION=$(VERSION)
 +CFLAGS += -Wall -pedantic -DVERSION=$(VERSION)
  DEBUG = -g
  OPT = -O3
  ARCHIVE = $(PROGRAM_NAME)_$(VERSION)
-@@ -34,7 +34,7 @@
- 	tar -zcf $(ARCHIVE).tar.gz src Makefile
+-LDFLAGS=
+ LIBS = -lz
+ SDIR = src
  
- build: sliding.o trim_single.o trim_paired.o sickle.o
--	$(CC) $(CFLAGS) $(LDFLAGS) $(OPT) $? -o sickle
-+	$(CC) $(CFLAGS) $(OPT) $? -o sickle $(LDFLAGS)
- 
- debug:
- 	$(MAKE) build "CFLAGS=-Wall -pedantic -g -DDEBUG"

Added: trunk/packages/sickle/trunk/debian/watch
===================================================================
--- trunk/packages/sickle/trunk/debian/watch	                        (rev 0)
+++ trunk/packages/sickle/trunk/debian/watch	2015-06-23 17:01:06 UTC (rev 19361)
@@ -0,0 +1,3 @@
+version=3
+
+https://github.com/najoshi/sickle/releases .*/archive/v(\d[\d.-]+)\.(?:tar(?:\.gz|\.bz2)?|tgz)