[med-svn] r12320 - in trunk/packages: . ltrsift ltrsift/trunk ltrsift/trunk/debian ltrsift/trunk/debian/source
Sascha Steinbiss
sascha-guest at alioth.debian.org
Sat Oct 6 21:20:57 UTC 2012
Author: sascha-guest
Date: 2012-10-06 21:20:57 +0000 (Sat, 06 Oct 2012)
New Revision: 12320
Added:
trunk/packages/ltrsift/
trunk/packages/ltrsift/trunk/
trunk/packages/ltrsift/trunk/debian/
trunk/packages/ltrsift/trunk/debian/changelog
trunk/packages/ltrsift/trunk/debian/compat
trunk/packages/ltrsift/trunk/debian/control
trunk/packages/ltrsift/trunk/debian/copyright
trunk/packages/ltrsift/trunk/debian/docs
trunk/packages/ltrsift/trunk/debian/ltrsift.docs
trunk/packages/ltrsift/trunk/debian/ltrsift.install
trunk/packages/ltrsift/trunk/debian/rules
trunk/packages/ltrsift/trunk/debian/source/
trunk/packages/ltrsift/trunk/debian/source/format
trunk/packages/ltrsift/trunk/debian/upstream
trunk/packages/ltrsift/trunk/debian/watch
Log:
add initial package for LTRsift
Property changes on: trunk/packages/ltrsift/trunk/debian
___________________________________________________________________
Added: mergeWithUpstream
+ 1
Added: trunk/packages/ltrsift/trunk/debian/changelog
===================================================================
--- trunk/packages/ltrsift/trunk/debian/changelog (rev 0)
+++ trunk/packages/ltrsift/trunk/debian/changelog 2012-10-06 21:20:57 UTC (rev 12320)
@@ -0,0 +1,5 @@
+ltrsift (1.0.1-1) UNRELEASED; urgency=low
+
+ * Initial release (Closes: #nnnn) <nnnn is the bug number of your ITP>
+
+ -- Sascha Steinbiss <steinbiss at zbh.uni-hamburg.de> Sun, 06 Oct 2012 15:08:11 +0200
Added: trunk/packages/ltrsift/trunk/debian/compat
===================================================================
--- trunk/packages/ltrsift/trunk/debian/compat (rev 0)
+++ trunk/packages/ltrsift/trunk/debian/compat 2012-10-06 21:20:57 UTC (rev 12320)
@@ -0,0 +1 @@
+9
Added: trunk/packages/ltrsift/trunk/debian/control
===================================================================
--- trunk/packages/ltrsift/trunk/debian/control (rev 0)
+++ trunk/packages/ltrsift/trunk/debian/control 2012-10-06 21:20:57 UTC (rev 12320)
@@ -0,0 +1,32 @@
+Source: ltrsift
+Section: science
+Priority: extra
+Maintainer: Sascha Steinbiss <steinbiss at zbh.uni-hamburg.de>
+Build-Depends: debhelper (>= 9), libgenometools0-dev (>= 1.4.2), libgtk2.0-dev,
+ libglib2.0-dev
+Standards-Version: 3.9.3
+Homepage: http://www.zbh.uni-hamburg.de/LTRsift
+Vcs-Browser: http://svn.debian.org/viewvc/debian-med/trunk/packages/ltrsift/trunk/
+Vcs-Svn: svn://svn.debian.org/debian-med/trunk/packages/ltrsift/trunk/
+
+Package: ltrsift
+Architecture: any
+Depends: ${shlibs:Depends}, ${misc:Depends}, libgenometools0 (>= 1.4.2), libgtk2.0-0,
+ libglib2.0-0, last-align, ncbi-blast+
+Description: semi-automatic postprocessing of de novo predicted LTR retrotransposon annotations
+ LTRsift is a graphical desktop tool for semi-automatic postprocessing of de
+ novo predicted LTR retrotransposon annotations, such as the ones generated by
+ LTRharvest and LTRdigest. Its user-friendly interface displays LTR
+ retrotransposon candidates, their putative families and their internal
+ structure in a hierarchical fashion, allowing the user to "sift" through the
+ sometimes large results of de novo prediction software. It also offers
+ customizable filtering and classification functionality.
+
+Package: ltrsift-dbg
+Architecture: any
+Depends: ${shlibs:Depends}, ${misc:Depends}, ltrsift (= ${binary:Version})
+Section: debug
+Description: semi-automatic postprocessing of de novo predicted LTR retrotransposon annotations, with debug symbols
+ This package contains debug information stripped from LTRsift.
+ You may decide to install it to help identifying issues, typically
+ to help communication with upstream developers.
Added: trunk/packages/ltrsift/trunk/debian/copyright
===================================================================
--- trunk/packages/ltrsift/trunk/debian/copyright (rev 0)
+++ trunk/packages/ltrsift/trunk/debian/copyright 2012-10-06 21:20:57 UTC (rev 12320)
@@ -0,0 +1,47 @@
+Format: http://dep.debian.net/deps/dep5
+Upstream-Name: ltrsift
+Source: http://www.zbh.uni-hamburg.de/LTRsift
+
+Files: *
+Copyright: 2012 Sascha Steinbiss <steinbiss at zbh.uni-hamburg.de>
+ 2012 Sascha Kastens <mail at skastens.de>
+License: GPL-2+
+ This package is free software; you can redistribute it and/or modify
+ it under the terms of the GNU General Public License as published by
+ the Free Software Foundation; either version 2 of the License, or
+ (at your option) any later version.
+ .
+ This package is distributed in the hope that it will be useful,
+ but WITHOUT ANY WARRANTY; without even the implied warranty of
+ MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
+ GNU General Public License for more details.
+ .
+ You should have received a copy of the GNU General Public License
+ along with this program. If not, see <http://www.gnu.org/licenses/>
+ .
+ On Debian systems, the complete text of the GNU General
+ Public License version 2 can be found in "/usr/share/common-licenses/GPL-2".
+
+# If you want to use GPL v2 or later for the /debian/* files use
+# the following clauses, or change it to suit. Delete these two lines
+Files: debian/*
+Copyright: 2012 Sascha Steinbiss <steinbiss at zbh.uni-hamburg.de>
+License: GPL-2+
+ This package is free software; you can redistribute it and/or modify
+ it under the terms of the GNU General Public License as published by
+ the Free Software Foundation; either version 2 of the License, or
+ (at your option) any later version.
+ .
+ This package is distributed in the hope that it will be useful,
+ but WITHOUT ANY WARRANTY; without even the implied warranty of
+ MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
+ GNU General Public License for more details.
+ .
+ You should have received a copy of the GNU General Public License
+ along with this program. If not, see <http://www.gnu.org/licenses/>
+ .
+ On Debian systems, the complete text of the GNU General
+ Public License version 2 can be found in "/usr/share/common-licenses/GPL-2".
+
+# Please also look if there are files or directories which have a
+# different copyright/license attached and list them here.
Added: trunk/packages/ltrsift/trunk/debian/docs
===================================================================
--- trunk/packages/ltrsift/trunk/debian/docs (rev 0)
+++ trunk/packages/ltrsift/trunk/debian/docs 2012-10-06 21:20:57 UTC (rev 12320)
@@ -0,0 +1 @@
+README
Added: trunk/packages/ltrsift/trunk/debian/ltrsift.docs
===================================================================
--- trunk/packages/ltrsift/trunk/debian/ltrsift.docs (rev 0)
+++ trunk/packages/ltrsift/trunk/debian/ltrsift.docs 2012-10-06 21:20:57 UTC (rev 12320)
@@ -0,0 +1,4 @@
+CHANGELOG
+README
+LICENSE
+VERSION
Added: trunk/packages/ltrsift/trunk/debian/ltrsift.install
===================================================================
--- trunk/packages/ltrsift/trunk/debian/ltrsift.install (rev 0)
+++ trunk/packages/ltrsift/trunk/debian/ltrsift.install 2012-10-06 21:20:57 UTC (rev 12320)
@@ -0,0 +1,5 @@
+usr/bin/ltrsift
+usr/bin/ltrsift_encode
+usr/sample_data usr/share/ltrsift
+usr/filters usr/share/ltrsift
+
Added: trunk/packages/ltrsift/trunk/debian/rules
===================================================================
--- trunk/packages/ltrsift/trunk/debian/rules (rev 0)
+++ trunk/packages/ltrsift/trunk/debian/rules 2012-10-06 21:20:57 UTC (rev 12320)
@@ -0,0 +1,34 @@
+#!/usr/bin/make -f
+# -*- makefile -*-
+
+#export DH_VERBOSE=1
+export DESTDIR=$(CURDIR)/debian/tmp
+export gt_prefix=/usr
+
+BITS:=$(shell dpkg-architecture | grep DEB_BUILD_ARCH_BITS | cut -f 2 -d'=')
+ifeq ($(BITS),64)
+ 64BIT:=yes
+else
+ 64BIT:=no
+endif
+
+%:
+ dh $@ --parallel
+
+override_dh_auto_clean:
+ $(MAKE) cleanup
+
+override_dh_auto_build:
+ dh_auto_build --parallel -- 64bit=$(64BIT) opt=no errorcheck=no
+
+override_dh_auto_test:
+ #dh_auto_test -- useshared=yes 64bit=$(64BIT) testthreads=5
+
+override_dh_auto_install:
+ dh_auto_install -- 64bit=$(64BIT) opt=no errorcheck=no prefix=$(DESTDIR)/usr
+
+override_dh_strip:
+ dh_strip --dbg-package=ltrsift-dbg
+
+override_dh_installdocs:
+ dh_installdocs --exclude=license.template
Property changes on: trunk/packages/ltrsift/trunk/debian/rules
___________________________________________________________________
Added: svn:executable
+ *
Added: trunk/packages/ltrsift/trunk/debian/source/format
===================================================================
--- trunk/packages/ltrsift/trunk/debian/source/format (rev 0)
+++ trunk/packages/ltrsift/trunk/debian/source/format 2012-10-06 21:20:57 UTC (rev 12320)
@@ -0,0 +1 @@
+3.0 (quilt)
Added: trunk/packages/ltrsift/trunk/debian/upstream
===================================================================
--- trunk/packages/ltrsift/trunk/debian/upstream (rev 0)
+++ trunk/packages/ltrsift/trunk/debian/upstream 2012-10-06 21:20:57 UTC (rev 12320)
@@ -0,0 +1,21 @@
+Name: LTRsift
+Bug-Database: http://ltrsift.lighthouseapp.com/projects/98871-ltrsift/tickets?q=all
+Bug-Submit: http://ltrsift.lighthouseapp.com/projects/98871-ltrsift/tickets/new
+Contact: Sascha Steinbiss <steinbiss at zbh.uni-hamburg.de>
+Homepage: http://www.zbh.uni-hamburg.de/LTRsift
+Reference:
+ Author: Steinbiss, Sascha and Kastens, Sascha and Kurtz, Stefan
+ Title: >
+ LTRsift: a graphical user interface for semi-automatic classification and postprocessing of de novo detected LTR retrotransposons.
+ Journal: Mobile DNA
+ Year: 2012
+ Volume:
+ Number:
+ Pages:
+ DOI:
+ PMID:
+ URL:
+Repository: http://github.com/satta/ltrsift
+Screenshots: http://www.zbh.uni-hamburg.de/en/research/genome-informatics/software/ltrsift.html
+Watch: |
+ https://github.com/satta/ltrsift/tags .*/zipball/v(\d[\d\.]+)
Added: trunk/packages/ltrsift/trunk/debian/watch
===================================================================
--- trunk/packages/ltrsift/trunk/debian/watch (rev 0)
+++ trunk/packages/ltrsift/trunk/debian/watch 2012-10-06 21:20:57 UTC (rev 12320)
@@ -0,0 +1,24 @@
+# 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
+https://github.com/satta/ltrsift/tags .*/zipball/v(\d[\d\.]+)
+
+# Uncomment to examine a Webpage
+# <Webpage URL> <string match>
+#http://www.example.com/downloads.php ltrsift-(.*)\.tar\.gz
+
+# Uncomment to examine a Webserver directory
+#http://www.example.com/pub/ltrsift-(.*)\.tar\.gz
+
+# Uncommment to examine a FTP server
+#ftp://ftp.example.com/pub/ltrsift-(.*)\.tar\.gz debian uupdate
+
+# Uncomment to find new files on sourceforge, for devscripts >= 2.9
+# http://sf.net/ltrsift/ltrsift-(.*)\.tar\.gz
+
+# Uncomment to find new files on GooglePages
+# http://example.googlepages.com/foo.html ltrsift-(.*)\.tar\.gz
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