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commit 9d611d3b7a607094e73d1eed1f51f09307312060 Author: Steffen Moeller <[email protected]> Date: Thu Jul 7 11:33:36 2011 +0000 Initial packaging for qtlreaper. --- debian/README.Debian | 8 ++++++++ debian/README.source | 9 +++++++++ debian/changelog | 5 +++++ debian/compat | 1 + debian/control | 27 +++++++++++++++++++++++++++ debian/copyright | 36 ++++++++++++++++++++++++++++++++++++ debian/docs | 1 + debian/qtlreaper.substvars | 4 ++++ debian/rules | 13 +++++++++++++ debian/source/format | 1 + debian/watch | 2 ++ 11 files changed, 107 insertions(+) diff --git a/debian/README.Debian b/debian/README.Debian new file mode 100644 index 0000000..59f187f --- /dev/null +++ b/debian/README.Debian @@ -0,0 +1,8 @@ +qtlreaper for Debian +-------------------- + +This package was seeded over a meeting with Rob Williams from upstream +during the EU SYSGENET workshop in Groningen. It is a preparation for +getting his http://www.genenetwork.org into the distribution. + + -- Steffen Moeller <[email protected]> Thu, 07 Jul 2011 00:03:09 +0200 diff --git a/debian/README.source b/debian/README.source new file mode 100644 index 0000000..ffbf042 --- /dev/null +++ b/debian/README.source @@ -0,0 +1,9 @@ +qtlreaper for Debian +-------------------- + +<this file describes information about the source package, see Debian policy +manual section 4.14. You WILL either need to modify or delete this file> + + + + diff --git a/debian/changelog b/debian/changelog new file mode 100644 index 0000000..5fec584 --- /dev/null +++ b/debian/changelog @@ -0,0 +1,5 @@ +qtlreaper (1.1.1-1) unstable; urgency=low + + * Initial release (Closes: #nnnn) <nnnn is the bug number of your ITP> + + -- Steffen Moeller <[email protected]> Thu, 07 Jul 2011 00:03:09 +0200 diff --git a/debian/compat b/debian/compat new file mode 100644 index 0000000..45a4fb7 --- /dev/null +++ b/debian/compat @@ -0,0 +1 @@ +8 diff --git a/debian/control b/debian/control new file mode 100644 index 0000000..45436f4 --- /dev/null +++ b/debian/control @@ -0,0 +1,27 @@ +Source: qtlreaper +Section: science +Priority: extra +Maintainer: Steffen Moeller <[email protected]> +Build-Depends: debhelper (>= 8.0.0) +Standards-Version: 3.9.2 +Homepage: http://qtlreaper.sf.net +XS-Python-Version: >= 2.5 +Vcs-Browser: http://svn.debian.org/wsvn/debian-med/trunk/packages/qtlreaper/trunk/?rev=0&sc=0 +Vcs-Svn: svn://svn.debian.org/svn/debian-med/trunk/packages/qtlreaper/trunk/ + +Package: python-reaper +Architecture: any +Depends: ${shlibs:Depends}, ${misc:Depends} +Description: QTL analysis for expression data + QTL Reaper is software, written in C and compiled as a Python module, for + rapidly scanning microarray expression data for QTLs. It is essentially + the batch-oriented version of WebQTL. It requires, as input, expression + data from members of a set of recombinant inbred lines and genotype + information for the same lines. It searches for an association between + each expression trait and all genotypes and evaluates that association + by a permutation test. For the permutation test, it performs only as + many permutations as are necessary to define the empirical P-value to a + reasonable precision. It also performs bootstrap resampling to estimate + the confidence region for the location of a putative QTL. + . + The reaper module is used underneath the http://genenetwork.org site. diff --git a/debian/copyright b/debian/copyright new file mode 100644 index 0000000..8deeae4 --- /dev/null +++ b/debian/copyright @@ -0,0 +1,36 @@ +Format: http://dep.debian.net/deps/dep5 +Upstream-Name: qtlreaper +Source: <url://example.com> + +Files: * +Copyright: <years> <put author's name and email here> + <years> <likewise for another author> +License: <special license> + <Put the license of the package here indented by 1 space> + <This follows the format of Description: lines in control file> + . + <Including paragraphs> + +# 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: 2011 Steffen Moeller <[email protected]> +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. diff --git a/debian/docs b/debian/docs new file mode 100644 index 0000000..d72c1f8 --- /dev/null +++ b/debian/docs @@ -0,0 +1 @@ +whatsnew.txt diff --git a/debian/qtlreaper.substvars b/debian/qtlreaper.substvars new file mode 100644 index 0000000..2ca9d24 --- /dev/null +++ b/debian/qtlreaper.substvars @@ -0,0 +1,4 @@ +python:Versions=2.6, 2.7 +python:Depends=python2.6 | python2.7, python (>= 2.6), python (<< 2.8) +shlibs:Depends=libc6 (>= 2.2.5) +misc:Depends= diff --git a/debian/rules b/debian/rules new file mode 100755 index 0000000..2ebce13 --- /dev/null +++ b/debian/rules @@ -0,0 +1,13 @@ +#!/usr/bin/make -f +# -*- makefile -*- +# Sample debian/rules that uses debhelper. +# This file was originally written by Joey Hess and Craig Small. +# As a special exception, when this file is copied by dh-make into a +# dh-make output file, you may use that output file without restriction. +# This special exception was added by Craig Small in version 0.37 of dh-make. + +# Uncomment this to turn on verbose mode. +#export DH_VERBOSE=1 + +%: + dh $@ --with python2 diff --git a/debian/source/format b/debian/source/format new file mode 100644 index 0000000..163aaf8 --- /dev/null +++ b/debian/source/format @@ -0,0 +1 @@ +3.0 (quilt) diff --git a/debian/watch b/debian/watch new file mode 100644 index 0000000..93633db --- /dev/null +++ b/debian/watch @@ -0,0 +1,2 @@ +version=3 +http://sf.net/qtlreaper/qtlreaper-(.*)\.tar\.gz -- Alioth's /usr/local/bin/git-commit-notice on /srv/git.debian.org/git/debian-med/qtlreaper.git _______________________________________________ debian-med-commit mailing list [email protected] http://lists.alioth.debian.org/cgi-bin/mailman/listinfo/debian-med-commit
