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commit 6622e8decbe4039245643f3b5fe2c81e79265532 Author: Dylan Aïssi <[email protected]> Date: Fri Nov 18 22:18:57 2016 +0100 Initial debian/ --- debian/changelog | 5 +++++ debian/compat | 1 + debian/control | 24 ++++++++++++++++++++++++ debian/copyright | 30 ++++++++++++++++++++++++++++++ debian/rules | 5 +++++ debian/source/format | 1 + debian/tests/bioc | 4 ++++ debian/tests/control | 5 +++++ debian/upstream/metadata | 11 +++++++++++ debian/watch | 3 +++ 10 files changed, 89 insertions(+) diff --git a/debian/changelog b/debian/changelog new file mode 100644 index 0000000..df700de --- /dev/null +++ b/debian/changelog @@ -0,0 +1,5 @@ +r-bioc-mergeomics (1.2.0-1) UNRELEASED; urgency=medium + + * Initial release (Closes: #xxxxxx) + + -- Dylan Aïssi <[email protected]> Fri, 18 Nov 2016 21:53:34 +0100 diff --git a/debian/compat b/debian/compat new file mode 100644 index 0000000..ec63514 --- /dev/null +++ b/debian/compat @@ -0,0 +1 @@ +9 diff --git a/debian/control b/debian/control new file mode 100644 index 0000000..8212b29 --- /dev/null +++ b/debian/control @@ -0,0 +1,24 @@ +Source: r-bioc-mergeomics +Section: gnu-r +Priority: optional +Maintainer: Debian Med Packaging Team <[email protected]> +Uploaders: Dylan Aïssi <[email protected]> +Build-Depends: debhelper (>= 9), dh-r, r-base-dev +Standards-Version: 3.9.8 +Homepage: https://bioconductor.org/packages/Mergeomics/ +Vcs-Browser: https://anonscm.debian.org/git/debian-med/r-bioc-mergeomics.git +Vcs-Git: https://anonscm.debian.org/git/debian-med/r-bioc-mergeomics.git + +Package: r-bioc-mergeomics +Architecture: all +Depends: ${R:Depends}, ${shlibs:Depends}, ${misc:Depends} +Recommends: ${R:Recommends} +Suggests: ${R:Suggests} +Description: Integrative network analysis of omics data + The Mergeomics pipeline serves as a flexible framework for integrating + multidimensional omics-disease associations, functional genomics, + canonical pathways and gene-gene interaction networks to generate + mechanistic hypotheses. It includes two main parts: + 1) Marker set enrichment analysis (MSEA); + 2) Weighted Key Driver Analysis (wKDA). + diff --git a/debian/copyright b/debian/copyright new file mode 100644 index 0000000..fd5e4df --- /dev/null +++ b/debian/copyright @@ -0,0 +1,30 @@ +Format: https://www.debian.org/doc/packaging-manuals/copyright-format/1.0/ +Upstream-Name: Mergeomics +Upstream-Contact: Zeyneb Kurt <[email protected]> +Source: https://bioconductor.org/packages/Mergeomics/ + +Files: * +Copyright: 2016 Ville-Petteri Makinen, Le Shu, Yuqi Zhao, Zeyneb Kurt, Bin Zhang, Xia Yang +License: GPL-2+ + +Files: debian/* +Copyright: 2016 Dylan Aïssi <[email protected]> +License: GPL-2+ + +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 package; if not, write to the Free Software + Foundation, Inc., 51 Franklin St, Fifth Floor, Boston, MA 02110-1301 USA + . + On Debian systems, the full text of the GNU General Public License + version 3 can be found in `/usr/share/common-licenses/GPL-2'. diff --git a/debian/rules b/debian/rules new file mode 100755 index 0000000..529c38a --- /dev/null +++ b/debian/rules @@ -0,0 +1,5 @@ +#!/usr/bin/make -f + +%: + dh $@ --buildsystem R + 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/tests/bioc b/debian/tests/bioc new file mode 100644 index 0000000..533584e --- /dev/null +++ b/debian/tests/bioc @@ -0,0 +1,4 @@ +#!/bin/sh -e + +LC_ALL=C R --no-save -e 'BiocGenerics:::testPackage("Mergeomics")' + diff --git a/debian/tests/control b/debian/tests/control new file mode 100644 index 0000000..93554ac --- /dev/null +++ b/debian/tests/control @@ -0,0 +1,5 @@ +Tests: bioc +Depends: @, r-cran-runit, r-bioc-biocgenerics +Restrictions: allow-stderr + + diff --git a/debian/upstream/metadata b/debian/upstream/metadata new file mode 100644 index 0000000..04e9cb9 --- /dev/null +++ b/debian/upstream/metadata @@ -0,0 +1,11 @@ +Archive: Bioconductor +Contact: Zeyneb Kurt +Name: Mergeomics +Reference: + - Author: Le Shu and Yuqi Zhao and Zeyneb Kurt and Sean Geoffrey Byars and Taru Tukiainen and Johannes Kettunen and Luz D. Orozco and Matteo Pellegrini and Aldons J. Lusis and Samuli Ripatti and Bin Zhang and Michael Inouye and Ville-Petteri Mäkinen and Xia Yang + Title: "Mergeomics: multidimensional data integration to identify pathogenic perturbations to biological systems" + Journal: BMC Genomics + Year: 2016 + DOI: 10.1186/s12864-016-3198-9 + URL: http://bmcgenomics.biomedcentral.com/articles/10.1186/s12864-016-3198-9 + eprint: http://bmcgenomics.biomedcentral.com/track/pdf/10.1186/s12864-016-3198-9 diff --git a/debian/watch b/debian/watch new file mode 100644 index 0000000..3e404f5 --- /dev/null +++ b/debian/watch @@ -0,0 +1,3 @@ +version=4 +opts=downloadurlmangle=s?^(.*)\.\.?https:$1packages/release/bioc? \ +https://bioconductor.org/packages/release/bioc/html/Mergeomics.html .*/Mergeomics_(.*).tar.gz -- Alioth's /usr/local/bin/git-commit-notice on /srv/git.debian.org/git/debian-med/r-bioc-mergeomics.git _______________________________________________ debian-med-commit mailing list [email protected] http://lists.alioth.debian.org/cgi-bin/mailman/listinfo/debian-med-commit
