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commit 2585aa3cd79c858881363352e41b58c8b33ef3e0 Author: Afif Elghraoui <a...@ghraoui.name> Date: Sun Jun 7 02:18:31 2015 -0700 initial commit --- debian/changelog | 5 +++++ debian/compat | 1 + debian/control | 42 ++++++++++++++++++++++++++++++++++++++++++ debian/copyright | 37 +++++++++++++++++++++++++++++++++++++ debian/rules | 6 ++++++ debian/source/format | 1 + 6 files changed, 92 insertions(+) diff --git a/debian/changelog b/debian/changelog new file mode 100644 index 0000000..f00a5ce --- /dev/null +++ b/debian/changelog @@ -0,0 +1,5 @@ +smrtanalysis (2.3.0-1) UNRELEASED; urgency=low + + * Initial release (Closes: #nnnn) + + -- Afif Elghraoui <a...@ghraoui.name> Sun, 07 Jun 2015 01:48:30 -0700 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..79a0ddc --- /dev/null +++ b/debian/control @@ -0,0 +1,42 @@ +Source: smrtanalysis +Section: science +Priority: optional +Maintainer: Debian Med Packaging Team <debian-med-packag...@lists.alioth.debian.org> +Uploaders: Afif Elghraoui <a...@ghraoui.name> +Build-Depends: debhelper (>= 9) +Standards-Version: 3.9.6 +Homepage: https://github.com/PacificBiosciences/SMRT-Analysis +Vcs-Git: git://anonscm.debian.org/debian-med/smrtanalysis.git +Vcs-Browser: http://anonscm.debian.org/cgit/smrtanalysis.git + +Package: smrtanalysis +Architecture: all +Depends: ${misc:Depends}, + python-pbcore, + python-pbh5tools +Description: software suite for single molecule, real-time sequencing + SMRT® Analysis is a powerful, open-source bioinformatics software suite + available for analysis of DNA sequencing data from Pacific Biosciences’ + SMRT technology. + . + Users can choose from a variety of analysis protocols that utilize PacBio® + and third-party tools. Analysis protocols include de novo genome assembly, + cDNA mapping, DNA base-modification detection, and long-amplicon analysis to + determine phased consensus sequences. + . + This is a metapackage that depends on the components of SMRT Analysis. + +Package: smrtportal +Architecture: all +Depends: smrtanalysis, + ${misc:Depends} +Description: web interface for smrtanalysis + The browser-based SMRT Portal GUI offers push-button analysis, allowing the + user to create, submit, and monitor analysis jobs. The underlying algorithms + can be accessed on the command-line for pipeline development with SMRT Pipe, + utilizing LIMS-friendly APIs and a large collection of utilities for working + with PacBio bas.h5 files and other common file formats. SMRT View is an + application for graphical visualization of processed and annotated sequence + data, including kinetics data unique to PacBio SMRT technology. + . + This is a metapackage that depends on the components of SMRT Portal. diff --git a/debian/copyright b/debian/copyright new file mode 100644 index 0000000..a5de49a --- /dev/null +++ b/debian/copyright @@ -0,0 +1,37 @@ +Format: http://www.debian.org/doc/packaging-manuals/copyright-format/1.0/ +Upstream-Name: SMRTAnalysis +Upstream-Contact: Pacific Biosciences <dev...@pacificbiosciences.com> +Source: http://pacbiodevnet.com + +Files: * +Copyright: 2013-2015 Pacific Biosciences of California, Inc. +License: BSD-3-Clause + +Files: debian/* +Copyright: 2015 Afif Elghraoui <a...@ghraoui.name> +License: BSD-3-Clause + +License: BSD-3-Clause + Redistribution and use in source and binary forms, with or without + modification, are permitted provided that the following conditions + are met: + 1. Redistributions of source code must retain the above copyright + notice, this list of conditions and the following disclaimer. + 2. Redistributions in binary form must reproduce the above copyright + notice, this list of conditions and the following disclaimer in the + documentation and/or other materials provided with the distribution. + 3. Neither the name of the University nor the names of its contributors + may be used to endorse or promote products derived from this software + without specific prior written permission. + . + THIS SOFTWARE IS PROVIDED BY THE COPYRIGHT HOLDERS AND CONTRIBUTORS + ``AS IS'' AND ANY EXPRESS OR IMPLIED WARRANTIES, INCLUDING, BUT NOT + LIMITED TO, THE IMPLIED WARRANTIES OF MERCHANTABILITY AND FITNESS FOR + A PARTICULAR PURPOSE ARE DISCLAIMED. IN NO EVENT SHALL THE HOLDERS OR + CONTRIBUTORS BE LIABLE FOR ANY DIRECT, INDIRECT, INCIDENTAL, SPECIAL, + EXEMPLARY, OR CONSEQUENTIAL DAMAGES (INCLUDING, BUT NOT LIMITED TO, + PROCUREMENT OF SUBSTITUTE GOODS OR SERVICES; LOSS OF USE, DATA, OR + PROFITS; OR BUSINESS INTERRUPTION) HOWEVER CAUSED AND ON ANY THEORY OF + LIABILITY, WHETHER IN CONTRACT, STRICT LIABILITY, OR TORT (INCLUDING + NEGLIGENCE OR OTHERWISE) ARISING IN ANY WAY OUT OF THE USE OF THIS + SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE. diff --git a/debian/rules b/debian/rules new file mode 100755 index 0000000..28d4ce9 --- /dev/null +++ b/debian/rules @@ -0,0 +1,6 @@ +#!/usr/bin/make -f + +include /usr/share/dpkg/default.mk + +%: + dh $@ 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) -- Alioth's /usr/local/bin/git-commit-notice on /srv/git.debian.org/git/debian-med/smrtanalysis.git _______________________________________________ debian-med-commit mailing list debian-med-commit@lists.alioth.debian.org http://lists.alioth.debian.org/cgi-bin/mailman/listinfo/debian-med-commit