[med-svn] [pbbarcode] 02/02: Initial packaging

Tue Dec 15 08:13:47 UTC 2015

This is an automated email from the git hooks/post-receive script.

afif-guest pushed a commit to branch master
in repository pbbarcode.

commit 1137a13b25517be6a465867fa3ea5519a99258f2
Author: Afif Elghraoui <afif at ghraoui.name>
Date:   Tue Dec 15 00:13:05 2015 -0800

    Initial packaging
---
 debian/changelog     |  5 +++++
 debian/compat        |  1 +
 debian/control       | 37 +++++++++++++++++++++++++++++++++++++
 debian/copyright     | 36 ++++++++++++++++++++++++++++++++++++
 debian/docs          |  1 +
 debian/rules         | 10 ++++++++++
 debian/source/format |  1 +
 debian/tests/control |  3 +++
 debian/watch         |  3 +++
 9 files changed, 97 insertions(+)

diff --git a/debian/changelog b/debian/changelog
new file mode 100644
index 0000000..a71e1a3
--- /dev/null
+++ b/debian/changelog
@@ -0,0 +1,5 @@
+pbbarcode (0.8.0-1) UNRELEASED; urgency=low
+
+  * Initial release (Closes: #nnnn)
+
+ -- Afif Elghraoui <afif at ghraoui.name>  Sun, 29 Nov 2015 01:37:50 -0800
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..604a24b
--- /dev/null
+++ b/debian/control
@@ -0,0 +1,37 @@
+Source: pbbarcode
+Section: science
+Priority: optional
+Maintainer: Debian Med Packaging Team <debian-med-packaging at lists.alioth.debian.org>
+Uploaders: Afif Elghraoui <afif at ghraoui.name>
+Build-Depends:
+	debhelper (>= 9),
+	dh-python,
+	python-setuptools,
+	python-all-dev,
+	python-pbcore,
+	python-numpy (>= 1.6.0),
+	python-h5py (>= 1.3.0),
+# Test-Depends:
+	python-nose,
+	python-cram,
+	python-pbh5tools,
+Standards-Version: 3.9.6
+Homepage: https://github.com/PacificBiosciences/pbbarcode
+Vcs-Git: git://anonscm.debian.org/debian-med/pbbarcode.git
+Vcs-Browser: http://anonscm.debian.org/cgit/debian-med/pbbarcode.git
+
+Package: pbbarcode
+Architecture: any
+Depends:
+	${misc:Depends},
+	${shlibs:Depends},
+	${python:Depends},
+	python-pkg-resources,
+Description: annotating PacBio sequencing reads with barcode information
+ The pbbarcode package provides tools for annotating PacBio sequencing reads
+ with barcode information. Typically, pbbarcode is called in context of a
+ SMRTPipe workflow as opposed to directly on the command line, however, users
+ are encouraged to utilize the command-line utility directly, as more options
+ are available.
+ .
+ This package is part of the SMRTAnalysis suite.
diff --git a/debian/copyright b/debian/copyright
new file mode 100644
index 0000000..552dbf1
--- /dev/null
+++ b/debian/copyright
@@ -0,0 +1,36 @@
+Format: http://www.debian.org/doc/packaging-manuals/copyright-format/1.0/
+Upstream-Name: pbbarcode
+Upstream-Contact: Pacific Biosciences <devnet at pacificbiosciences.com>
+Source: https://github.com/PacificBiosciences/pbbarcode
+
+Files: *
+Copyright: 2011-2012 Pacific Biosciences of California, Inc.
+License: PacBio-BSD-3-Clause
+
+Files: debian/*
+Copyright: 2015 Afif Elghraoui <afif at ghraoui.name>
+License: PacBio-BSD-3-Clause
+
+License: PacBio-BSD-3-Clause
+ Redistribution and use in source and binary forms, with or without 
+ modification, are permitted provided that the following conditions are met:
+ * Redistributions of source code must retain the above copyright
+ notice, this list of conditions and the following disclaimer.
+ * 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.
+ * Neither the name of Pacific Biosciences 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 PACIFIC BIOSCIENCES AND ITS 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 PACIFIC BIOSCIENCES OR ITS 
+ 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/docs b/debian/docs
new file mode 100644
index 0000000..a1320b1
--- /dev/null
+++ b/debian/docs
@@ -0,0 +1 @@
+README.rst
diff --git a/debian/rules b/debian/rules
new file mode 100755
index 0000000..8ebf392
--- /dev/null
+++ b/debian/rules
@@ -0,0 +1,10 @@
+#!/usr/bin/make -f
+
+#DH_VERBOSE = 1
+
+#include /usr/share/dpkg/default.mk
+
+PYBUILD_NAME = pbbarcode
+
+%:
+	LC_ALL=C.UTF-8 dh $@ --with python2 --buildsystem=pybuild
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/control b/debian/tests/control
new file mode 100644
index 0000000..fcf9447
--- /dev/null
+++ b/debian/tests/control
@@ -0,0 +1,3 @@
+Test-Command: make test
+Depends: @, make, python-pbh5tools, python-nose, python-cram
+Restrictions: allow-stderr, rw-build-tree
diff --git a/debian/watch b/debian/watch
new file mode 100644
index 0000000..d775c42
--- /dev/null
+++ b/debian/watch
@@ -0,0 +1,3 @@
+version=3
+
+# No tags to watch upstream

-- 
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