README.md

@@ -4,3 +4,7 @@ Biosciences. Specifically, this package provides functionality for
 manipulating and extracting data from "cmp.h5" and "bas.h5" files.
 
 [Detailed documentation here](doc/index.rst).
+
+DISCLAIMER
+----------
+THIS WEBSITE AND CONTENT AND ALL SITE-RELATED SERVICES, INCLUDING ANY DATA, ARE PROVIDED "AS IS," WITH ALL FAULTS, WITH NO REPRESENTATIONS OR WARRANTIES OF ANY KIND, EITHER EXPRESS OR IMPLIED, INCLUDING, BUT NOT LIMITED TO, ANY WARRANTIES OF MERCHANTABILITY, SATISFACTORY QUALITY, NON-INFRINGEMENT OR FITNESS FOR A PARTICULAR PURPOSE. YOU ASSUME TOTAL RESPONSIBILITY AND RISK FOR YOUR USE OF THIS SITE, ALL SITE-RELATED SERVICES, AND ANY THIRD PARTY WEBSITES OR APPLICATIONS. NO ORAL OR WRITTEN INFORMATION OR ADVICE SHALL CREATE A WARRANTY OF ANY KIND. ANY REFERENCES TO SPECIFIC PRODUCTS OR SERVICES ON THE WEBSITES DO NOT CONSTITUTE OR IMPLY A RECOMMENDATION OR ENDORSEMENT BY PACIFIC BIOSCIENCES.

debian/changelog

+pbh5tools (0.8.0+git20170929.58d54ff+dfsg-1) unstable; urgency=medium
+
+  * Team upload.
+  * d/watch: use git mode
+  * debhelper 11
+  * Point Vcs fields to salsa.debian.org
+  * Standards-Version: 4.1.5
+  * Build-Depends: python-h5py
+  * DEP3
+
+ -- Andreas Tille <tille@debian.org>  Fri, 13 Jul 2018 15:58:44 +0200
+
 pbh5tools (0.8.0+dfsg-5) unstable; urgency=medium
 
   * Rename source package to match primary binary package

debian/compat

-9
+11

debian/control

 Source: pbh5tools
-Section: science
-Priority: optional
 Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
 Uploaders: Afif Elghraoui <afif@debian.org>
-Build-Depends: debhelper (>= 9),
+Section: science
+Priority: optional
+Build-Depends: debhelper (>= 11~),
                dh-python,
                python,
                python-setuptools,
                python-pbcore,
                python-sphinx,
                python-nose,
-	       python-cram,
-Standards-Version: 3.9.7
+               python-h5py,
+               python-cram
+Standards-Version: 4.1.5
+Vcs-Browser: https://salsa.debian.org/med-team/pbh5tools
+Vcs-Git: https://salsa.debian.org/med-team/pbh5tools.git
 Homepage: https://github.com/PacificBiosciences/pbh5tools
-Vcs-Git: https://anonscm.debian.org/git/debian-med/pbh5tools.git
-Vcs-Browser: https://anonscm.debian.org/cgit/debian-med/pbh5tools.git
 
 Package: pbh5tools
 Architecture: all
-Depends:
-	${misc:Depends},
+Depends: ${misc:Depends},
          ${python:Depends},
          python-pbh5tools (>= ${binary:Version}),
-	python-pkg-resources,
+         python-pkg-resources
 Description: tools for manipulating Pacific Biosciences HDF5 files
  This package provides functionality for manipulating and extracting data
  from cmp.h5 and bas.h5 files produced by the Pacific Biosciences sequencers.
@@ -32,11 +32,11 @@ Description: tools for manipulating Pacific Biosciences HDF5 files
  This package is part of the SMRTAnalysis suite.
 
 Package: python-pbh5tools
-Section: python
 Architecture: any
+Section: python
 Depends: ${shlibs:Depends},
          ${misc:Depends},
-	 ${python:Depends},
+         ${python:Depends}
 Description: tools for manipulating Pacific Biosciences HDF5 files -- Python 2 library
  This package provides functionality for manipulating and extracting data
  from cmp.h5 and bas.h5 files produced by the Pacific Biosciences sequencers.
@@ -47,8 +47,8 @@ Description: tools for manipulating Pacific Biosciences HDF5 files -- Python 2 l
  Python 2 backend library
 
 Package: python-pbh5tools-doc
-Section: doc
 Architecture: all
+Section: doc
 Depends: ${misc:Depends},
          libjs-jquery,
          libjs-underscore

debian/patches/multiarch-module-path.patch

+Author: Afif Elghraoui
+Last-Update: 2016-03-20 00:45:22 -0700
+Description: Enable multiarch modules
+
 --- python-pbh5tools.orig/pbh5tools/Indexer.py
 +++ python-pbh5tools/pbh5tools/Indexer.py
 @@ -32,10 +32,11 @@

debian/patches/series

@@ -5,3 +5,4 @@ override-test-failure.patch
 ignore-cram-results.patch
 fix-type-in-test.patch
 multiarch-module-path.patch
+# enable-nosetests

debian/watch

-# Upstream currently does not tag versions in their github repository
-version=3
+version=4
+
+# Upstream is not tagging releases regularly - thus we use mode=git
+opts="mode=git,pretty=0.8.0+git%cd.%h,repacksuffix=+dfsg,dversionmangle=s/\+dfsg//g,repack,compression=xz" \
+  https://github.com/PacificBiosciences/pbh5tools.git HEAD