[med-svn] [python-pbcore] branch debian/jessie-backports updated (875e0f9 -> 2c0f431)

[Afif Elghraoui]

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

afif-guest pushed a change to branch debian/jessie-backports
in repository python-pbcore.

      from  875e0f9   python-pbcore (1.2.4+dfsg-1~bpo8+1) jessie-backports; urgency=medium
      adds  49aebd5   Set watch file to point to pypi rather than github
      adds  56e8b41   Imported Upstream version 1.2.6+dfsg
      adds  9f4ca89   Merge tag 'upstream/1.2.6+dfsg'
      adds  a600589   Set new changelog entry
      adds  695f21f   Refresh patches
      adds  9ad012c   Fix compatibility with pysam 0.8.4
      adds  a894e60   Add license statement for a file added in-between releases
      adds  0541bf3   Set new pysam minimum version in d/control
      adds  71606f7   python-pbcore (1.2.6+dfsg-1) unstable; urgency=medium
       new  887a1ab   Merge branch 'master' into debian/jessie-backports
       new  52e0543   Update pysam versioned dependency for binary package
       new  2c0f431   python-pbcore (1.2.6+dfsg-1~bpo8+1) jessie-backports; urgency=medium

The 3 revisions listed above as "new" are entirely new to this
repository and will be described in separate emails.  The revisions
listed as "adds" were already present in the repository and have only
been added to this reference.


Summary of changes:
 .circleci/installHDF5.sh                         |   14 -
 .gitignore                                       |   13 -
 CHANGELOG.org                                    |    7 +
 LICENSES.txt => PKG-INFO                         |   12 +-
 debian/changelog                                 |   17 +
 debian/control                                   |    4 +-
 debian/copyright                                 |   21 +
 debian/patches/enable-build-time-testing.patch   |    5 +-
 debian/patches/fix-pysam-compatibility.patch     |   36 +
 debian/patches/series                            |    1 +
 debian/watch                                     |    5 +-
 LICENSES.txt => pbcore.egg-info/PKG-INFO         |   12 +-
 pbcore.egg-info/SOURCES.txt                      |  199 +++
 pbcore.egg-info/dependency_links.txt             |    1 +
 pbcore.egg-info/entry_points.txt                 |    3 +
 pbcore.egg-info/not-zip-safe                     |    1 +
 pbcore.egg-info/pbr.json                         |    1 +
 requirements.txt => pbcore.egg-info/requires.txt |    3 +-
 pbcore.egg-info/top_level.txt                    |    1 +
 pbcore/__init__.py                               |    2 +-
 pbcore/chemistry/resources/mapping.xml           |   30 +
 pbcore/io/BasH5IO.py                             |    5 +-
 pbcore/io/align/BamAlignment.py                  |    4 +
 pbcore/io/align/BamIO.py                         |   12 +
 pbcore/io/align/CmpH5IO.py                       |    4 +
 pbcore/io/align/PacBioBamIndex.py                |    6 +-
 pbcore/io/align/_AlignmentMixin.py               |   13 +
 pbcore/io/dataset/DataSetIO.py                   |  189 +-
 pbcore/io/dataset/DataSetMembers.py              |   54 +-
 pbcore/io/dataset/DataSetReader.py               |   14 +-
 pbcore/io/dataset/DataSetValidator.py            |    2 +
 pbcore/io/dataset/DataSetWriter.py               |   85 +-
 pbcore/io/dataset/DataSetXsd.py                  |  501 +++---
 pbcore/io/dataset/EntryPoints.py                 |    3 +
 pbcore/io/dataset/__init__.py                    |   16 -
 pbcore/io/dataset/_pbbase.py                     | 2042 ++++++++++++----------
 pbcore/io/dataset/_pbds.py                       | 1898 +++++++++++---------
 pbcore/io/dataset/_pbmeta.py                     |  620 ++++---
 pbcore/io/dataset/_pbpn.py                       |  628 +++++--
 pbcore/io/dataset/_pbrk.py                       |  410 ++---
 pbcore/io/dataset/_pbsample.py                   |  132 +-
 pbcore/io/dataset/utils.py                       |    3 +
 setup.cfg                                        |    6 +
 tests/test_pbcore_io_AlnFileReaders.py           |    7 +
 tests/test_pbdataset.py                          |   62 +-
 tests/test_pbdataset_subtypes.py                 |   71 +-
 46 files changed, 4179 insertions(+), 2996 deletions(-)
 delete mode 100644 .circleci/installHDF5.sh
 delete mode 100644 .gitignore
 copy LICENSES.txt => PKG-INFO (90%)
 create mode 100644 debian/patches/fix-pysam-compatibility.patch
 copy LICENSES.txt => pbcore.egg-info/PKG-INFO (90%)
 create mode 100644 pbcore.egg-info/SOURCES.txt
 create mode 100644 pbcore.egg-info/dependency_links.txt
 create mode 100644 pbcore.egg-info/entry_points.txt
 create mode 100644 pbcore.egg-info/not-zip-safe
 create mode 100644 pbcore.egg-info/pbr.json
 copy requirements.txt => pbcore.egg-info/requires.txt (86%)
 create mode 100644 pbcore.egg-info/top_level.txt

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