[med-svn] [python-htseq] branch upstream updated (0f26e7f -> 7e64908)

[Diane Trout]

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diane-guest pushed a change to branch upstream
in repository python-htseq.

      from  0f26e7f   Imported Upstream version 0.5.4.3
       new  63425f9   Imported Upstream version 0.6.1p1
       new  7e64908   Imported Upstream version 0.6.1p1

The 2 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
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Summary of changes:
 HTSeq.egg-info/PKG-INFO                            |     19 -
 HTSeq.egg-info/SOURCES.txt                         |     58 -
 HTSeq.egg-info/dependency_links.txt                |      1 -
 HTSeq.egg-info/top_level.txt                       |      1 -
 HTSeq/StepVector.py                                |    567 -
 HTSeq/__init__.py                                  |    173 +-
 HTSeq/_version.py                                  |      1 -
 HTSeq/scripts/count.py                             |    135 +-
 PKG-INFO                                           |     19 -
 VERSION                                            |      2 +-
 doc/GenomicArrayOfSets.svg                         |    309 +
 doc/alignments.rst                                 |     32 +-
 doc/cigar.png                                      |    Bin 0 -> 13104 bytes
 doc/count.rst                                      |    184 +-
 doc/counting.rst                                   |    303 +
 doc/features.rst                                   |    106 -
 doc/genomic.rst                                    |      2 +-
 doc/history.rst                                    |     47 +-
 doc/index.rst                                      |      2 +
 doc/install.rst                                    |      2 +-
 doc/make_it                                        |      3 -
 doc/otherparsers.rst                               |    173 +
 doc/overview.rst                                   |     20 +
 doc/tour.rst                                       |    222 +-
 example_data/Homo_sapiens.GRCh37.56_chrom1.gtf     | 197895 ++++++++++++++++++
 example_data/SRR001432_head.bam                    |    Bin 0 -> 12849262 bytes
 example_data/SRR001432_head_sorted.bam             |    Bin 0 -> 11925267 bytes
 example_data/SRR001432_head_sorted.bam.bai         |    Bin 0 -> 2873888 bytes
 .../Saccharomyces_cerevisiae.SGD1.01.56.gtf.gz     |    Bin 0 -> 373439 bytes
 example_data/fastaEx.fa                            |      6 +
 example_data/feature_list.txt                      |      3 +
 example_data/yeast_RNASeq_excerpt.sam              |  25019 +++
 example_data/yeast_RNASeq_excerpt_sequence.txt     |  99996 +++++++++
 setup.cfg                                          |      5 -
 setup.py                                           |      2 +-
 src/HTSeq/_HTSeq.pyx                               |     45 +-
 src/StepVector_wrap.cxx                            |   6402 -
 src/_HTSeq.c                                       |  34058 ---
 test/test.py                                       |     36 +
 test/tss_test.py                                   |     35 +
 todo.txt                                           |      8 +
 41 files changed, 324412 insertions(+), 41479 deletions(-)
 delete mode 100644 HTSeq.egg-info/PKG-INFO
 delete mode 100644 HTSeq.egg-info/SOURCES.txt
 delete mode 100644 HTSeq.egg-info/dependency_links.txt
 delete mode 100644 HTSeq.egg-info/top_level.txt
 delete mode 100644 HTSeq/StepVector.py
 delete mode 100644 HTSeq/_version.py
 delete mode 100644 PKG-INFO
 create mode 100644 doc/GenomicArrayOfSets.svg
 create mode 100644 doc/cigar.png
 create mode 100644 doc/counting.rst
 delete mode 100644 doc/make_it
 create mode 100644 doc/otherparsers.rst
 create mode 100644 example_data/Homo_sapiens.GRCh37.56_chrom1.gtf
 create mode 100644 example_data/SRR001432_head.bam
 create mode 100644 example_data/SRR001432_head_sorted.bam
 create mode 100644 example_data/SRR001432_head_sorted.bam.bai
 create mode 100644 example_data/Saccharomyces_cerevisiae.SGD1.01.56.gtf.gz
 create mode 100644 example_data/fastaEx.fa
 create mode 100644 example_data/feature_list.txt
 create mode 100644 example_data/yeast_RNASeq_excerpt.sam
 create mode 100644 example_data/yeast_RNASeq_excerpt_sequence.txt
 delete mode 100644 setup.cfg
 delete mode 100644 src/StepVector_wrap.cxx
 delete mode 100644 src/_HTSeq.c
 create mode 100644 test/test.py
 create mode 100644 test/tss_test.py
 create mode 100644 todo.txt

-- 
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