[med-svn] [subread] 02/05: Merge tag 'upstream/1.5.1+dfsg'

[Alex Mestiashvili]

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malex-guest pushed a commit to branch master
in repository subread.

commit 5fe196a4b4ee1291cf4c6fa1b12c4e95d8f5f50c
Merge: 38d1d19 e3249b5
Author: Alexandre Mestiashvili <alex at biotec.tu-dresden.de>
Date:   Sun Aug 28 08:31:49 2016 +0200

    Merge tag 'upstream/1.5.1+dfsg'
    
    Upstream version 1.5.1+dfsg

 annotation/hg38_RefSeq_exon.txt               | 261753 +++++++++++++++++++++++
 doc/SubreadUsersGuide.tex                     |    143 +-
 src/Makefile                                  |      2 +-
 src/Makefile.FreeBSD                          |      2 +-
 src/Makefile.Linux                            |      2 +-
 src/Makefile.MacOS                            |      2 +-
 src/SNPCalling.c                              |      8 +-
 src/core-indel.c                              |     38 +-
 src/core-interface-aligner.c                  |      5 +
 src/core-interface-subjunc.c                  |      6 +
 src/core-junction.c                           |      2 +-
 src/core.c                                    |     86 +-
 src/core.h                                    |      5 +-
 src/gene-value-index.c                        |      5 +-
 src/input-files.c                             |     54 +-
 src/input-files.h                             |      2 +
 src/interval_merge.c                          |     24 +-
 src/makefile.version                          |      2 +-
 src/readSummary.c                             |   1166 +-
 test/featureCounts/data/corner-MinOverlap.ora |      8 +-
 test/featureCounts/data/corner-fractions.SAF  |      5 +
 test/featureCounts/data/corner-fractions.ora  |      3 +
 test/featureCounts/data/corner-fractions.sam  |      7 +
 test/featureCounts/data/test-fracOverlap.ora  |      4 +
 test/featureCounts/data/test-fracOverlap.sam  |      4 +
 test/featureCounts/test_corner_cases.sh       |      8 +-
 26 files changed, 262873 insertions(+), 473 deletions(-)

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