[med-svn] [gmap] 02/04: Merge tag 'upstream/2015-12-31.v9'

[Alex Mestiashvili]

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

commit 40f2a0d553200dd7ebf9938b4fdee142df36bf28
Merge: c6480c3 e3408d5
Author: Alexandre Mestiashvili <alex at biotec.tu-dresden.de>
Date:   Fri Mar 18 09:47:32 2016 +0100

    Merge tag 'upstream/2015-12-31.v9'
    
    Upstream version 2015-12-31.v9

 ChangeLog                   |  15 ++
 src/gsnap.c                 |  20 +-
 src/pair.c                  |  60 ++++--
 src/sam_sort.c              |   5 +-
 src/samread.c               | 457 +++++++++++++++++++++++++-------------------
 src/stage1hr.c              |  18 +-
 src/stage1hr.h              |   4 +-
 src/stage2.c                |  37 +++-
 src/uniqscan.c              |   4 +-
 util/gff3_genes.pl.in       |  57 ++++--
 util/gff3_introns.pl.in     | 112 ++++++++---
 util/gff3_splicesites.pl.in | 145 +++++++++-----
 12 files changed, 615 insertions(+), 319 deletions(-)

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