[med-svn] [gmap] 02/03: Merge tag 'upstream/2016-09-23'

[Alex Mestiashvili]

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

commit 75987c7e358c8ea24f489da018965459a4209983
Merge: 6415ea0 81426f0
Author: Alexandre Mestiashvili <alex at biotec.tu-dresden.de>
Date:   Sun Sep 25 14:09:36 2016 +0200

    Merge tag 'upstream/2016-09-23'
    
    Upstream version 2016-09-23

 ChangeLog            |   80 +++
 VERSION              |    2 +-
 configure            |   24 +-
 src/Makefile.am      |    2 +-
 src/Makefile.in      |  106 ++-
 src/access.c         |    5 +-
 src/boyer-moore.c    |    3 +-
 src/dynprog_genome.c |  794 +++++----------------
 src/pair.c           |   31 +-
 src/samprint.c       |   13 +-
 src/splice.c         |   51 +-
 src/splice.h         |    6 +-
 src/stage1.c         |    8 +-
 src/stage1hr.c       |   87 ++-
 src/stage2.c         |  134 +++-
 src/stage3.c         | 1886 +++++++++++++++++++++++++++++++++++++++-----------
 src/stage3.h         |    4 +-
 src/stage3hr.c       |  260 +++++--
 src/stage3hr.h       |    4 +-
 src/substring.c      |  110 +--
 src/substring.h      |    6 +-
 21 files changed, 2387 insertions(+), 1229 deletions(-)

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