[med-svn] [cufflinks] 03/04: Merge tag 'upstream/2.2.1'

[Alex Mestiashvili]

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

commit 52933e83b3125ae2ee4a614246031cca3ab5c50b
Merge: d68919a 55fd328
Author: Alexandre Mestiashvili <alex at biotec.tu-dresden.de>
Date:   Fri May 16 11:29:47 2014 +0200

    Merge tag 'upstream/2.2.1'
    
    Upstream version 2.2.1

 Makefile.in          |   10 +-
 config.h.in          |    2 +-
 configure            | 8583 ++++++++++++++++++++++++++++----------------------
 configure.ac         |    2 +-
 make_bin.sh          |    6 +-
 src/GBase.cpp        |    8 +-
 src/GFaSeqGet.h      |   24 +
 src/GStr.cpp         |   29 +-
 src/GStr.h           |   20 +-
 src/Makefile.in      |   10 +-
 src/abundances.cpp   |   10 +-
 src/common.cpp       |    6 +-
 src/common.h         |    1 +
 src/cuffdiff.cpp     |   58 +-
 src/cuffnorm.cpp     |  113 +-
 src/cuffquant.cpp    |    2 +-
 src/gff.cpp          |   25 +-
 src/gff.h            |   12 +-
 src/gff_utils.cpp    |   14 +-
 src/gtf_tracking.cpp |  112 +-
 src/gtf_tracking.h   |   17 +-
 src/replicates.cpp   |    4 +
 22 files changed, 5154 insertions(+), 3914 deletions(-)

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