[med-svn] [rsem] 03/04: Merge tag 'upstream/1.2.26+dfsg'

[Michael Crusoe]

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misterc-guest pushed a commit to branch master
in repository rsem.

commit c6a02ec56c8cd60a9ee3f0f7dbd6a867107b0722
Merge: 421d375 1e2dc5a
Author: Michael R. Crusoe <crusoe at ucdavis.edu>
Date:   Sun Jan 31 03:19:53 2016 -0800

    Merge tag 'upstream/1.2.26+dfsg'
    
    Upstream version 1.2.26+dfsg

 EBSeq/Makefile                       |   2 +-
 EBSeq/install                        |  15 +-
 EM.cpp                               |  13 +-
 GTFItem.h                            | 270 ++++++++++++++++++++---------------
 Gibbs.cpp                            |  63 ++++----
 README.md                            | 241 ++++++++++++++++++++++---------
 Transcript.h                         |  41 ++++--
 WHAT_IS_NEW                          |  26 ++++
 WriteResults.h                       |  27 +++-
 calcCI.cpp                           |  92 ++++++++----
 extractRef.cpp                       |  52 +++++--
 rsem-calculate-expression            |  36 ++++-
 rsem-gen-transcript-plots            |  11 +-
 rsem-gff3-to-gtf                     | 105 ++++++++++++++
 rsem-plot-model                      |  34 ++++-
 rsem-prepare-reference               |  53 +++++--
 rsem-refseq-extract-primary-assembly |  18 +++
 rsem-run-ebseq                       |   8 +-
 rsem_perl_utils.pm                   |   8 +-
 19 files changed, 797 insertions(+), 318 deletions(-)

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