[med-svn] [sniffles] 03/07: Merge tag 'upstream/1.0.6+ds'

[Afif Elghraoui]

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commit ad2fd933abda300a72a23cc083f4d211a8708130
Merge: 9e17385 4cfc4c8
Author: Afif Elghraoui <afif at debian.org>
Date:   Fri Nov 10 01:18:28 2017 -0500

    Merge tag 'upstream/1.0.6+ds'
    
    Upstream version 1.0.6+ds

 CMakeLists.txt                 |   8 +-
 README.md                      |   5 +
 src/Alignment.cpp              | 233 ++++++++++++++++++++++++-------------
 src/Alignment.h                |  11 +-
 src/Genotyper/Genotyper.cpp    |  55 ++++++---
 src/Paramer.h                  |   8 +-
 src/Sniffles.cpp               |  91 +++++++++------
 src/Version.h                  |   2 +-
 src/cluster/Cluster_SVs.cpp    |  31 +++--
 src/cluster/Cluster_SVs.h      |   2 +
 src/print/BedpePrinter.cpp     |  99 +++++++++-------
 src/print/IPrinter.cpp         | 110 ++++++++++++------
 src/print/IPrinter.h           |  43 ++++---
 src/print/VCFPrinter.cpp       | 253 ++++++++++++++++++++++++++---------------
 src/sub/Breakpoint.cpp         | 112 +++++++-----------
 src/sub/Breakpoint.h           |   1 +
 src/sub/Detect_Breakpoints.cpp | 226 ++++++++++++++++++++----------------
 17 files changed, 790 insertions(+), 500 deletions(-)

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