[med-svn] [bwa] 02/03: Updated version 0.7.16 from 'upstream/0.7.16'

[Steffen Möller]

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moeller pushed a commit to branch master
in repository bwa.

commit 4a41d89e4ed746ee51bfe4e2d6bb61855461068d
Merge: 6cb4dfc 6b5aa13
Author: Steffen Moeller <moeller at debian.org>
Date:   Mon Sep 11 15:40:18 2017 +0200

    Updated version 0.7.16 from 'upstream/0.7.16'
    
    with Debian dir 8e1bb2861c4ac44a0ef3ba679a969ae65e982c17

 NEWS.md            | 19 ++++++++++++++++++-
 README.md          | 27 +++++++++++++--------------
 bntseq.c           |  6 +++---
 bwa.1              | 49 +++++++++++++++++++++++++++++++++++++++++++++----
 bwa.c              | 30 ++++++++++++++++++++++--------
 bwakit/run-bwamem  |  7 ++++---
 bwakit/run-gen-ref |  2 +-
 bwamem.c           | 48 ++++++++++++++++++++++++++++++++++++++++--------
 bwamem.h           |  1 +
 bwamem_pair.c      |  5 +++++
 bwape.c            |  5 +++--
 bwase.c            |  9 ++++++---
 bwt_gen.c          | 21 +++++++++------------
 bwt_lite.c         |  2 +-
 bwtaln.c           |  5 +++--
 bwtgap.c           |  2 +-
 bwtgap.h           |  6 +++---
 bwtindex.c         |  4 ++--
 bwtsw2_pair.c      |  8 +++++++-
 fastmap.c          | 11 ++++++++---
 kthread.c          |  1 +
 main.c             |  2 +-
 malloc_wrap.c      |  8 ++++----
 23 files changed, 201 insertions(+), 77 deletions(-)

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