[med-svn] [vsearch] 02/10: Merge tag 'upstream/2.3.0'

[Andreas Tille]

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tille pushed a commit to branch master
in repository vsearch.

commit f1e6ef80c06af4056adb71d19c7ee07a1e2413a5
Merge: 74d8038 cc668cc
Author: Andreas Tille <tille at debian.org>
Date:   Sat Oct 15 15:56:24 2016 +0200

    Merge tag 'upstream/2.3.0'
    
    Upstream version 2.3.0

 configure.ac                   |    2 +-
 man/vsearch.1                  | 1136 +++++++++++++++++++++++++++-------------
 src/Makefile.am                |    2 +
 src/align_simd.cc              |   30 +-
 src/allpairs.cc                |    6 +-
 src/chimera.cc                 |    4 +-
 src/cluster.cc                 |  129 ++++-
 src/derep.cc                   |   26 +-
 src/fasta.cc                   |    2 +
 src/fastq.cc                   |    4 +
 src/fastqops.cc                |  113 ++--
 src/fastqops.h                 |    3 +-
 src/linmemalign.cc             |   17 +-
 src/linmemalign.h              |    2 +
 src/mergepairs.cc              |    4 +-
 src/otutable.cc                |  405 ++++++++++++++
 src/{fastqops.h => otutable.h} |   13 +-
 src/results.cc                 |   13 +-
 src/results.h                  |    3 +-
 src/search.cc                  |   67 ++-
 src/searchcore.cc              |   66 ++-
 src/searchcore.h               |    4 +-
 src/searchexact.cc             |   73 ++-
 src/vsearch.cc                 |  346 +++++++-----
 src/vsearch.h                  |    8 +
 test/unclassified.sh           |  314 +++++++++++
 26 files changed, 2153 insertions(+), 639 deletions(-)

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