[med-svn] [libbpp-seq] 02/05: Update upstream source from tag 'upstream/2.3.2'

[Julien Dutheil]

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jdutheil-guest pushed a commit to branch master
in repository libbpp-seq.

commit d9b3c89e75663c3b6d06cc62260d4b33d36f3fb8
Merge: 7b9d17b 0dc6a7e
Author: Julien Y. Dutheil <dutheil at evolbio.mpg.de>
Date:   Mon Feb 5 17:34:26 2018 +0100

    Update upstream source from tag 'upstream/2.3.2'
    
    Update to upstream version '2.3.2'
    with Debian dir cd9f658dd636450200d778ccb3a9fa6073a2771a

 Doxyfile                                           | 477 +++++--------
 src/Bpp/Seq/Alphabet/AlphabetTools.cpp             |   1 +
 src/Bpp/Seq/Alphabet/AlphabetTools.h               |   5 +-
 src/Bpp/Seq/Alphabet/CodonAlphabet.cpp             | 163 +++--
 src/Bpp/Seq/Alphabet/CodonAlphabet.h               | 577 +++++++++++-----
 src/Bpp/Seq/Alphabet/WordAlphabet.cpp              |  14 +-
 src/Bpp/Seq/Alphabet/WordAlphabet.h                | 738 ++++++++++++---------
 src/Bpp/Seq/CodonSiteTools.cpp                     |  13 +-
 src/Bpp/Seq/CodonSiteTools.h                       |   2 +-
 .../Container/VectorProbabilisticSiteContainer.cpp | 187 ------
 .../Container/VectorProbabilisticSiteContainer.h   | 123 ----
 src/Bpp/Seq/SequenceTools.cpp                      |  22 +-
 src/Bpp/Seq/StringSequenceTools.cpp                |   8 +-
 src/Bpp/Seq/SymbolListTools.cpp                    |   4 +-
 test/CMakeLists.txt                                |   2 +
 test/test_alphabets.cpp                            |   9 +
 16 files changed, 1222 insertions(+), 1123 deletions(-)

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