[med-svn] [iqtree] branch master updated (5abbd97 -> 27da97f)

[Andreas Tille]

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tille pushed a change to branch master
in repository iqtree.

      from  5abbd97   Update sse3 removel patch
      adds  35c46f5   Imported Upstream version 1.4.0+dfsg
       new  a68a042   Imported Upstream version 1.4.2+dfsg
       new  8f72194   Merge tag 'upstream/1.4.2+dfsg'
       new  27da97f   New upstream version

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listed as "adds" were already present in the repository and have only
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Summary of changes:
 CMakeLists.txt            |   2 +-
 alignment.cpp             |   4 +-
 alignment.h               |   4 +-
 debian/changelog          |   2 +-
 iqtree.cpp                | 114 +++++----
 model/modelfactory.cpp    | 124 +++++++++-
 model/modelfactory.h      |   8 +
 model/modelgtr.cpp        |   1 +
 model/partitionmodel.cpp  |  33 +++
 model/partitionmodel.h    |   8 +
 model/ratefree.cpp        |   1 +
 model/ratefree.h          |   2 +-
 model/ratefreeinvar.cpp   |   2 +-
 model/rategamma.cpp       |   1 +
 model/rategamma.h         |   2 +-
 model/rategammainvar.cpp  |  36 ++-
 model/rategammainvar.h    |   9 +
 model/rateheterogeneity.h |  16 ++
 model/rateinvar.cpp       |   6 +-
 model/ratekategory.cpp    |   1 +
 msetsblock.cpp            |   1 +
 pda.cpp                   |   2 +-
 phyloanalysis.cpp         |  34 +--
 phylosupertreeplen.cpp    |   7 +
 phylosupertreeplen.h      |   9 +
 phylotesting.cpp          |  41 +++-
 phylotree.cpp             |   5 +-
 phylotree.h               |  34 +--
 quartet.cpp               | 611 +++++++++++++++++++++++++---------------------
 superalignment.cpp        |  20 +-
 superalignment.h          |   4 +-
 tools.cpp                 |  52 +++-
 tools.h                   |  23 +-
 33 files changed, 812 insertions(+), 407 deletions(-)

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