[med-svn] [last-align] branch upstream updated (e2f7df7 -> e10f0c8)

[Andreas Tille]

This is an automated email from the git hooks/post-receive script.

tille pushed a change to branch upstream
in repository last-align.

      from  e2f7df7   Imported Upstream version 731
       new  e10f0c8   Imported Upstream version 737

The 1 revisions listed above as "new" are entirely new to this
repository and will be described in separate emails.  The revisions
listed as "adds" were already present in the repository and have only
been added to this reference.


Summary of changes:
 ChangeLog.txt             |  43 +++++++++-
 doc/last-tuning.html      |  13 ++-
 doc/last-tuning.txt       |  14 +++-
 doc/lastal.html           | 151 ++++++++++++++++++++--------------
 doc/lastal.txt            | 137 ++++++++++++++++++-------------
 src/Alignment.cc          | 137 +++++++++++++++++++++----------
 src/Alignment.hh          |  21 +++--
 src/GreedyXdropAligner.cc | 203 ++++++++++++++++++++++++++++++++++++++++++++++
 src/GreedyXdropAligner.hh |  69 ++++++++++++++++
 src/LastEvaluer.cc        |  45 +++++++---
 src/LastEvaluer.hh        |   3 +-
 src/LastalArguments.cc    | 103 ++++++++++++++---------
 src/LastalArguments.hh    |   6 +-
 src/lastal.cc             |  68 +++++++++++-----
 src/makefile              |  25 +++---
 src/version.hh            |   2 +-
 16 files changed, 789 insertions(+), 251 deletions(-)
 create mode 100644 src/GreedyXdropAligner.cc
 create mode 100644 src/GreedyXdropAligner.hh

-- 
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