[med-svn] [last-align] branch master updated (d98829f -> 4e4a8e4)

[Andreas Tille]

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

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

      from  d98829f   Upload to unstable
       new  e10f0c8   Imported Upstream version 737
       new  1846c3b   Merge tag 'upstream/737'
       new  21c2541   New upstream version
       new  e2a68cc   cme fix dpkg-control
       new  4e4a8e4   Better hardening and upload to unstable

The 5 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 +++++++++-
 debian/changelog          |   8 ++
 debian/control            |   2 +-
 debian/rules              |   2 +
 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 +-
 19 files changed, 800 insertions(+), 252 deletions(-)
 create mode 100644 src/GreedyXdropAligner.cc
 create mode 100644 src/GreedyXdropAligner.hh

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