[med-svn] [last-align] branch upstream updated (efc6116 -> fe2831f)

[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  efc6116   New upstream version 759
       new  fe2831f   New upstream version 809

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                   | 225 ++++++++++-
 doc/last-split.html             |   8 +
 doc/last-split.txt              |   8 +
 doc/last-train.html             |  18 +-
 doc/last-train.txt              |  21 +-
 doc/maf-convert.html            |   5 +
 doc/maf-convert.txt             |   5 +
 scripts/last-postmask           |  17 +-
 scripts/last-train              | 166 ++++++--
 scripts/maf-convert             | 867 ++++++++++++++++++++++------------------
 src/LastalArguments.cc          |   2 +
 src/split/cbrc_split_aligner.cc | 558 ++++++++++++++------------
 src/split/cbrc_split_aligner.hh |  62 +--
 src/split/last-split-main.cc    |  20 +-
 src/split/last-split.cc         |  11 +-
 src/split/last-split.hh         |   2 +
 src/stringify.hh                |  24 +-
 src/version.hh                  |   2 +-
 18 files changed, 1286 insertions(+), 735 deletions(-)

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