[med-svn] [giira] branch master updated (504da0a -> 914a8c4)

[Andreas Tille]

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

tille pushed a change to branch master
in repository giira.

      from  504da0a   Install binary into correct dir and upload to unstable
       new  75f1a1f   cme fix dpkg-control
       new  2b25d25   debian/get-orig-source: Fetch latest commit from SVN and create date based version number
       new  54ea890   New upstream version 0.0.20140625
       new  22b22fd   Merge tag 'upstream/0.0.20140625'
       new  481294d   New upstream checkout
       new  a6b9894   fake watch file
       new  3fec1ba   debhelper 10
       new  692c173   Adapt patches
       new  914a8c4   Upload to unstable

The 9 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:
 debian/changelog                                |  11 ++
 debian/compat                                   |   2 +-
 debian/control                                  |   8 +-
 debian/copyright                                |   2 +-
 debian/get-orig-source                          |  13 +-
 debian/patches/fix_non-ascii_characters.patch   |  15 --
 debian/patches/fix_scripts-path.patch           |  12 +-
 debian/patches/remove_cplex_code.patch          |   6 +-
 debian/patches/series                           |   1 -
 debian/rules                                    |   1 +
 debian/watch                                    |   9 +-
 src/geneFinder/ExtractGeneCandidates.java       |   3 +
 src/geneFinder/FrameSearch.java                 | 236 ++++++++++++++++++++++++
 src/geneFinder/GeneFinder.java                  |  10 +-
 src/geneFinder/Giira.java                       |   5 +-
 src/geneFinder/ProkaryoteExtraction.java        |   3 +
 src/geneFinder/Prokaryote_Specials.java         | 211 +++++++++++++++++++++
 src/geneFinder/ReadInParameters_GeneFinder.java |  88 ++++++++-
 src/geneFinder/SamParser.java                   |  76 ++++++--
 src/types/Rna.java                              |   2 +-
 20 files changed, 655 insertions(+), 59 deletions(-)
 delete mode 100644 debian/patches/fix_non-ascii_characters.patch

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