[med-svn] [oases] 08/09: Update upstream source from tag 'upstream/0.2.09'

[Andreas Tille]

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tille pushed a commit to branch master
in repository oases.

commit 215d0538c2400a527ea5e198a373c002c9d94653
Merge: 6ef3603 acb7cd6
Author: Andreas Tille <tille at debian.org>
Date:   Wed Dec 13 19:00:14 2017 +0100

    Update upstream source from tag 'upstream/0.2.09'
    
    Update to upstream version '0.2.09'
    with Debian dir 27ab399d37f1a96300b9f679c147bfdf5ddb5eb8

 .gitmodules                    |    3 +
 ChangeLog                      |  149 +
 LICENSE.txt                    |  674 ++++
 Makefile                       |  123 +
 README.md                      |  361 ++
 data/test_reads.fa             | 7044 ++++++++++++++++++++++++++++++++++++++++
 doc/Makefile                   |    5 +
 doc/manual/Makefile            |    8 +
 doc/manual/OasesManual.tex     |  313 ++
 scripts/oases_pipeline.py      |  130 +
 src/asevent.c                  |  326 ++
 src/complexTranscripts.c       |  540 +++
 src/complexTranscripts.h       |   24 +
 src/correctedGraph.c           | 2835 ++++++++++++++++
 src/correctedGraph.h           |   43 +
 src/extractLoci.c              |  358 ++
 src/extractLoci.h              |   28 +
 src/extractMergedTranscripts.c |  373 +++
 src/extractMergedTranscripts.h |   24 +
 src/filterTranscripts.c        |  188 ++
 src/filterTranscripts.h        |   23 +
 src/locallyCorrectedGraph2.c   |  505 +++
 src/locallyCorrectedGraph2.h   |   31 +
 src/locus.c                    |  297 ++
 src/locus.h                    |   61 +
 src/nodeList.c                 |  116 +
 src/nodeList.h                 |   27 +
 src/oases.c                    |  405 +++
 src/oasesExport.c              | 1225 +++++++
 src/oasesExport.h              |   33 +
 src/scaffold.c                 | 1425 ++++++++
 src/scaffold.h                 |   57 +
 src/transcript.c               |  198 ++
 src/transcript.h               |   44 +
 src/trivialTranscripts.c       |  280 ++
 src/trivialTranscripts.h       |   32 +
 36 files changed, 18308 insertions(+)

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