[med-svn] [prottest] 05/08: Merge tag 'upstream/3.4.1+dfsg'

[Andreas Tille]

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tille pushed a commit to branch master
in repository prottest.

commit e7f15a2b7fbef2fc3e6665b8119e518dde7d4dca
Merge: 7b7413d 3ae2f93
Author: Andreas Tille <tille at debian.org>
Date:   Mon Oct 26 08:23:46 2015 +0100

    Merge tag 'upstream/3.4.1+dfsg'
    
    Upstream version 3.4.1+dfsg

 README.md                                          |  49 +++++++++
 buildconf/project.properties                       |   3 +-
 .../java/es/uvigo/darwin/prottest/ProtTest.java    |   2 +-
 .../global/options/ApplicationOptions.java         |  33 ++++---
 .../java/es/uvigo/darwin/prottest/model/Model.java |   2 +-
 .../darwin/prottest/util/WriterOutputStream.java   |  87 ----------------
 .../argumentparser/ProtTestArgumentParser.java     |   2 +-
 .../prottest/util/factory/ProtTestFactory.java     |   4 +-
 .../prottest/util/logging/ProtTestLogger.java      | 109 ++++++++++++++++++++-
 .../darwin/xprottest/results/ErrorLogView.java     |  61 +++++++++++-
 src/main/resources/CHANGELOG                       |  15 ++-
 src/main/resources/README                          |  16 +--
 src/main/resources/prottest.properties             |   2 +-
 src/main/resources/runProtTestHPC.sh               |   2 +-
 src/main/resources/runXProtTestHPC.sh              |   2 +-
 15 files changed, 263 insertions(+), 126 deletions(-)

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