[med-svn] [mhap] branch master updated (b605727 -> 7ee2279)

[Afif Elghraoui]

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

afif pushed a change to branch master
in repository mhap.

      from  b605727   releasing package mhap version 2.0+dfsg-1
       new  ccf5b8e   Avoid dependency on graphics libraries by not using java:Depends
       new  bcd23e5   Imported Upstream version 2.1+dfsg
       new  f1f7db9   Update package's long description
       new  7ee2279   releasing package mhap version 2.1+dfsg-1

The 4 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:
 README.md                                          |   6 +-
 debian/changelog                                   |   8 +
 debian/control                                     |  23 +-
 docs/source/conf.py                                |   4 +-
 docs/source/installation.rst                       |  22 +-
 docs/source/quickstart.rst                         |  98 +++--
 docs/source/utilities.rst                          |  14 +-
 pom.xml                                            |   6 +-
 .../edu/umd/marbl/mhap/impl/MinHashSearch.java     |  13 +-
 .../edu/umd/marbl/mhap/impl/SequenceSketch.java    |   6 +-
 .../marbl/mhap/impl/SequenceSketchStreamer.java    |  33 +-
 .../java/edu/umd/marbl/mhap/main/EstimateROC.java  |  98 +++--
 .../edu/umd/marbl/mhap/main/GetHistogramStats.java |   2 +-
 .../edu/umd/marbl/mhap/main/KmerStatSimulator.java |   6 +-
 .../java/edu/umd/marbl/mhap/main/MhapMain.java     | 115 ++++--
 .../edu/umd/marbl/mhap/sketch/FrequencyCounts.java | 226 ++++++++--
 .../edu/umd/marbl/mhap/sketch/MinHashSketch.java   |  35 +-
 .../umd/marbl/mhap/sketch/OrderedNGramHashes.java  |   4 +-
 .../marbl/mhap/sketch/OrderedNGramHashesOld.java   | 460 ---------------------
 .../edu/umd/marbl/mhap/utils/ParseOptions.java     |   2 +-
 src/main/java/edu/umd/marbl/mhap/utils/Utils.java  |  59 +--
 21 files changed, 536 insertions(+), 704 deletions(-)
 delete mode 100644 src/main/java/edu/umd/marbl/mhap/sketch/OrderedNGramHashesOld.java

-- 
Alioth's /usr/local/bin/git-commit-notice on /srv/git.debian.org/git/debian-med/mhap.git