[med-svn] [python-csb] branch master updated (57b16f8 -> e4347d2)

[Tomás Di Domenico]

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tdido-guest pushed a change to branch master
in repository python-csb.

      from  57b16f8   Somehow the changelog entry of initial version said unreleased which is obviosly not true (no interest to fiddle forth and back with tagging old version)
       new  de1f8cb   Imported Upstream version 1.2.1+dfsg
       new  40d5692   Merge tag 'upstream/1.2.1+dfsg'
       new  e4347d2   * Modified debian/changelog to reflect update to latest upstream version

The 3 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:
 PKG-INFO                                          |    2 +-
 csb/__init__.py                                   |    2 +-
 csb/apps/__init__.py                              |   10 +-
 csb/apps/buildhmm.py                              |   63 +-
 csb/apps/csfrag.py                                |  542 ++++++++
 csb/apps/hhfrag.py                                |  302 ++++-
 csb/apps/hhsearch.py                              |    5 +-
 csb/apps/precision.py                             |   30 +-
 csb/bio/fragments/__init__.py                     |  207 ++-
 csb/bio/fragments/rosetta.py                      |    4 +-
 csb/bio/io/clans.py                               |    5 +-
 csb/bio/io/cs.py                                  |  206 +++
 csb/bio/io/fasta.py                               |   16 +-
 csb/bio/io/hhpred.py                              |    2 +-
 csb/bio/io/noe.py                                 |  269 ++++
 csb/bio/io/wwpdb.py                               | 1096 +++++++++++----
 csb/bio/nmr/__init__.py                           | 1105 ++++++++++++++-
 csb/bio/nmr/resources/AtomConnectivity.xml        |  812 +++++++++++
 csb/bio/sequence/__init__.py                      |   21 +-
 csb/bio/sequence/alignment.py                     |  617 +++++++++
 csb/bio/structure/__init__.py                     |   52 +-
 csb/build.py                                      |   28 +-
 csb/io/__init__.py                                |    5 +
 csb/io/tsv.py                                     |   38 +-
 csb/numeric/__init__.py                           |   16 +-
 csb/numeric/integrators.py                        |   10 +-
 csb/statistics/__init__.py                        |    4 +-
 csb/statistics/samplers/__init__.py               |   12 +-
 csb/statistics/samplers/mc/__init__.py            |  838 +-----------
 csb/statistics/samplers/mc/multichain.py          | 1502 +++++++++++++++++++--
 csb/statistics/samplers/mc/neqsteppropagator.py   | 1239 +++++++++++++++++
 csb/statistics/samplers/mc/propagators.py         |   55 +-
 csb/statistics/samplers/mc/singlechain.py         |  311 ++++-
 csb/test/__init__.py                              |    2 +-
 csb/test/cases/bio/fragments/__init__.py          |   11 +-
 csb/test/cases/bio/hmm/__init__.py                |   11 +-
 csb/test/cases/bio/io/clans/__init__.py           |   24 +-
 csb/test/cases/bio/io/cs/__init__.py              |   87 ++
 csb/test/cases/bio/io/fasta/__init__.py           |    4 +-
 csb/test/cases/bio/io/noe/__init__.py             |  148 ++
 csb/test/cases/bio/io/wwpdb/__init__.py           |  194 ++-
 csb/test/cases/bio/nmr/__init__.py                |  348 ++++-
 csb/test/cases/bio/sequence/alignment/__init__.py |  196 +++
 csb/test/cases/bio/structure/__init__.py          |   29 +-
 csb/test/cases/core/__init__.py                   |   22 +-
 csb/test/cases/io/__init__.py                     |   87 +-
 csb/test/cases/numeric/__init__.py                |   59 +-
 csb/test/cases/statistics/samplers/__init__.py    |  728 +++++++++-
 csb/test/data/1d3z.regular.pdb                    |  342 ++---
 csb/test/data/2l01.v2.str                         |   31 +
 csb/test/data/2l01.v3.str                         |   45 +
 csb/test/data/Sparky.peaks                        |    5 +
 csb/test/data/Xeasy1.peaks                        |    9 +
 csb/test/data/Xeasy2.peaks                        |    8 +
 csb/test/data/csb.tsv                             |    2 +-
 csb/test/data/mapping.pdb                         |   12 +
 csb/test/data/mapping2.pdb                        |   10 +
 csb/test/data/mapping3.pdb                        |    9 +
 csb/test/data/modified.pdb                        |   16 +
 csb/test/data/modified2.pdb                       |   16 +
 csb/test/data/out.clans                           |   14 +-
 debian/changelog                                  |    6 +
 debian/control                                    |    4 +-
 63 files changed, 10232 insertions(+), 1673 deletions(-)
 create mode 100644 csb/apps/csfrag.py
 create mode 100644 csb/bio/io/cs.py
 create mode 100644 csb/bio/io/noe.py
 create mode 100644 csb/bio/nmr/resources/AtomConnectivity.xml
 create mode 100644 csb/bio/sequence/alignment.py
 create mode 100644 csb/statistics/samplers/mc/neqsteppropagator.py
 create mode 100644 csb/test/cases/bio/io/cs/__init__.py
 create mode 100644 csb/test/cases/bio/io/noe/__init__.py
 create mode 100644 csb/test/cases/bio/sequence/alignment/__init__.py
 create mode 100644 csb/test/data/2l01.v2.str
 create mode 100644 csb/test/data/2l01.v3.str
 create mode 100644 csb/test/data/Sparky.peaks
 create mode 100644 csb/test/data/Xeasy1.peaks
 create mode 100644 csb/test/data/Xeasy2.peaks
 create mode 100644 csb/test/data/mapping.pdb
 create mode 100644 csb/test/data/mapping2.pdb
 create mode 100644 csb/test/data/mapping3.pdb
 create mode 100644 csb/test/data/modified.pdb
 create mode 100644 csb/test/data/modified2.pdb

-- 
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