[med-svn] [plip] branch upstream updated (51ddfcf -> 4279f15)

[Alex Mestiashvili]

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

malex-guest pushed a change to branch upstream
in repository plip.

      from  51ddfcf   Imported Upstream version 1.1.0
       new  4279f15   Imported Upstream version 1.3.0a+dfsg

The 1 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:
 .gitignore                             |     1 +
 CHANGES.txt                            |    54 +-
 DOCUMENTATION.md                       |   224 +-
 README.md                              |     8 +-
 plip/__init__.py                       |    18 +-
 plip/modules/__init__.py               |    18 +-
 plip/modules/config.py                 |    44 +-
 plip/modules/detection.py              |   240 +-
 plip/modules/mp.py                     |    69 +
 plip/modules/preparation.py            |  1015 +-
 plip/modules/report.py                 |   210 +-
 plip/modules/supplemental.py           |   455 +-
 plip/modules/visualize.py              |   371 +-
 plip/plipcmd                           |   308 +-
 plip/test/pdb/1acj.pdb                 |  4774 ----
 plip/test/pdb/1aku.pdb                 |  1765 --
 plip/test/pdb/1ay8.pdb                 |  6838 ------
 plip/test/pdb/1bju.pdb                 |  2217 --
 plip/test/pdb/1bma.pdb                 |  2569 ---
 plip/test/pdb/1eve.pdb                 |  5376 -----
 plip/test/pdb/1h2t.pdb                 |  7978 -------
 plip/test/pdb/1hii.pdb                 |  2163 --
 plip/test/pdb/1hvi.pdb                 |  2409 --
 plip/test/pdb/1hwu.pdb                 |  5032 -----
 plip/test/pdb/1n7g.pdb                 | 12315 -----------
 plip/test/pdb/1osn.pdb                 | 11018 ----------
 plip/test/pdb/1p5e.pdb                 |  9844 ---------
 plip/test/pdb/1vsn.pdb                 |  2355 --
 plip/test/pdb/1xdn.pdb                 |  5703 -----
 plip/test/pdb/2efj.pdb                 |  3525 ---
 plip/test/pdb/2iuz.pdb                 |  8056 -------
 plip/test/pdb/2reg.pdb                 |  5374 -----
 plip/test/pdb/2w0s.pdb                 |  3928 ----
 plip/test/pdb/2zoz.pdb                 |  3856 ----
 plip/test/pdb/3o1h.pdb                 |  5090 -----
 plip/test/pdb/3og7.pdb                 |  8757 --------
 plip/test/pdb/3pxf.pdb                 |  3215 ---
 plip/test/pdb/3r0t.pdb                 |  6723 ------
 plip/test/pdb/3shy.pdb                 |  2872 ---
 plip/test/pdb/3tah.pdb                 |  5381 -----
 plip/test/pdb/3thy.pdb                 | 30958 --------------------------
 plip/test/pdb/4agl.pdb                 |  4509 ----
 plip/test/pdb/4alw.pdb                 |  3305 ---
 plip/test/pdb/4kya.pdb                 | 36156 -------------------------------
 plip/test/pdb/4pjt.pdb                 | 22489 -------------------
 plip/test/pdb/4qnb.pdb                 |  4070 ----
 plip/test/pdb/4rao.pdb                 | 14899 -------------
 plip/test/pdb/4rdl.pdb                 | 11637 ----------
 plip/test/test_basic_functions.py      |    60 +
 plip/test/test_literature_validated.py |   208 +-
 plip/test/test_metal_coordination.py   |   145 +
 plip/test/test_special_cases.py        |    13 +-
 setup.py                               |     6 +-
 53 files changed, 2576 insertions(+), 268047 deletions(-)
 create mode 100644 plip/modules/mp.py
 delete mode 100644 plip/test/pdb/1acj.pdb
 delete mode 100644 plip/test/pdb/1aku.pdb
 delete mode 100644 plip/test/pdb/1ay8.pdb
 delete mode 100644 plip/test/pdb/1bju.pdb
 delete mode 100644 plip/test/pdb/1bma.pdb
 delete mode 100644 plip/test/pdb/1eve.pdb
 delete mode 100644 plip/test/pdb/1h2t.pdb
 delete mode 100644 plip/test/pdb/1hii.pdb
 delete mode 100644 plip/test/pdb/1hvi.pdb
 delete mode 100644 plip/test/pdb/1hwu.pdb
 delete mode 100644 plip/test/pdb/1n7g.pdb
 delete mode 100644 plip/test/pdb/1osn.pdb
 delete mode 100644 plip/test/pdb/1p5e.pdb
 delete mode 100644 plip/test/pdb/1vsn.pdb
 delete mode 100644 plip/test/pdb/1xdn.pdb
 delete mode 100644 plip/test/pdb/2efj.pdb
 delete mode 100644 plip/test/pdb/2iuz.pdb
 delete mode 100644 plip/test/pdb/2reg.pdb
 delete mode 100644 plip/test/pdb/2w0s.pdb
 delete mode 100644 plip/test/pdb/2zoz.pdb
 delete mode 100644 plip/test/pdb/3o1h.pdb
 delete mode 100644 plip/test/pdb/3og7.pdb
 delete mode 100644 plip/test/pdb/3pxf.pdb
 delete mode 100644 plip/test/pdb/3r0t.pdb
 delete mode 100644 plip/test/pdb/3shy.pdb
 delete mode 100644 plip/test/pdb/3tah.pdb
 delete mode 100644 plip/test/pdb/3thy.pdb
 delete mode 100644 plip/test/pdb/4agl.pdb
 delete mode 100644 plip/test/pdb/4alw.pdb
 delete mode 100644 plip/test/pdb/4kya.pdb
 delete mode 100644 plip/test/pdb/4pjt.pdb
 delete mode 100644 plip/test/pdb/4qnb.pdb
 delete mode 100644 plip/test/pdb/4rao.pdb
 delete mode 100644 plip/test/pdb/4rdl.pdb
 create mode 100644 plip/test/test_basic_functions.py
 create mode 100644 plip/test/test_metal_coordination.py

-- 
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