pidibble 1.3.2__tar.gz → 1.3.3__tar.gz

This diff represents the content of publicly available package versions that have been released to one of the supported registries. The information contained in this diff is provided for informational purposes only and reflects changes between package versions as they appear in their respective public registries.
Files changed (52) hide show
  1. {pidibble-1.3.2 → pidibble-1.3.3}/PKG-INFO +3 -1
  2. {pidibble-1.3.2 → pidibble-1.3.3}/README.md +2 -0
  3. {pidibble-1.3.2 → pidibble-1.3.3}/pidibble/mmcif_parse.py +2 -1
  4. {pidibble-1.3.2 → pidibble-1.3.3}/pyproject.toml +1 -1
  5. {pidibble-1.3.2 → pidibble-1.3.3}/.github/workflows/release.yaml +0 -0
  6. {pidibble-1.3.2 → pidibble-1.3.3}/.gitignore +0 -0
  7. {pidibble-1.3.2 → pidibble-1.3.3}/.readthedocs.yaml +0 -0
  8. {pidibble-1.3.2 → pidibble-1.3.3}/LICENSE +0 -0
  9. {pidibble-1.3.2 → pidibble-1.3.3}/MANIFEST.in +0 -0
  10. {pidibble-1.3.2 → pidibble-1.3.3}/docs/Makefile +0 -0
  11. {pidibble-1.3.2 → pidibble-1.3.3}/docs/make.bat +0 -0
  12. {pidibble-1.3.2 → pidibble-1.3.3}/docs/requirements.txt +0 -0
  13. {pidibble-1.3.2 → pidibble-1.3.3}/docs/source/_static/css/custom.css +0 -0
  14. {pidibble-1.3.2 → pidibble-1.3.3}/docs/source/api/API.rst +0 -0
  15. {pidibble-1.3.2 → pidibble-1.3.3}/docs/source/api/pidibble.baseparsers.rst +0 -0
  16. {pidibble-1.3.2 → pidibble-1.3.3}/docs/source/api/pidibble.baserecord.rst +0 -0
  17. {pidibble-1.3.2 → pidibble-1.3.3}/docs/source/api/pidibble.hex.rst +0 -0
  18. {pidibble-1.3.2 → pidibble-1.3.3}/docs/source/api/pidibble.mmcif_parse.rst +0 -0
  19. {pidibble-1.3.2 → pidibble-1.3.3}/docs/source/api/pidibble.pdbparse.rst +0 -0
  20. {pidibble-1.3.2 → pidibble-1.3.3}/docs/source/api/pidibble.pdbrecord.rst +0 -0
  21. {pidibble-1.3.2 → pidibble-1.3.3}/docs/source/api/pidibble.resources.rst +0 -0
  22. {pidibble-1.3.2 → pidibble-1.3.3}/docs/source/api/pidibble.rst +0 -0
  23. {pidibble-1.3.2 → pidibble-1.3.3}/docs/source/conf.py +0 -0
  24. {pidibble-1.3.2 → pidibble-1.3.3}/docs/source/index.rst +0 -0
  25. {pidibble-1.3.2 → pidibble-1.3.3}/docs/source/installation.rst +0 -0
  26. {pidibble-1.3.2 → pidibble-1.3.3}/docs/source/notes.md +0 -0
  27. {pidibble-1.3.2 → pidibble-1.3.3}/docs/source/usage.rst +0 -0
  28. {pidibble-1.3.2 → pidibble-1.3.3}/pidibble/__init__.py +0 -0
  29. {pidibble-1.3.2 → pidibble-1.3.3}/pidibble/baseparsers.py +0 -0
  30. {pidibble-1.3.2 → pidibble-1.3.3}/pidibble/baserecord.py +0 -0
  31. {pidibble-1.3.2 → pidibble-1.3.3}/pidibble/hex.py +0 -0
  32. {pidibble-1.3.2 → pidibble-1.3.3}/pidibble/pdbparse.py +0 -0
  33. {pidibble-1.3.2 → pidibble-1.3.3}/pidibble/pdbrecord.py +0 -0
  34. {pidibble-1.3.2 → pidibble-1.3.3}/pidibble/resources/__init__.py +0 -0
  35. {pidibble-1.3.2 → pidibble-1.3.3}/pidibble/resources/mmcif_format.yaml +0 -0
  36. {pidibble-1.3.2 → pidibble-1.3.3}/pidibble/resources/pdb_format.yaml +0 -0
  37. {pidibble-1.3.2 → pidibble-1.3.3}/tests/__init__.py +0 -0
  38. {pidibble-1.3.2 → pidibble-1.3.3}/tests/conftest.py +0 -0
  39. {pidibble-1.3.2 → pidibble-1.3.3}/tests/unit/test_hex/my_system.pdb +0 -0
  40. {pidibble-1.3.2 → pidibble-1.3.3}/tests/unit/test_hex.py +0 -0
  41. {pidibble-1.3.2 → pidibble-1.3.3}/tests/unit/test_rcsb/4tvp.cif +0 -0
  42. {pidibble-1.3.2 → pidibble-1.3.3}/tests/unit/test_rcsb/4tvp.pdb +0 -0
  43. {pidibble-1.3.2 → pidibble-1.3.3}/tests/unit/test_rcsb/4zmj-newresnames.pdb +0 -0
  44. {pidibble-1.3.2 → pidibble-1.3.3}/tests/unit/test_rcsb/4zmj.cif +0 -0
  45. {pidibble-1.3.2 → pidibble-1.3.3}/tests/unit/test_rcsb/4zmj.pdb +0 -0
  46. {pidibble-1.3.2 → pidibble-1.3.3}/tests/unit/test_rcsb/6m0j.pdb +0 -0
  47. {pidibble-1.3.2 → pidibble-1.3.3}/tests/unit/test_rcsb/8fae.cif +0 -0
  48. {pidibble-1.3.2 → pidibble-1.3.3}/tests/unit/test_rcsb/G.pdb +0 -0
  49. {pidibble-1.3.2 → pidibble-1.3.3}/tests/unit/test_rcsb/GG.pdb +0 -0
  50. {pidibble-1.3.2 → pidibble-1.3.3}/tests/unit/test_rcsb/test.pdb +0 -0
  51. {pidibble-1.3.2 → pidibble-1.3.3}/tests/unit/test_rcsb/test_pdb_format.yaml +0 -0
  52. {pidibble-1.3.2 → pidibble-1.3.3}/tests/unit/test_rcsb.py +0 -0
{pidibble-1.3.2 → pidibble-1.3.3}/PKG-INFO RENAMED
@@ -1,6 +1,6 @@
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  Metadata-Version: 2.4
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  Name: pidibble
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- Version: 1.3.2
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+ Version: 1.3.3
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  Summary: A complete Protein Data Bank (PDB) file parser
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  Project-URL: Source, https://github.com/cameronabrams/pidibble
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  Project-URL: Documentation, https://pidibble.readthedocs.io/en/latest/
@@ -91,6 +91,8 @@ ATOM
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  ```
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  ## Release History
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+ * 1.3.3
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+ * fixed bugs regarding assuming missing records actually present in mmcif parsing
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  * 1.3.2
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  * implemented `filepath` parameter in `PDBParser()` to make
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  reading local files more transparent
{pidibble-1.3.2 → pidibble-1.3.3}/README.md RENAMED
@@ -73,6 +73,8 @@ ATOM
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  ```
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  ## Release History
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+ * 1.3.3
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+ * fixed bugs regarding assuming missing records actually present in mmcif parsing
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  * 1.3.2
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  * implemented `filepath` parameter in `PDBParser()` to make
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  reading local files more transparent
{pidibble-1.3.2 → pidibble-1.3.3}/pidibble/mmcif_parse.py RENAMED
@@ -214,8 +214,9 @@ class MMCIF_Parser:
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  spawns_on=mapspec.get('spawns_on',None)
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  allcaps=mapspec.get('allcaps',[])
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  if_dot_replace_with=mapspec.get('if_dot_replace_with',{})
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+ logger.debug(f'getting cifrec for {mapspec["data_obj"]}')
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  cifrec=self.cif_data.getObj(mapspec['data_obj'])
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- if not tables:
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+ if not tables and cifrec is not None:
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  for idx in range(len(cifrec)):
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  if not use_signal or (cifrec.getValue(sigattr,idx)==sigval):
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  if global_maps:
{pidibble-1.3.2 → pidibble-1.3.3}/pyproject.toml RENAMED
@@ -3,7 +3,7 @@ requires = ["hatchling"]
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  build-backend = "hatchling.build"
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  [project]
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  name = "pidibble"
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- version = "1.3.2"
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+ version = "1.3.3"
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  authors = [
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  { name="Cameron F Abrams", email="cfa22@drexel.edu" },
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  ]
{pidibble-1.3.2 → pidibble-1.3.3}/.gitignore RENAMED
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{pidibble-1.3.2 → pidibble-1.3.3}/.readthedocs.yaml RENAMED
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{pidibble-1.3.2 → pidibble-1.3.3}/LICENSE RENAMED
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{pidibble-1.3.2 → pidibble-1.3.3}/MANIFEST.in RENAMED
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{pidibble-1.3.2 → pidibble-1.3.3}/docs/Makefile RENAMED
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{pidibble-1.3.2 → pidibble-1.3.3}/docs/make.bat RENAMED
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{pidibble-1.3.2 → pidibble-1.3.3}/docs/requirements.txt RENAMED
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{pidibble-1.3.2 → pidibble-1.3.3}/docs/source/conf.py RENAMED
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{pidibble-1.3.2 → pidibble-1.3.3}/docs/source/index.rst RENAMED
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{pidibble-1.3.2 → pidibble-1.3.3}/docs/source/notes.md RENAMED
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{pidibble-1.3.2 → pidibble-1.3.3}/docs/source/usage.rst RENAMED
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{pidibble-1.3.2 → pidibble-1.3.3}/pidibble/__init__.py RENAMED
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{pidibble-1.3.2 → pidibble-1.3.3}/pidibble/hex.py RENAMED
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{pidibble-1.3.2 → pidibble-1.3.3}/pidibble/pdbparse.py RENAMED
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{pidibble-1.3.2 → pidibble-1.3.3}/pidibble/pdbrecord.py RENAMED
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{pidibble-1.3.2 → pidibble-1.3.3}/tests/__init__.py RENAMED
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{pidibble-1.3.2 → pidibble-1.3.3}/tests/conftest.py RENAMED
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