RNApolis 0.0.10__tar.gz → 0.11.3__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 (75) hide show
  1. rnapolis-0.11.3/MANIFEST.in +2 -0
  2. rnapolis-0.11.3/PKG-INFO +2187 -0
  3. rnapolis-0.11.3/README.md +2145 -0
  4. {RNApolis-0.0.10 → rnapolis-0.11.3}/setup.py +38 -4
  5. rnapolis-0.11.3/src/RNApolis.egg-info/PKG-INFO +2187 -0
  6. rnapolis-0.11.3/src/RNApolis.egg-info/SOURCES.txt +63 -0
  7. rnapolis-0.11.3/src/RNApolis.egg-info/entry_points.txt +13 -0
  8. rnapolis-0.11.3/src/RNApolis.egg-info/requires.txt +14 -0
  9. rnapolis-0.11.3/src/RNApolis.egg-info/top_level.txt +1 -0
  10. rnapolis-0.11.3/src/rnapolis/adapter.py +204 -0
  11. rnapolis-0.11.3/src/rnapolis/adapters/__init__.py +7 -0
  12. rnapolis-0.11.3/src/rnapolis/adapters/__pycache__/__init__.cpython-313.pyc +0 -0
  13. rnapolis-0.11.3/src/rnapolis/adapters/__pycache__/barnaba.cpython-313.pyc +0 -0
  14. rnapolis-0.11.3/src/rnapolis/adapters/__pycache__/bpnet.cpython-313.pyc +0 -0
  15. rnapolis-0.11.3/src/rnapolis/adapters/__pycache__/dssr.cpython-313.pyc +0 -0
  16. rnapolis-0.11.3/src/rnapolis/adapters/__pycache__/fr3d.cpython-313.pyc +0 -0
  17. rnapolis-0.11.3/src/rnapolis/adapters/__pycache__/maxit.cpython-313.pyc +0 -0
  18. rnapolis-0.11.3/src/rnapolis/adapters/__pycache__/mc_annotate.cpython-313.pyc +0 -0
  19. rnapolis-0.11.3/src/rnapolis/adapters/__pycache__/rnaview.cpython-313.pyc +0 -0
  20. rnapolis-0.11.3/src/rnapolis/adapters/barnaba.py +250 -0
  21. rnapolis-0.11.3/src/rnapolis/adapters/bpnet.py +228 -0
  22. rnapolis-0.11.3/src/rnapolis/adapters/dssr.py +101 -0
  23. rnapolis-0.11.3/src/rnapolis/adapters/fr3d.py +206 -0
  24. rnapolis-0.11.3/src/rnapolis/adapters/maxit.py +152 -0
  25. rnapolis-0.11.3/src/rnapolis/adapters/mc_annotate.py +360 -0
  26. rnapolis-0.11.3/src/rnapolis/adapters/rnaview.py +364 -0
  27. rnapolis-0.11.3/src/rnapolis/aligner.py +119 -0
  28. {RNApolis-0.0.10 → rnapolis-0.11.3}/src/rnapolis/annotator.py +318 -57
  29. {RNApolis-0.0.10 → rnapolis-0.11.3}/src/rnapolis/clashfinder.py +66 -51
  30. rnapolis-0.11.3/src/rnapolis/common.py +1198 -0
  31. rnapolis-0.11.3/src/rnapolis/component_A.csv +38 -0
  32. rnapolis-0.11.3/src/rnapolis/component_C.csv +36 -0
  33. rnapolis-0.11.3/src/rnapolis/component_G.csv +39 -0
  34. rnapolis-0.11.3/src/rnapolis/component_U.csv +35 -0
  35. rnapolis-0.11.3/src/rnapolis/distiller.py +1187 -0
  36. {RNApolis-0.0.10 → rnapolis-0.11.3}/src/rnapolis/metareader.py +11 -1
  37. rnapolis-0.11.3/src/rnapolis/mmcif_pdbx_v50.dic +173762 -0
  38. rnapolis-0.11.3/src/rnapolis/molecule_filter.py +264 -0
  39. rnapolis-0.11.3/src/rnapolis/motif_extractor.py +42 -0
  40. {RNApolis-0.0.10 → rnapolis-0.11.3}/src/rnapolis/parser.py +202 -48
  41. rnapolis-0.11.3/src/rnapolis/parser_v2.py +1127 -0
  42. rnapolis-0.11.3/src/rnapolis/py.typed +0 -0
  43. rnapolis-0.11.3/src/rnapolis/rfam_folder.py +363 -0
  44. rnapolis-0.11.3/src/rnapolis/splitter.py +128 -0
  45. rnapolis-0.11.3/src/rnapolis/tertiary.py +1098 -0
  46. rnapolis-0.11.3/src/rnapolis/tertiary_v2.py +1148 -0
  47. rnapolis-0.11.3/src/rnapolis/transformer.py +134 -0
  48. rnapolis-0.11.3/src/rnapolis/unifier.py +168 -0
  49. {RNApolis-0.0.10 → rnapolis-0.11.3}/src/rnapolis/util.py +2 -2
  50. rnapolis-0.11.3/tests/test_adapter.py +205 -0
  51. rnapolis-0.11.3/tests/test_annotator.py +59 -0
  52. rnapolis-0.11.3/tests/test_bugfixes.py +99 -0
  53. rnapolis-0.11.3/tests/test_common.py +235 -0
  54. rnapolis-0.11.3/tests/test_metareader.py +39 -0
  55. rnapolis-0.11.3/tests/test_molecule_filter.py +39 -0
  56. rnapolis-0.11.3/tests/test_parser.py +52 -0
  57. rnapolis-0.11.3/tests/test_quadruplexes.py +360 -0
  58. rnapolis-0.11.3/tests/test_rfam_folder.py +29 -0
  59. rnapolis-0.11.3/tests/test_tertiary.py +27 -0
  60. rnapolis-0.11.3/tests/test_transformer.py +63 -0
  61. rnapolis-0.11.3/tests/test_v2.py +448 -0
  62. RNApolis-0.0.10/PKG-INFO +0 -25
  63. RNApolis-0.0.10/README.md +0 -7
  64. RNApolis-0.0.10/src/RNApolis.egg-info/PKG-INFO +0 -25
  65. RNApolis-0.0.10/src/RNApolis.egg-info/SOURCES.txt +0 -18
  66. RNApolis-0.0.10/src/RNApolis.egg-info/entry_points.txt +0 -5
  67. RNApolis-0.0.10/src/RNApolis.egg-info/requires.txt +0 -4
  68. RNApolis-0.0.10/src/RNApolis.egg-info/top_level.txt +0 -1
  69. RNApolis-0.0.10/src/rnapolis/common.py +0 -326
  70. RNApolis-0.0.10/src/rnapolis/tertiary.py +0 -635
  71. RNApolis-0.0.10/src/rnapolis/transformer.py +0 -65
  72. {RNApolis-0.0.10 → rnapolis-0.11.3}/LICENSE +0 -0
  73. {RNApolis-0.0.10 → rnapolis-0.11.3}/pyproject.toml +0 -0
  74. {RNApolis-0.0.10 → rnapolis-0.11.3}/setup.cfg +0 -0
  75. {RNApolis-0.0.10 → rnapolis-0.11.3}/src/RNApolis.egg-info/dependency_links.txt +0 -0
rnapolis-0.11.3/MANIFEST.in ADDED
@@ -0,0 +1,2 @@
1
+ # Include the entire adapters subpackage (including non-.py assets) in sdists
2
+ graft src/rnapolis/adapters