pyseqalignment 0.1.0__tar.gz → 0.1.1__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 (51) hide show
  1. {pyseqalignment-0.1.0 → pyseqalignment-0.1.1}/PKG-INFO +1 -1
  2. {pyseqalignment-0.1.0 → pyseqalignment-0.1.1}/pyproject.toml +1 -1
  3. {pyseqalignment-0.1.0 → pyseqalignment-0.1.1}/src/pyseqalign/learning/aleph_files/aleph_swi_ak.pl +4 -1
  4. {pyseqalignment-0.1.0 → pyseqalignment-0.1.1}/src/pyseqalignment.egg-info/PKG-INFO +1 -1
  5. {pyseqalignment-0.1.0 → pyseqalignment-0.1.1}/LICENSE +0 -0
  6. {pyseqalignment-0.1.0 → pyseqalignment-0.1.1}/README.md +0 -0
  7. {pyseqalignment-0.1.0 → pyseqalignment-0.1.1}/setup.cfg +0 -0
  8. {pyseqalignment-0.1.0 → pyseqalignment-0.1.1}/src/pyseqalign/__init__.py +0 -0
  9. {pyseqalignment-0.1.0 → pyseqalignment-0.1.1}/src/pyseqalign/core/__init__.py +0 -0
  10. {pyseqalignment-0.1.0 → pyseqalignment-0.1.1}/src/pyseqalign/core/alignment.py +0 -0
  11. {pyseqalignment-0.1.0 → pyseqalignment-0.1.1}/src/pyseqalign/core/needleman_wunsch.py +0 -0
  12. {pyseqalignment-0.1.0 → pyseqalignment-0.1.1}/src/pyseqalign/core/smith_waterman.py +0 -0
  13. {pyseqalignment-0.1.0 → pyseqalignment-0.1.1}/src/pyseqalign/learning/__init__.py +0 -0
  14. {pyseqalignment-0.1.0 → pyseqalignment-0.1.1}/src/pyseqalign/learning/aleph.py +0 -0
  15. {pyseqalignment-0.1.0 → pyseqalignment-0.1.1}/src/pyseqalign/learning/aleph_files/__init__.py +0 -0
  16. {pyseqalignment-0.1.0 → pyseqalignment-0.1.1}/src/pyseqalign/learning/base.py +0 -0
  17. {pyseqalignment-0.1.0 → pyseqalignment-0.1.1}/src/pyseqalign/learning/popper.py +0 -0
  18. {pyseqalignment-0.1.0 → pyseqalignment-0.1.1}/src/pyseqalign/learning/task_builder.py +0 -0
  19. {pyseqalignment-0.1.0 → pyseqalignment-0.1.1}/src/pyseqalign/prolog/__init__.py +0 -0
  20. {pyseqalignment-0.1.0 → pyseqalignment-0.1.1}/src/pyseqalign/prolog/engine.py +0 -0
  21. {pyseqalignment-0.1.0 → pyseqalignment-0.1.1}/src/pyseqalign/prolog/knowledge/__init__.py +0 -0
  22. {pyseqalignment-0.1.0 → pyseqalignment-0.1.1}/src/pyseqalign/prolog/knowledge/amino_acids.pl +0 -0
  23. {pyseqalignment-0.1.0 → pyseqalignment-0.1.1}/src/pyseqalign/prolog/knowledge/blosum50.pl +0 -0
  24. {pyseqalignment-0.1.0 → pyseqalignment-0.1.1}/src/pyseqalign/prolog/knowledge/defaults.pl +0 -0
  25. {pyseqalignment-0.1.0 → pyseqalignment-0.1.1}/src/pyseqalign/prolog/knowledge/distances.pl +0 -0
  26. {pyseqalignment-0.1.0 → pyseqalignment-0.1.1}/src/pyseqalign/scoring/__init__.py +0 -0
  27. {pyseqalignment-0.1.0 → pyseqalignment-0.1.1}/src/pyseqalign/scoring/distance.py +0 -0
  28. {pyseqalignment-0.1.0 → pyseqalignment-0.1.1}/src/pyseqalign/scoring/matrices.py +0 -0
  29. {pyseqalignment-0.1.0 → pyseqalignment-0.1.1}/src/pyseqalign/scoring/matrix_data/BLOSUM100 +0 -0
  30. {pyseqalignment-0.1.0 → pyseqalignment-0.1.1}/src/pyseqalign/scoring/matrix_data/BLOSUM50 +0 -0
  31. {pyseqalignment-0.1.0 → pyseqalignment-0.1.1}/src/pyseqalign/scoring/matrix_data/BLOSUM60 +0 -0
  32. {pyseqalignment-0.1.0 → pyseqalignment-0.1.1}/src/pyseqalign/scoring/matrix_data/BLOSUM62 +0 -0
  33. {pyseqalignment-0.1.0 → pyseqalignment-0.1.1}/src/pyseqalign/scoring/matrix_data/BLOSUM70 +0 -0
  34. {pyseqalignment-0.1.0 → pyseqalignment-0.1.1}/src/pyseqalign/scoring/matrix_data/BLOSUM80 +0 -0
  35. {pyseqalignment-0.1.0 → pyseqalignment-0.1.1}/src/pyseqalign/scoring/matrix_data/BLOSUM90 +0 -0
  36. {pyseqalignment-0.1.0 → pyseqalignment-0.1.1}/src/pyseqalign/scoring/matrix_data/PAM150 +0 -0
  37. {pyseqalignment-0.1.0 → pyseqalignment-0.1.1}/src/pyseqalign/scoring/matrix_data/PAM200 +0 -0
  38. {pyseqalignment-0.1.0 → pyseqalignment-0.1.1}/src/pyseqalign/scoring/matrix_data/PAM250 +0 -0
  39. {pyseqalignment-0.1.0 → pyseqalignment-0.1.1}/src/pyseqalign/scoring/matrix_data/PAM50 +0 -0
  40. {pyseqalignment-0.1.0 → pyseqalignment-0.1.1}/src/pyseqalign/scoring/matrix_data/__init__.py +0 -0
  41. {pyseqalignment-0.1.0 → pyseqalignment-0.1.1}/src/pyseqalign/utils/__init__.py +0 -0
  42. {pyseqalignment-0.1.0 → pyseqalignment-0.1.1}/src/pyseqalign/utils/helpers.py +0 -0
  43. {pyseqalignment-0.1.0 → pyseqalignment-0.1.1}/src/pyseqalignment.egg-info/SOURCES.txt +0 -0
  44. {pyseqalignment-0.1.0 → pyseqalignment-0.1.1}/src/pyseqalignment.egg-info/dependency_links.txt +0 -0
  45. {pyseqalignment-0.1.0 → pyseqalignment-0.1.1}/src/pyseqalignment.egg-info/requires.txt +0 -0
  46. {pyseqalignment-0.1.0 → pyseqalignment-0.1.1}/src/pyseqalignment.egg-info/top_level.txt +0 -0
  47. {pyseqalignment-0.1.0 → pyseqalignment-0.1.1}/tests/test_learning.py +0 -0
  48. {pyseqalignment-0.1.0 → pyseqalignment-0.1.1}/tests/test_needleman_wunsch.py +0 -0
  49. {pyseqalignment-0.1.0 → pyseqalignment-0.1.1}/tests/test_scoring.py +0 -0
  50. {pyseqalignment-0.1.0 → pyseqalignment-0.1.1}/tests/test_smith_waterman.py +0 -0
  51. {pyseqalignment-0.1.0 → pyseqalignment-0.1.1}/tests/test_utils.py +0 -0
{pyseqalignment-0.1.0 → pyseqalignment-0.1.1}/PKG-INFO RENAMED
@@ -1,6 +1,6 @@
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  Metadata-Version: 2.4
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  Name: pyseqalignment
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- Version: 0.1.0
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+ Version: 0.1.1
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  Summary: pySeqAlign -- sequence alignment with Prolog-style distance functions and ILP learning
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  Author-email: Andreas Karwath <a.karwath@bham.ac.uk>
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  License-Expression: MIT
{pyseqalignment-0.1.0 → pyseqalignment-0.1.1}/pyproject.toml RENAMED
@@ -6,7 +6,7 @@ build-backend = "setuptools.build_meta"
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  # PyPI distribution name (the import package is `pyseqalign`; the name
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  # `pyseqalign` was blocked by PyPI's similarity guard vs. an existing project).
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  name = "pyseqalignment"
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- version = "0.1.0"
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+ version = "0.1.1"
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  description = "pySeqAlign -- sequence alignment with Prolog-style distance functions and ILP learning"
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  readme = "README.md"
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  license = "MIT"
{pyseqalignment-0.1.0 → pyseqalignment-0.1.1}/src/pyseqalign/learning/aleph_files/aleph_swi_ak.pl RENAMED
@@ -67,7 +67,10 @@ init(swi):-
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  dynamic(false/0),
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  dynamic(example/3),
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  assert((aleph_random(X):- I = 1000000, X is float(random(I-1))/float(I))),
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- arithmetic_function(inf/0), assert(inf(1e10)),
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+ % SWI 10 fix: 'is inf' is native float infinity; the old custom
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+ % arithmetic_function(inf/0) throws ("can only be used in a directive")
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+ % and aborts init(swi), leaving gc/system/etc. unasserted. Drop it.
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+ true,
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  assert((gc:- garbage_collect)),
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  assert((depth_bound_call(G,L):-
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  call_with_depth_limit(G,L,R),
{pyseqalignment-0.1.0 → pyseqalignment-0.1.1}/src/pyseqalignment.egg-info/PKG-INFO RENAMED
@@ -1,6 +1,6 @@
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  Metadata-Version: 2.4
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  Name: pyseqalignment
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- Version: 0.1.0
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+ Version: 0.1.1
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  Summary: pySeqAlign -- sequence alignment with Prolog-style distance functions and ILP learning
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  Author-email: Andreas Karwath <a.karwath@bham.ac.uk>
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  License-Expression: MIT
{pyseqalignment-0.1.0 → pyseqalignment-0.1.1}/LICENSE RENAMED
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{pyseqalignment-0.1.0 → pyseqalignment-0.1.1}/README.md RENAMED
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{pyseqalignment-0.1.0 → pyseqalignment-0.1.1}/setup.cfg RENAMED
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