dna-parser 0.3.0__tar.gz → 0.5.0__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 (90) hide show
  1. {dna_parser-0.3.0 → dna_parser-0.5.0}/.github/workflows/CI.yml +20 -18
  2. {dna_parser-0.3.0 → dna_parser-0.5.0}/.github/workflows/release.yml +20 -18
  3. dna_parser-0.5.0/Cargo.lock +715 -0
  4. {dna_parser-0.3.0 → dna_parser-0.5.0}/Cargo.toml +6 -3
  5. dna_parser-0.5.0/PKG-INFO +14 -0
  6. dna_parser-0.5.0/README.md +105 -0
  7. dna_parser-0.5.0/docs/encodings/atomic_number.md +58 -0
  8. dna_parser-0.5.0/docs/encodings/chaos_game.md +73 -0
  9. dna_parser-0.5.0/docs/encodings/cross.md +77 -0
  10. dna_parser-0.5.0/docs/encodings/dna_walk.md +79 -0
  11. dna_parser-0.5.0/docs/encodings/eiip.md +57 -0
  12. dna_parser-0.5.0/docs/encodings/encode.md +73 -0
  13. dna_parser-0.5.0/docs/encodings/fickett.md +45 -0
  14. dna_parser-0.5.0/docs/encodings/onehot.md +77 -0
  15. dna_parser-0.5.0/docs/encodings/real.md +55 -0
  16. dna_parser-0.5.0/docs/encodings/tfidf.md +311 -0
  17. dna_parser-0.5.0/docs/encodings/tokenizer.md +213 -0
  18. dna_parser-0.5.0/docs/encodings/z_curve.md +0 -0
  19. dna_parser-0.5.0/docs/index.md +103 -0
  20. dna_parser-0.5.0/docs/load_seq/SequenceReader.md +233 -0
  21. dna_parser-0.5.0/docs/load_seq/SequenceRecord.md +77 -0
  22. dna_parser-0.5.0/docs/others/insert_white.md +35 -0
  23. dna_parser-0.5.0/docs/others/kmers.md +43 -0
  24. dna_parser-0.5.0/docs/others/rand_seq.md +38 -0
  25. dna_parser-0.5.0/mkdocs.yml +88 -0
  26. {dna_parser-0.3.0 → dna_parser-0.5.0}/pyproject.toml +3 -3
  27. dna_parser-0.5.0/python/dna_parser/call_functions.py +14 -0
  28. dna_parser-0.5.0/python/dna_parser/tfidf_class.py +163 -0
  29. dna_parser-0.5.0/src/atomic_number.rs +117 -0
  30. dna_parser-0.5.0/src/chaos_game.rs +164 -0
  31. dna_parser-0.5.0/src/cross.rs +122 -0
  32. dna_parser-0.5.0/src/eiip.rs +117 -0
  33. dna_parser-0.5.0/src/encoding.rs +239 -0
  34. dna_parser-0.5.0/src/fastx.rs +176 -0
  35. {dna_parser-0.3.0 → dna_parser-0.5.0}/src/fickett.rs +42 -61
  36. dna_parser-0.5.0/src/kmers.rs +74 -0
  37. dna_parser-0.5.0/src/lib.rs +80 -0
  38. dna_parser-0.5.0/src/onehot.rs +125 -0
  39. {dna_parser-0.3.0 → dna_parser-0.5.0}/src/random_sequence.rs +2 -1
  40. dna_parser-0.5.0/src/real.rs +117 -0
  41. dna_parser-0.5.0/src/tfidf.rs +142 -0
  42. dna_parser-0.5.0/src/token_maps.rs +273 -0
  43. dna_parser-0.5.0/src/tokenizer.rs +389 -0
  44. dna_parser-0.5.0/src/utils/mod.rs +200 -0
  45. dna_parser-0.5.0/src/walk.rs +148 -0
  46. dna_parser-0.5.0/src/zcurve.rs +271 -0
  47. dna_parser-0.5.0/tests/seq_test.fasta.xz +0 -0
  48. dna_parser-0.5.0/tests/test_encoding.py +146 -0
  49. dna_parser-0.5.0/tests/test_fasta.py +79 -0
  50. dna_parser-0.5.0/tests/test_kmers.py +61 -0
  51. {dna_parser-0.3.0 → dna_parser-0.5.0}/tests/test_onehot.py +5 -5
  52. dna_parser-0.5.0/tests/test_tokenize.py +181 -0
  53. dna_parser-0.5.0/tests/test_zcurve.py +121 -0
  54. dna_parser-0.3.0/Cargo.lock +0 -497
  55. dna_parser-0.3.0/PKG-INFO +0 -57
  56. dna_parser-0.3.0/README.md +0 -40
  57. dna_parser-0.3.0/docs/documentation.md +0 -657
  58. dna_parser-0.3.0/docs/index.md +0 -39
  59. dna_parser-0.3.0/mkdocs.yml +0 -17
  60. dna_parser-0.3.0/python/dna_parser/call_functions.py +0 -73
  61. dna_parser-0.3.0/python/dna_parser/tfidf_class.py +0 -114
  62. dna_parser-0.3.0/src/atomic_number.rs +0 -162
  63. dna_parser-0.3.0/src/chaos_game.rs +0 -245
  64. dna_parser-0.3.0/src/cross.rs +0 -166
  65. dna_parser-0.3.0/src/dna_walk.rs +0 -256
  66. dna_parser-0.3.0/src/eiip.rs +0 -162
  67. dna_parser-0.3.0/src/fasta_files.rs +0 -126
  68. dna_parser-0.3.0/src/kmers.rs +0 -25
  69. dna_parser-0.3.0/src/lib.rs +0 -74
  70. dna_parser-0.3.0/src/onehot.rs +0 -165
  71. dna_parser-0.3.0/src/real.rs +0 -164
  72. dna_parser-0.3.0/src/tfidf.rs +0 -124
  73. dna_parser-0.3.0/src/utils/mod.rs +0 -88
  74. dna_parser-0.3.0/src/zcurve.rs +0 -266
  75. dna_parser-0.3.0/tests/test_fasta.py +0 -54
  76. dna_parser-0.3.0/tests/test_zcurve.py +0 -67
  77. {dna_parser-0.3.0 → dna_parser-0.5.0}/.gitignore +0 -0
  78. {dna_parser-0.3.0 → dna_parser-0.5.0}/LICENSE +0 -0
  79. {dna_parser-0.3.0/docs → dna_parser-0.5.0/docs/about}/about.md +0 -0
  80. {dna_parser-0.3.0/docs → dna_parser-0.5.0/docs/about}/license.md +0 -0
  81. {dna_parser-0.3.0 → dna_parser-0.5.0}/python/dna_parser/__init__.py +0 -0
  82. {dna_parser-0.3.0 → dna_parser-0.5.0}/tests/seq_test.fasta +0 -0
  83. {dna_parser-0.3.0 → dna_parser-0.5.0}/tests/test_atomic.py +0 -0
  84. {dna_parser-0.3.0 → dna_parser-0.5.0}/tests/test_chaos.py +0 -0
  85. {dna_parser-0.3.0 → dna_parser-0.5.0}/tests/test_cross.py +0 -0
  86. {dna_parser-0.3.0 → dna_parser-0.5.0}/tests/test_dna_walk.py +0 -0
  87. {dna_parser-0.3.0 → dna_parser-0.5.0}/tests/test_eiip.py +0 -0
  88. {dna_parser-0.3.0 → dna_parser-0.5.0}/tests/test_fickett.py +0 -0
  89. {dna_parser-0.3.0 → dna_parser-0.5.0}/tests/test_real.py +0 -0
  90. {dna_parser-0.3.0 → dna_parser-0.5.0}/tests/test_tfidf.py +0 -0
{dna_parser-0.3.0 → dna_parser-0.5.0}/.github/workflows/CI.yml RENAMED
@@ -41,16 +41,15 @@ jobs:
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- args: --release --out dist -i 3.9 3.10 3.11 3.12 3.13
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- args: --release --out dist -i 3.9 3.10 3.11 3.12 3.13
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  - name: Upload wheels
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  uses: actions/upload-artifact@v4
{dna_parser-0.3.0 → dna_parser-0.5.0}/.github/workflows/release.yml RENAMED
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+ - runner: macos-15
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- args: --release --out dist -i 3.9 3.10 3.11 3.12 3.13
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+ args: --release --strip --auditwheel=repair --out dist -i 3.11 3.12 3.13 3.14
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  sccache: 'true'
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  - name: Upload wheels
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  uses: actions/upload-artifact@v4