webgestaltpy 0.2.0__tar.gz → 0.3.0__tar.gz

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Files changed (34) hide show
  1. {WebGestaltPy-0.2.0 → WebGestaltPy-0.3.0}/.github/workflows/CI.yml +1 -1
  2. {WebGestaltPy-0.2.0 → WebGestaltPy-0.3.0}/.github/workflows/doc.yaml +4 -2
  3. WebGestaltPy-0.3.0/.pre-commit-config.yaml +15 -0
  4. {WebGestaltPy-0.2.0 → WebGestaltPy-0.3.0}/Cargo.lock +44 -17
  5. {WebGestaltPy-0.2.0 → WebGestaltPy-0.3.0}/Cargo.toml +2 -2
  6. {WebGestaltPy-0.2.0 → WebGestaltPy-0.3.0}/PKG-INFO +2 -2
  7. WebGestaltPy-0.3.0/_typos.toml +2 -0
  8. {WebGestaltPy-0.2.0 → WebGestaltPy-0.3.0}/build_docs.py +1 -1
  9. WebGestaltPy-0.3.0/data/hsapiens_network_CPTAC_Proteomics_OV_entrezgene.net +6091 -0
  10. WebGestaltPy-0.3.0/data/net_genes.txt +50 -0
  11. {WebGestaltPy-0.2.0 → WebGestaltPy-0.3.0}/docs/Usage/index.md +12 -4
  12. WebGestaltPy-0.3.0/docs/data.tar.gz +0 -0
  13. WebGestaltPy-0.3.0/docs/index.md +15 -0
  14. {WebGestaltPy-0.2.0 → WebGestaltPy-0.3.0}/pyproject.toml +1 -0
  15. WebGestaltPy-0.3.0/requirements-dev.lock +114 -0
  16. {WebGestaltPy-0.2.0 → WebGestaltPy-0.3.0}/requirements.lock +2 -0
  17. {WebGestaltPy-0.2.0 → WebGestaltPy-0.3.0}/src/lib.rs +118 -9
  18. WebGestaltPy-0.3.0/test.py +29 -0
  19. WebGestaltPy-0.2.0/docs/data.tar.gz +0 -0
  20. WebGestaltPy-0.2.0/docs/index.md +0 -15
  21. WebGestaltPy-0.2.0/requirements-dev.lock +0 -48
  22. WebGestaltPy-0.2.0/test.py +0 -24
  23. {WebGestaltPy-0.2.0 → WebGestaltPy-0.3.0}/.gitignore +0 -0
  24. {WebGestaltPy-0.2.0 → WebGestaltPy-0.3.0}/README.md +0 -0
  25. {WebGestaltPy-0.2.0 → WebGestaltPy-0.3.0}/data/genelist.txt +0 -0
  26. {WebGestaltPy-0.2.0 → WebGestaltPy-0.3.0}/data/kegg.gmt +0 -0
  27. {WebGestaltPy-0.2.0 → WebGestaltPy-0.3.0}/data/reference.txt +0 -0
  28. {WebGestaltPy-0.2.0 → WebGestaltPy-0.3.0}/data/second_genelist.txt +0 -0
  29. {WebGestaltPy-0.2.0 → WebGestaltPy-0.3.0}/data/second_test.rnk +0 -0
  30. {WebGestaltPy-0.2.0 → WebGestaltPy-0.3.0}/data/test.rnk +0 -0
  31. {WebGestaltPy-0.2.0 → WebGestaltPy-0.3.0}/docs/assets/favicon-32x32.png +0 -0
  32. {WebGestaltPy-0.2.0 → WebGestaltPy-0.3.0}/docs/assets/logo.svg +0 -0
  33. {WebGestaltPy-0.2.0 → WebGestaltPy-0.3.0}/docs/overrides/main.html +0 -0
  34. {WebGestaltPy-0.2.0 → WebGestaltPy-0.3.0}/mkdocs.yml +0 -0
{WebGestaltPy-0.2.0 → WebGestaltPy-0.3.0}/.github/workflows/CI.yml RENAMED
@@ -154,5 +154,5 @@ jobs:
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  id: extract_branch
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  - name: Deploy with mike 🚀
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  run: |
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- git fetch origin gh-pagess
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+ git fetch origin gh-pages
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  mike deploy --update-aliases --push ${{ steps.extract_branch.outputs.branch }} latest
{WebGestaltPy-0.2.0 → WebGestaltPy-0.3.0}/.github/workflows/doc.yaml RENAMED
@@ -31,8 +31,10 @@ jobs:
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  - uses: PyO3/maturin-action@v1
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  with:
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  command: build
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- - run: pip install .
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- - run: python build_docs.py
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+ - name: Install package
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+ run: pip install .
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+ - name: Build documentation
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+ run: python build_docs.py
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  - name: Deploy with mike 🚀
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  run: |
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  git fetch origin gh-pages
WebGestaltPy-0.3.0/.pre-commit-config.yaml ADDED
@@ -0,0 +1,15 @@
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+ # See https://pre-commit.com for more information
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+ # See https://pre-commit.com/hooks.html for more hooks
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+ repos:
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+ - repo: https://github.com/crate-ci/typos
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+ rev: v1.22.7
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+ hooks:
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+ - id: typos
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+ - repo: local
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+ hooks:
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+ - id: rustfmt
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+ name: rustfmt
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+ description: Check if all files follow the rustfmt style
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+ entry: cargo fmt --all -- --check --color always
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+ language: system
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+ pass_filenames: false
{WebGestaltPy-0.2.0 → WebGestaltPy-0.3.0}/Cargo.lock RENAMED
@@ -219,6 +219,20 @@ dependencies = [
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  "syn 1.0.109",
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  ]
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+ [[package]]
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+ name = "ndarray"
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+ version = "0.15.6"
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+ source = "registry+https://github.com/rust-lang/crates.io-index"
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+ checksum = "adb12d4e967ec485a5f71c6311fe28158e9d6f4bc4a447b474184d0f91a8fa32"
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+ dependencies = [
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+ "matrixmultiply",
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+ "num-complex",
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+ "num-integer",
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+ "num-traits",
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+ "rawpointer",
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+ "rayon",
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+ ]
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+
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  [[package]]
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  name = "num-complex"
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  version = "0.4.4"
@@ -302,9 +316,9 @@ checksum = "5b40af805b3121feab8a3c29f04d8ad262fa8e0561883e7653e024ae4479e6de"
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  [[package]]
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  name = "proc-macro2"
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- version = "1.0.69"
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+ version = "1.0.85"
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  source = "registry+https://github.com/rust-lang/crates.io-index"
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- checksum = "134c189feb4956b20f6f547d2cf727d4c0fe06722b20a0eec87ed445a97f92da"
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+ checksum = "22244ce15aa966053a896d1accb3a6e68469b97c7f33f284b99f0d576879fc23"
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  dependencies = [
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  "unicode-ident",
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  ]
@@ -355,7 +369,7 @@ dependencies = [
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  "proc-macro2",
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  "pyo3-macros-backend",
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  "quote",
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- "syn 2.0.39",
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+ "syn 2.0.66",
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  ]
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  [[package]]
@@ -367,14 +381,14 @@ dependencies = [
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  "heck",
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  "proc-macro2",
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  "quote",
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- "syn 2.0.39",
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+ "syn 2.0.66",
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  ]
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  [[package]]
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  name = "quote"
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- version = "1.0.33"
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+ version = "1.0.36"
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  source = "registry+https://github.com/rust-lang/crates.io-index"
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- checksum = "5267fca4496028628a95160fc423a33e8b2e6af8a5302579e322e4b520293cae"
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+ checksum = "0fa76aaf39101c457836aec0ce2316dbdc3ab723cdda1c6bd4e6ad4208acaca7"
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  dependencies = [
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  "proc-macro2",
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  ]
@@ -483,22 +497,33 @@ checksum = "94143f37725109f92c262ed2cf5e59bce7498c01bcc1502d7b9afe439a4e9f49"
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  [[package]]
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  name = "serde"
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- version = "1.0.192"
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+ version = "1.0.203"
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  source = "registry+https://github.com/rust-lang/crates.io-index"
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- checksum = "bca2a08484b285dcb282d0f67b26cadc0df8b19f8c12502c13d966bf9482f001"
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+ checksum = "7253ab4de971e72fb7be983802300c30b5a7f0c2e56fab8abfc6a214307c0094"
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  dependencies = [
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  "serde_derive",
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  ]
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  name = "serde_derive"
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- version = "1.0.192"
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+ version = "1.0.203"
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  source = "registry+https://github.com/rust-lang/crates.io-index"
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- checksum = "d6c7207fbec9faa48073f3e3074cbe553af6ea512d7c21ba46e434e70ea9fbc1"
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+ checksum = "500cbc0ebeb6f46627f50f3f5811ccf6bf00643be300b4c3eabc0ef55dc5b5ba"
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  dependencies = [
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  "proc-macro2",
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  "quote",
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- "syn 2.0.39",
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+ "syn 2.0.66",
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+ ]
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+
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+ [[package]]
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+ name = "serde_json"
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+ version = "1.0.117"
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+ source = "registry+https://github.com/rust-lang/crates.io-index"
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+ checksum = "455182ea6142b14f93f4bc5320a2b31c1f266b66a4a5c858b013302a5d8cbfc3"
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+ dependencies = [
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+ "itoa",
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+ "ryu",
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+ "serde",
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  ]
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  [[package]]
@@ -546,9 +571,9 @@ dependencies = [
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  [[package]]
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  name = "syn"
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- version = "2.0.39"
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+ version = "2.0.66"
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  source = "registry+https://github.com/rust-lang/crates.io-index"
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- checksum = "23e78b90f2fcf45d3e842032ce32e3f2d1545ba6636271dcbf24fa306d87be7a"
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+ checksum = "c42f3f41a2de00b01c0aaad383c5a45241efc8b2d1eda5661812fda5f3cdcff5"
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  dependencies = [
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  "proc-macro2",
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  "quote",
@@ -593,21 +618,23 @@ checksum = "9c8d87e72b64a3b4db28d11ce29237c246188f4f51057d65a7eab63b7987e423"
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  [[package]]
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  name = "webgestalt_lib"
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- version = "0.2.0"
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+ version = "0.3.1"
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  source = "registry+https://github.com/rust-lang/crates.io-index"
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- checksum = "c25835d6a6fa0cdbf6164306c0aafa046f6af630dfbfd9ee0c1d2307e36cfb44"
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+ checksum = "0af63e3cbb1532cdfa4002ca11c961840c6dbeee6120911d55dcc165df0b3dbe"
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  dependencies = [
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  "ahash",
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  "csv",
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+ "ndarray",
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  "rand",
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  "rayon",
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  "serde",
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+ "serde_json",
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  "statrs",
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  ]
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  name = "webgestaltpy"
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- version = "0.2.0"
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+ version = "0.3.0"
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  dependencies = [
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  "pyo3",
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  "rustc-hash",
@@ -698,5 +725,5 @@ checksum = "c2f140bda219a26ccc0cdb03dba58af72590c53b22642577d88a927bc5c87d6b"
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  dependencies = [
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  "proc-macro2",
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  "quote",
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- "syn 2.0.39",
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+ "syn 2.0.66",
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  ]
{WebGestaltPy-0.2.0 → WebGestaltPy-0.3.0}/Cargo.toml RENAMED
@@ -1,6 +1,6 @@
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  [package]
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  name = "webgestaltpy"
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- version = "0.2.0"
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+ version = "0.3.0"
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  edition = "2021"
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  # See more keys and their definitions at https://doc.rust-lang.org/cargo/reference/manifest.html
@@ -11,4 +11,4 @@ crate-type = ["cdylib"]
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  [dependencies]
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  pyo3 = "0.20.2"
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  rustc-hash = "1.1.0"
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- webgestalt_lib = "0.2.0"
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+ webgestalt_lib = "0.3.1"
{WebGestaltPy-0.2.0 → WebGestaltPy-0.3.0}/PKG-INFO RENAMED
@@ -1,6 +1,6 @@
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- Metadata-Version: 2.1
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+ Metadata-Version: 2.3
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  Name: WebGestaltPy
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- Version: 0.2.0
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+ Version: 0.3.0
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  Classifier: Programming Language :: Rust
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  Classifier: Programming Language :: Python :: Implementation :: CPython
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  Classifier: Programming Language :: Python :: Implementation :: PyPy
WebGestaltPy-0.3.0/_typos.toml ADDED
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+ [files]
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+ extend-exclude = ["data/*"]
{WebGestaltPy-0.2.0 → WebGestaltPy-0.3.0}/build_docs.py RENAMED
@@ -19,7 +19,7 @@ ADJUSTED_HEADERS = ["#" * i for i in range(1, 7)]
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  ######################
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  OUTPUT_DIR = "docs/reference"
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- PRIORITY = ["ora", "meta_ora", "gsea", "meta_gsea"]
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+ PRIORITY = ["ora", "meta_ora", "gsea", "meta_gsea", "nta", "NTAMethod"]
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  SKIP = ["webgestaltpy"]
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