dna-parser 0.2.0__tar.gz → 0.3.0__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.
- dna_parser-0.3.0/.github/workflows/CI.yml +174 -0
- dna_parser-0.3.0/.github/workflows/release.yml +201 -0
- {dna_parser-0.2.0 → dna_parser-0.3.0}/.gitignore +4 -1
- {dna_parser-0.2.0 → dna_parser-0.3.0}/Cargo.lock +177 -130
- {dna_parser-0.2.0 → dna_parser-0.3.0}/Cargo.toml +8 -4
- dna_parser-0.3.0/PKG-INFO +57 -0
- dna_parser-0.3.0/README.md +40 -0
- dna_parser-0.3.0/docs/about.md +55 -0
- dna_parser-0.3.0/docs/documentation.md +657 -0
- dna_parser-0.3.0/docs/index.md +39 -0
- dna_parser-0.3.0/docs/license.md +21 -0
- dna_parser-0.3.0/mkdocs.yml +17 -0
- {dna_parser-0.2.0 → dna_parser-0.3.0}/pyproject.toml +7 -3
- {dna_parser-0.2.0 → dna_parser-0.3.0}/python/dna_parser/__init__.py +1 -0
- dna_parser-0.3.0/python/dna_parser/call_functions.py +73 -0
- dna_parser-0.3.0/python/dna_parser/tfidf_class.py +114 -0
- dna_parser-0.3.0/src/atomic_number.rs +162 -0
- dna_parser-0.3.0/src/chaos_game.rs +245 -0
- dna_parser-0.3.0/src/cross.rs +166 -0
- dna_parser-0.3.0/src/dna_walk.rs +256 -0
- dna_parser-0.3.0/src/eiip.rs +162 -0
- {dna_parser-0.2.0 → dna_parser-0.3.0}/src/fasta_files.rs +14 -11
- dna_parser-0.3.0/src/fickett.rs +209 -0
- {dna_parser-0.2.0 → dna_parser-0.3.0}/src/kmers.rs +1 -1
- dna_parser-0.3.0/src/lib.rs +74 -0
- dna_parser-0.3.0/src/onehot.rs +165 -0
- {dna_parser-0.2.0 → dna_parser-0.3.0}/src/random_sequence.rs +4 -31
- dna_parser-0.3.0/src/real.rs +164 -0
- dna_parser-0.3.0/src/tfidf.rs +124 -0
- {dna_parser-0.2.0 → dna_parser-0.3.0}/src/utils/mod.rs +14 -19
- dna_parser-0.3.0/src/zcurve.rs +266 -0
- dna_parser-0.3.0/tests/seq_test.fasta +6 -0
- dna_parser-0.3.0/tests/test_atomic.py +51 -0
- dna_parser-0.3.0/tests/test_chaos.py +64 -0
- dna_parser-0.3.0/tests/test_cross.py +54 -0
- dna_parser-0.3.0/tests/test_dna_walk.py +63 -0
- dna_parser-0.3.0/tests/test_eiip.py +51 -0
- dna_parser-0.3.0/tests/test_fasta.py +54 -0
- dna_parser-0.3.0/tests/test_fickett.py +43 -0
- dna_parser-0.3.0/tests/test_onehot.py +54 -0
- dna_parser-0.3.0/tests/test_real.py +55 -0
- dna_parser-0.3.0/tests/test_tfidf.py +65 -0
- dna_parser-0.3.0/tests/test_zcurve.py +67 -0
- dna_parser-0.2.0/.github/workflows/CI.yml +0 -54
- dna_parser-0.2.0/.github/workflows/release.yml +0 -68
- dna_parser-0.2.0/PKG-INFO +0 -179
- dna_parser-0.2.0/README.md +0 -167
- dna_parser-0.2.0/python/dna_parser/call_functions.py +0 -21
- dna_parser-0.2.0/run-maturin-action.sh +0 -16
- dna_parser-0.2.0/src/cross.rs +0 -226
- dna_parser-0.2.0/src/lib.rs +0 -50
- dna_parser-0.2.0/src/onehot.rs +0 -223
- dna_parser-0.2.0/src/ordinal.rs +0 -221
- dna_parser-0.2.0/src/tfidf.rs +0 -120
- {dna_parser-0.2.0 → dna_parser-0.3.0}/LICENSE +0 -0
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- name: Upload wheels
|
|
118
|
+
uses: actions/upload-artifact@v4
|
|
119
|
+
with:
|
|
120
|
+
name: wheels-windows-${{ matrix.platform.target }}
|
|
121
|
+
path: dist
|
|
122
|
+
|
|
123
|
+
macos:
|
|
124
|
+
runs-on: ${{ matrix.platform.runner }}
|
|
125
|
+
strategy:
|
|
126
|
+
matrix:
|
|
127
|
+
platform:
|
|
128
|
+
- runner: macos-13
|
|
129
|
+
target: x86_64
|
|
130
|
+
- runner: macos-14
|
|
131
|
+
target: aarch64
|
|
132
|
+
steps:
|
|
133
|
+
- uses: actions/checkout@v4
|
|
134
|
+
- uses: actions/setup-python@v5
|
|
135
|
+
with:
|
|
136
|
+
python-version: |
|
|
137
|
+
3.9
|
|
138
|
+
3.10
|
|
139
|
+
3.11
|
|
140
|
+
3.12
|
|
141
|
+
3.13.1
|
|
142
|
+
- name: Build wheels
|
|
143
|
+
uses: PyO3/maturin-action@v1
|
|
144
|
+
with:
|
|
145
|
+
target: ${{ matrix.platform.target }}
|
|
146
|
+
args: --release --out dist -i 3.9 3.10 3.11 3.12 3.13
|
|
147
|
+
sccache: 'true'
|
|
148
|
+
- name: Upload wheels
|
|
149
|
+
uses: actions/upload-artifact@v4
|
|
150
|
+
with:
|
|
151
|
+
name: wheels-macos-${{ matrix.platform.target }}
|
|
152
|
+
path: dist
|
|
153
|
+
|
|
154
|
+
sdist:
|
|
155
|
+
runs-on: ubuntu-latest
|
|
156
|
+
steps:
|
|
157
|
+
- uses: actions/checkout@v4
|
|
158
|
+
- name: Build sdist
|
|
159
|
+
uses: PyO3/maturin-action@v1
|
|
160
|
+
with:
|
|
161
|
+
command: sdist
|
|
162
|
+
args: --out dist
|
|
163
|
+
- name: Upload sdist
|
|
164
|
+
uses: actions/upload-artifact@v4
|
|
165
|
+
with:
|
|
166
|
+
name: wheels-sdist
|
|
167
|
+
path: dist
|
|
168
|
+
|
|
169
|
+
|
|
170
|
+
release:
|
|
171
|
+
name: Release
|
|
172
|
+
runs-on: ubuntu-latest
|
|
173
|
+
if: ${{ startsWith(github.ref, 'refs/tags/') || github.event_name == 'workflow_dispatch' }}
|
|
174
|
+
needs: [linux, musllinux, windows, macos, sdist]
|
|
175
|
+
permissions:
|
|
176
|
+
# Use to sign the release artifacts
|
|
177
|
+
id-token: write
|
|
178
|
+
# Used to upload release artifacts
|
|
179
|
+
contents: write
|
|
180
|
+
# Used to generate artifact attestation
|
|
181
|
+
attestations: write
|
|
182
|
+
steps:
|
|
183
|
+
- uses: actions/download-artifact@v4
|
|
184
|
+
- name: Generate artifact attestation
|
|
185
|
+
uses: actions/attest-build-provenance@v1
|
|
186
|
+
with:
|
|
187
|
+
subject-path: 'wheels-*/*'
|
|
188
|
+
- name: Publish to PyPI
|
|
189
|
+
if: ${{ startsWith(github.ref, 'refs/tags/') }}
|
|
190
|
+
uses: PyO3/maturin-action@v1
|
|
191
|
+
env:
|
|
192
|
+
MATURIN_PYPI_TOKEN: ${{ secrets.PYPI_API_TOKEN }}
|
|
193
|
+
with:
|
|
194
|
+
command: upload
|
|
195
|
+
args: --non-interactive --skip-existing wheels-*/*
|
|
196
|
+
- name: Upload to GitHub Release
|
|
197
|
+
uses: softprops/action-gh-release@v1
|
|
198
|
+
with:
|
|
199
|
+
files: |
|
|
200
|
+
wasm-wheels/*.whl
|
|
201
|
+
prerelease: ${{ contains(github.ref, 'alpha') || contains(github.ref, 'beta') }}
|