Commits · 371d1a50bff0db321bd3d442414dd882ddf894ad · Martin Larralde / PyHMMER · GitLab

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Oct 08, 2024
- Make `TopHits` generic over the query type · 371d1a50
  Martin Larralde authored 5 months ago
  
  371d1a50
- Require a query when creating a `TopHits` object · af126fbb
  Martin Larralde authored 5 months ago
  
  af126fbb
Oct 07, 2024
- Add type annotations for `TopHits.query` property · e444ee4b
  Martin Larralde authored 5 months ago
  
  e444ee4b
- Fix recording of query in `TopHits` obtained from a daemon `Client` · eb94ef97
  Martin Larralde authored 5 months ago
  
  eb94ef97
- Update `TopHits` to reference the query it was created with · 40c1cfed
  Martin Larralde authored 5 months ago
  
  40c1cfed
Jul 18, 2024
- Fix outdated SSH key type in `package.yml` Actions workflow [ci skip] · e8f254c8
  Martin Larralde authored 8 months ago
  
  e8f254c8
Jul 16, 2024
- Fix styling of logo in dark-mode in documentation index [ci skip] · 1584d40d
  Martin Larralde authored 8 months ago
  
  1584d40d
- Add explicit module names to API reference section of the docs [ci skip] · b8e84e20
  Martin Larralde authored 8 months ago
  
  b8e84e20
- Fix permissions in `package.yml` Actions workflow [ci skip] · 1892211c
  Martin Larralde authored 8 months ago
  
  1892211c
- Fix SSH deployment to AUR [ci skip] · 64c993be
  Martin Larralde authored 8 months ago
  
  64c993be
- Release v0.10.14 · 580f8842
  Martin Larralde authored 8 months ago
  
  v0.10.14
  
  580f8842
- Fix inverted titles in HMMER section of API reference [ci skip] · 0d64caf2
  Martin Larralde authored 8 months ago
  
  0d64caf2
- Update symlink to latest benchmark [ci skip] · 91c16f80
  Martin Larralde authored 8 months ago
  
  91c16f80
- Merge branch 'docs-pydata' · b4042058
  Martin Larralde authored 8 months ago
  
  b4042058
- Fix remaining issues in documentation [ci skip] · 9bb027ea
  Martin Larralde authored 8 months ago
  
  9bb027ea
- Add `favicon` to website [ci skip] · 522ef649
  Martin Larralde authored 8 months ago
  
  522ef649
- Fix missing `__init__` signatures for most Cython types · 1a82b0aa
  Martin Larralde authored 8 months ago
  
  1a82b0aa
- Fix some remaining issues in Sphinx documentation [ci skip] · aed6b51b
  Martin Larralde authored 8 months ago
  
  aed6b51b
- Add logo and copyright links to documentation [ci skip] · 6523fb9a
  Martin Larralde authored 8 months ago
  
  6523fb9a
Jul 15, 2024
- Fix broken references in `pyhmmer` docstrings [ci skip] · bca6571c
  Martin Larralde authored 8 months ago
  
  bca6571c
- Add copyright notice section with Easel and HMMER licensing [ci skip] · b800eb70
  Martin Larralde authored 8 months ago
  
  b800eb70
- Update related project cards in documentation [ci skip] · 1ca2f031
  Martin Larralde authored 8 months ago
  
  1ca2f031
Jul 10, 2024
- Update documentation index to show related packages [ci skip] · e7be21bd
  Martin Larralde authored 8 months ago
  
  e7be21bd
- Add benchmarks for latest version [ci skip] · cb0623dc
  Martin Larralde authored 8 months ago
  
  cb0623dc
- Use `sphinx-design` to summarize features in docs [ci skip] · 0ec1eefd
  Martin Larralde authored 8 months ago
  
  0ec1eefd
- Remove import of `sphinx-bootstrap-theme` in docs [ci skip] · 4efc69b6
  Martin Larralde authored 8 months ago
  
  4efc69b6
- Expand new documentation [ci skip] · ed8536c9
  Martin Larralde authored 8 months ago
  
  ed8536c9
- Fix missing `api/hmmer/iter.rst` file and update styles · 945ee23e
  Martin Larralde authored 8 months ago
  
  945ee23e
- Reorganize documentation to use the PyData theme · e9b8d526
  Martin Larralde authored 8 months ago
  
  e9b8d526
Jul 09, 2024
- Drop packaging for PyPy to reduce project size on PyPI · 041356e5
  Martin Larralde authored 8 months ago
  
  041356e5
- Implement detection of SSE flush modes in `setup.py` · 915ac0c5
  Martin Larralde authored 8 months ago
  
  915ac0c5
Jun 19, 2024
- Fix resource links in `fetchmgs.ipynb` example notebook · 04a516b1
  Martin Larralde authored 9 months ago
  
  04a516b1
- Release v0.10.13 · 4be5996e
  Martin Larralde authored 9 months ago
  
  v0.10.13
  
  4be5996e
Jun 06, 2024
- Avoid calling `fclose` with `NULL` file in `Sequence.write` and `MSA.write` · 9839c8c4
  Martin Larralde authored 9 months ago
  
  9839c8c4
- Make `HMMFile` and `HMMPressedFile` raise `AlphabetMismatch` on files with mixed alphabets · 8b41a59a
  Martin Larralde authored 9 months ago
  
  8b41a59a
- Update `AlphabetMismatch` error to allow for an unknown actual alphabet · c23e798c
  Martin Larralde authored 9 months ago
  
  c23e798c
Apr 25, 2024
- Release v0.10.12 · 735ec14a
  Martin Larralde authored 10 months ago
  
  v0.10.12
  
  735ec14a
- Update `test.yml` Actions workflow to use `macos-12` runner image · b5be2e41
  Martin Larralde authored 10 months ago
  
  b5be2e41
- Fix bug with model composition and cutoffs in `HMM.__setstate__` (#67) · 7b1ffb83
  Martin Larralde authored 10 months ago
  
  7b1ffb83
Apr 20, 2024
- Replace `t2pks.hmm` with `RREFam` in documentation [ci skip] · c5234e58
  Martin Larralde authored 11 months ago
  
  c5234e58