Commits · 072af0daeb67620234669e5ce7ade7f19f551750 · Martin Larralde / PyFastANI · GitLab

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Jul 17, 2022
- Reorganize storage of test data in `pyfastani.tests.data` module · 072af0da
  Martin Larralde authored 2 years ago
  
  072af0da
- Add `Boost` licensing information to `README.md` · decc43a2
  Martin Larralde authored 2 years ago
  
  decc43a2
- Remove steps for installing `Boost::math` in Actions workflows · f277b1b1
  Martin Larralde authored 2 years ago
  
  f277b1b1
- Fix `BOOST_IF_CONSTEXPR` macro not being defined in Linux builds · 98382fc2
  Martin Larralde authored 2 years ago
  
  98382fc2
- Test source distribution in `package.yml` Actions before deploying to PyPI · a7ff7b4d
  Martin Larralde authored 2 years ago
  
  a7ff7b4d
- Add `Boost::math` headers to source distribution files · 491b10b5
  Martin Larralde authored 2 years ago
  
  491b10b5
- Use `v1.79` of `Boost:math` in vendored dependencies · f43d94d4
  Martin Larralde authored 2 years ago
  
  f43d94d4
- Add a stub symbol for the unneeded `gzopen` function in `pyfastani/_utils.cpp` · 90859b89
  Martin Larralde authored 2 years ago
  
  90859b89
- Add path to `Boost::math` headers when compiling `pyfastani._fastani` · 34c07e53
  Martin Larralde authored 2 years ago
  
  34c07e53
- Add `Boost::math` sources as a `git` submodule · e188a100
  Martin Larralde authored 2 years ago
  
  e188a100
Jul 16, 2022
- Patch compilation steps in `setup.py` to avoid building universal wheels on OSX · 333f75d2
  Martin Larralde authored 2 years ago
  
  333f75d2
- Update Python versions used to build and release package to PyPI · 60fb73fc
  Martin Larralde authored 2 years ago
  
  60fb73fc
- Add dedicated collection to access the minimizers of a `Mapper` or `Sketch` · 45d8a6a5
  Martin Larralde authored 2 years ago
  
  45d8a6a5
Mar 24, 2022
- Test the number of minimizers extracted from FastANI reference genomes · 9838cfad
  Martin Larralde authored 2 years ago
  
  9838cfad
Mar 23, 2022
- Update `Mapper._query_draft` to recycle memory between fragments · f831dfcd
  Martin Larralde authored 2 years ago
  
  f831dfcd
- Disable Boost exception handling in `setup.py` · 4a588d8d
  Martin Larralde authored 2 years ago
  
  4a588d8d
Mar 17, 2022
- Update `sse2_copy_upper` to use a single bitmask · f7afa594
  Martin Larralde authored 3 years ago
  
  f7afa594
Nov 16, 2021
- Fix `scikit-bio` example in `README.md` [ci skip] · b32a0c40
  Martin Larralde authored 3 years ago
  
  b32a0c40
Nov 15, 2021
- Fix `MinimizerIndex.__reduce__` not being compatible with older Python versions · cfe2819b
  Martin Larralde authored 3 years ago
  
  cfe2819b
- Add property to access the index of a `Mapper` minimizer positions · 4fa36ad1
  Martin Larralde authored 3 years ago
  
  4fa36ad1
- Add unit tests for protein-mode ANI using homologous BGCs from MIBiG · 0274126e
  Martin Larralde authored 3 years ago
  
  0274126e
- Use the C-API in `Sketch.minimizers` to allocate a list of the right size · 98f1104a
  Martin Larralde authored 3 years ago
  
  98f1104a
- Add support for using `Sketch` and `Mapper` with protein sequences · 82084d21
  Martin Larralde authored 3 years ago
  
  82084d21
Jul 11, 2021
- Use simple tuple serialization to pickle minimizers in `Mapper` · c064eee4
  Martin Larralde authored 3 years ago
  
  c064eee4
Jul 10, 2021
- Add tests to make sure results are consistent through pickling · 0cf1e94a
  Martin Larralde authored 3 years ago
  
  0cf1e94a
- Implement `__getstate__` and `__setstate__` for `Sketch` and `Mapper` · e1f5201d
  Martin Larralde authored 3 years ago
  
  e1f5201d
- Implement `__getstate__` and `__setstate__` for `Hit` and `MinimizerInfo` · f74fa347
  Martin Larralde authored 3 years ago
  
  f74fa347
- Add a property to access the minimizers of `Sketch` or `Mapper` · 2642ca11
  Martin Larralde authored 3 years ago
  
  2642ca11
Jun 20, 2021
- Make classes final and prevent direct instantiation of `Mapper` · dc7f482f
  Martin Larralde authored 3 years ago
  
  dc7f482f
- Release v0.2.1 · 0f388a0f
  Martin Larralde authored 3 years ago
  
  v0.2.1
  
  0f388a0f
- Add missing Cython headers to source distribution · 3f0c75a3
  Martin Larralde authored 3 years ago
  
  3f0c75a3
Jun 19, 2021
- Release v0.2.0 · f6b6dfa1
  Martin Larralde authored 3 years ago
  
  v0.2.0
  
  f6b6dfa1
- Fix missing defines in compilation of `cpu_features` library · 33cd43de
  Martin Larralde authored 3 years ago
  
  33cd43de
- Update `MANIFEST.in` to vendor the `cpu_features` sources · 7acb214b
  Martin Larralde authored 3 years ago
  
  7acb214b
- Fix invalid detection of x86_64 platform in `sequtils.c` · 918c7801
  Martin Larralde authored 3 years ago
  
  918c7801
- Fix typo with `reverse_complement` argument names being swapped in `sequtils.c` · 5beb83f6
  Martin Larralde authored 3 years ago
  
  5beb83f6
- Use Google's `cpu_features` for cross-platform runtime detection of CPU features · 838add64
  Martin Larralde authored 3 years ago
  
  838add64
- Update `.gitignore` and add missing C files · 445e044a
  Martin Larralde authored 3 years ago
  
  445e044a
- Rewrite `build_clib` command in `setup.py` to attempt compiling platform-specific code · fde8a9b8
  Martin Larralde authored 3 years ago
  
  fde8a9b8
- Reorganize platform-specific code to allow independent compiling · 3ce1a799
  Martin Larralde authored 3 years ago
  
  3ce1a799