Commits · 0592817cfe5e1221bf2162717f39dd12306eebf0 · Martin Larralde / PyFastANI · GitLab

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Aug 03, 2022
- Make `_Map` deallocate the compute map when garbage collected · 0592817c
  Martin Larralde authored 2 years ago
  
  0592817c
- Reorganize `Mapper` code and remove unneeded arguments · d1e2636c
  Martin Larralde authored 2 years ago
  
  d1e2636c
- Rewrite `Mapper` methods so that `Mapper._query_fragment` can be parallelized · 4b3abeac
  Martin Larralde authored 2 years ago
  
  4b3abeac
- Add an `atomic_vector` wrapper for `vector` where `push_back` is thread-safe · c3ce403d
  Martin Larralde authored 2 years ago
  
  c3ce403d
Jul 23, 2022
- Fix Arm NEON compile flags in `setup.py` · 8558fda7
  Martin Larralde authored 2 years ago
  
  8558fda7
Jul 22, 2022
- Fix `check` step of `PKGBUILD` [ci skip] · ee34237b
  Martin Larralde authored 2 years ago
  
  ee34237b
- Fix include guards in `sequtils.cpp` to compile for Arm platforms · fb18bcfe
  Martin Larralde authored 2 years ago
  
  fb18bcfe
- Fix AUR package name in `package.yml` workflow [ci skip] · 62f72976
  Martin Larralde authored 2 years ago
  
  62f72976
- Fix references in some `Sketch` method docstrings [ci skip] · 1c5e04fa
  Martin Larralde authored 2 years ago
  
  1c5e04fa
- Release v0.3.1 · b58006bd
  Martin Larralde authored 2 years ago
  
  v0.3.1
  
  b58006bd
- Add links and documentation to install the package with `conda` · fab635f2
  Martin Larralde authored 2 years ago
  
  fab635f2
Jul 18, 2022
- Add Python 3.10 to the Python versions supported in `setup.cfg` · c3ec0bef
  Martin Larralde authored 2 years ago
  
  c3ec0bef
- Fix badges and text in Sphinx documentation [ci skip] · 0914f3ca
  Martin Larralde authored 2 years ago
  
  0914f3ca
- Configure `package.yml` Actions workflow to release an Arch User Repository `PKGBUILD` · 7bd2e9da
  Martin Larralde authored 2 years ago
  
  7bd2e9da
- Fix project short description in `setup.cfg` [ci skip] · 51212d57
  Martin Larralde authored 2 years ago
  
  51212d57
- Add Sphinx configuration files to build the project documentation · 0be30707
  Martin Larralde authored 2 years ago
  
  0be30707
- Improve some parts of the `pyfastani` class documentation · 507020f9
  Martin Larralde authored 2 years ago
  
  507020f9
- Fix name of headers included in `sequtils.h` · 32525ab4
  Martin Larralde authored 2 years ago
  
  32525ab4
- Import all public classes to the main `pyfastani` module · db264304
  Martin Larralde authored 2 years ago
  
  db264304
Jul 17, 2022
- Release v0.3.0 · 28036437
  Martin Larralde authored 2 years ago
  
  v0.3.0
  
  28036437
- Fix `package.yml` workflow not updating `setuptools` before testing wheels · fae4a843
  Martin Larralde authored 2 years ago
  
  fae4a843
- 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 3 years ago
  
  9838cfad
Mar 23, 2022
- Update `Mapper._query_draft` to recycle memory between fragments · f831dfcd
  Martin Larralde authored 3 years ago
  
  f831dfcd
- Disable Boost exception handling in `setup.py` · 4a588d8d
  Martin Larralde authored 3 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