Commits · 011305c64f3c51a28e5ae8afa5edfd4050b8e41a · Martin Larralde / pyhmmer · GitLab

21 Jun, 2022 1 commit
- Remove `arm64` compilation flags from OSX in `setup.py` · 011305c6
  Martin Larralde authored Jun 21, 2022
  
  011305c6
20 Jun, 2022 1 commit
- Setup parallel compilation of vendored C libraries · 666967bc
  Martin Larralde authored Jun 20, 2022
  
  666967bc
19 Apr, 2022 2 commits
- Rename `hmmpgmd` module to more intuitive `daemon` module · e8dfd296
  Martin Larralde authored Apr 20, 2022
  
  e8dfd296
- Add the `hmmpgmd` module implementing the `hmmc2` client · 4d0de49f
  Martin Larralde authored Apr 19, 2022
  
  4d0de49f
18 Oct, 2021 1 commit
- Update `plan7.Cutoffs` to allow setting the cutoffs of an `HMM` or a `Profile` · 34a1d097
  Martin Larralde authored Oct 18, 2021
  
  34a1d097
08 Oct, 2021 1 commit
- Allow opening a `SequenceFile` directly from a file-like object · fbe00e61
  Martin Larralde authored Oct 08, 2021
  
  fbe00e61
23 Aug, 2021 1 commit
- Expose the Python version for which the extensions are compiled in `setup.py` · 22c92e4f
  Martin Larralde authored Aug 23, 2021
  
  22c92e4f
18 Jul, 2021 1 commit
- Enable Cython debugging symbols when compiling extensions with `--debug` flag · 9bf9fc97
  Martin Larralde authored Jul 19, 2021
  
  9bf9fc97
01 Jul, 2021 1 commit
- Make `python setup.py configure` actually check compiler supports SSE or VMX · 508d149c
  Martin Larralde authored Jul 01, 2021
  
  508d149c
12 Jun, 2021 1 commit
- Manually pass static libraries as extra link objects in `build_ext` command of `setup.py` · 1cb1d195
  Martin Larralde authored Jun 12, 2021
  
  1cb1d195
09 Mar, 2021 2 commits
- Fix typo in `setup.py` preventing compilation on OSX platforms · d018844e
  Martin Larralde authored Mar 09, 2021
  
  d018844e
- Use `-Og` instead of `-O0` when compiling libraries and extensions in debug mode · 7583990a
  Martin Larralde authored Mar 09, 2021
  
  7583990a
08 Mar, 2021 1 commit
- Make extensions in `setup.py` use the include dirs of their library dependencies · 378e5165
  Martin Larralde authored Mar 08, 2021
  
  378e5165
03 Mar, 2021 1 commit
- Add GitHub Actions workflow to build on Linux and OSX · db7ccc90
  Martin Larralde authored Mar 03, 2021
  
  db7ccc90
02 Dec, 2020 1 commit
- Expose `sys.implementation` as a Cython compile-time variable · e6615db8
  Martin Larralde authored Dec 02, 2020
  
  e6615db8
28 Nov, 2020 1 commit
- Fix `setup.py` to avoid copying all vendored sources · 1f86f098
  Martin Larralde authored Nov 28, 2020
  
  1f86f098
26 Nov, 2020 3 commits
- Make `p7_hmmfile` patch in `setup.py` work with cached files · c31d2876
  Martin Larralde authored Nov 26, 2020
  
  c31d2876
- Fix patching of `p7_hmmfile.c` in `setup.py` · d26ea76f
  Martin Larralde authored Nov 26, 2020
  
  d26ea76f
- Allow opening a `HMMFile` from a Python file-handle instead of a path · ca5be952
  Martin Larralde authored Nov 26, 2020
  
  ca5be952
22 Nov, 2020 2 commits
- Rewrite `iotools` phony module as simple Cython includable files · 14bcc0fb
  Martin Larralde authored Nov 22, 2020
  
  14bcc0fb
- Add the `pyhmmer.iotools` extension to create a `FILE*` from a Python object · e94e5a1b
  Martin Larralde authored Nov 22, 2020
  
  e94e5a1b
12 Nov, 2020 5 commits
- Make `setup.py configure` define `WORDS_BIGENDIAN` on big-endian platforms · 9967bed5
  Martin Larralde authored Nov 12, 2020
  
  9967bed5
- Fix `AMD64` not being accepted as a SSE platform on Windows · dbdb23a6
  Martin Larralde authored Nov 12, 2020
  
  dbdb23a6
- Enforce big-endian PowerPC when compiling for `ppc` CPUs · bf15f5b9
  Martin Larralde authored Nov 12, 2020
  
  bf15f5b9
- Fix `libhmmer` always expecting SSE in Cython headers [skip appveyor] · 16ac823c
  Martin Larralde authored Nov 12, 2020
  
  16ac823c
- Add PowerPC-specific Cython headers for HMMER [skip appveyor] · 5d744c19
  Martin Larralde authored Nov 12, 2020
  
  5d744c19
11 Nov, 2020 6 commits
- Attempt building for PowerPC arch in Travis-CI [skip appveyor] · e6d59428
  Martin Larralde authored Nov 11, 2020
  
  e6d59428
- Exclude test and doc files from vendored folder in source distribution · ed236cbd
  Martin Larralde authored Nov 11, 2020
  
  ed236cbd
- Use OS-agnostic paths in `setup.py` to collect C source files · 2f95daf7
  Martin Larralde authored Nov 11, 2020
  
  2f95daf7
- Implement `autoconf`-style command in `setup.py` to generate C headers · c1467e49
  Martin Larralde authored Nov 11, 2020
  
  c1467e49
- Properly implement compiler check for certain headers in `setup.py` · 2bfc2059
  Martin Larralde authored Nov 11, 2020
  
  2bfc2059
- Add experimental patch to build with Python instead of `autotools` · ab956087
  Martin Larralde authored Nov 11, 2020
  
  ab956087
10 Nov, 2020 3 commits
- Attempt fixing broken builds on Windows · 6cd4818d
  Martin Larralde authored Nov 10, 2020
  
  6cd4818d
- Add more optimization directives when not compiling in debug mode · ad76b1cd
  Martin Larralde authored Nov 10, 2020
  
  ad76b1cd
- Rework `setup.py` so that cythonizing only happend in `build_ext` command · 94d6f838
  Martin Larralde authored Nov 10, 2020
  
  94d6f838
08 Nov, 2020 1 commit
- Rename `pyhmmer.hmmer` extension to `pyhmmer.plan7` and drop `P7` prefix · e58f3dfe
  Martin Larralde authored Nov 08, 2020
  
  e58f3dfe
04 Nov, 2020 1 commit
- Rewrite `setup.py` to declare libraries using `setuptools.extension.Library` · c97eb97c
  Martin Larralde authored Nov 04, 2020
  
  c97eb97c
02 Nov, 2020 3 commits
- Run make in verbose mode when running `build_clib --verbose` · 3ca6ff02
  Martin Larralde authored Nov 02, 2020
  
  3ca6ff02
- Fix issue in `setup.py` preventing `build_ext` from finding a compiler · 0025e219
  Martin Larralde authored Nov 02, 2020
  
  0025e219
- Rewrite `setup.py` to build libraries using `build_clib` · ec65ea4f
  Martin Larralde authored Nov 02, 2020
  
  ec65ea4f