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| author | Miles Perry <37849532+Miles-Perry@users.noreply.github.com> | 2018-09-04 14:34:18 -0500 |
|---|---|---|
| committer | Adam J. Stewart <ajstewart426@gmail.com> | 2018-09-04 14:34:18 -0500 |
| commit | 447db2fe8d94c74b10c2dd6a1c952e735b091f04 (patch) | |
| tree | 85a31fbc316bdb35146437ccd18ea5acb8ea8d44 /var | |
| parent | e85f737d1f343afea36c53ebc20882521ffc4ae6 (diff) | |
| download | spack-447db2fe8d94c74b10c2dd6a1c952e735b091f04.tar.gz spack-447db2fe8d94c74b10c2dd6a1c952e735b091f04.tar.bz2 spack-447db2fe8d94c74b10c2dd6a1c952e735b091f04.tar.xz spack-447db2fe8d94c74b10c2dd6a1c952e735b091f04.zip | |
Feature/py pycogent New-Version (#9095)
* added py-pycogent
* flake8 edits
* added type=('build', 'run') to deps, changed py-matplotlib and mpi4py
* changed python min version to 2.6
* fixed cython to py-cython dep
* fixed mpi4py to py-mpi4py
* fixed py-sqlalchemy
* added 1.5.3 version
* fixed version 1.5.3 install
* changed deps names to reflect convention
* added variants
* changed download URL and added SHA256 hash
* fixed deps
* added github url for 1.5.3
* removed unneeded deps
* doesn't require py-setuptools
* fixed url and added py-setuptools specific to version 1.9
* fixed variant names and changed cython to normal dependency instead of variant
* removed cython dep, failed to build when it was present. Changed variant name 'mpi4py' to 'mpi' and changed sqlalchemy variant name to mpi
* fixed dependencies and added py-pymysql dep
* added setup-environment step
* changed download url for 1.5.3 to pypi
* fixed flake8 issue
* updated
* added changes
Diffstat (limited to 'var')
| -rw-r--r-- | var/spack/repos/builtin/packages/py-cogent/package.py | 22 |
1 files changed, 19 insertions, 3 deletions
diff --git a/var/spack/repos/builtin/packages/py-cogent/package.py b/var/spack/repos/builtin/packages/py-cogent/package.py index 2fb64fee08..cf910ae6d1 100644 --- a/var/spack/repos/builtin/packages/py-cogent/package.py +++ b/var/spack/repos/builtin/packages/py-cogent/package.py @@ -31,7 +31,23 @@ class PyCogent(PythonPackage): homepage = "http://pycogent.org" url = "https://pypi.io/packages/source/c/cogent/cogent-1.9.tar.gz" - version('1.9', '7d9f28cd17664c1cd18c568fc53060d6') + version('1.9', sha256='57d8c58e0273ffe4f2b907874f9b49dadfd0600f5507b7666369f4e44d56ce14') + version('1.5.3', url="https://pypi.io/packages/source/c/cogent/cogent-1.5.3.tgz", + sha256='1215ac219070b7b2207b0b47b4388510f3e30ccd88160aa9f02f25d24bcbcd95') - depends_on('py-setuptools', type='build') - depends_on('py-numpy', type=('build', 'run')) + variant('matplotlib', default=False, description="graphs related to codon usage") + variant('mpi', default=False, description='MPI required for parallel computation.') + variant('mysql', default=False, description='Required for the Ensembl querying code.') + + depends_on('py-setuptools', type=('build'), when='@1.9') + depends_on('python@2.6:2.999', type=('build', 'run')) + depends_on('py-numpy@1.3:', type=('build', 'run')) + depends_on('zlib') + depends_on('py-matplotlib', when='+matplotlib', type=('build', 'run')) + depends_on('py-mpi4py', when='+mpi', type=('build', 'run')) + depends_on('py-sqlalchemy', when='+mysql', type=('build', 'run')) + depends_on('py-pymysql', when='+mysql', type=('build', 'run')) + depends_on('py-cython@0.17.1:', type='build') + + def setup_environment(self, spack_env, run_env): + spack_env.set('DONT_USE_PYREX', '1') |