diff options
Diffstat (limited to 'var/spack/repos/builtin/packages/py-cogent/package.py')
| -rw-r--r-- | var/spack/repos/builtin/packages/py-cogent/package.py | 34 |
1 files changed, 34 insertions, 0 deletions
diff --git a/var/spack/repos/builtin/packages/py-cogent/package.py b/var/spack/repos/builtin/packages/py-cogent/package.py new file mode 100644 index 0000000000..00111650a3 --- /dev/null +++ b/var/spack/repos/builtin/packages/py-cogent/package.py @@ -0,0 +1,34 @@ +# Copyright 2013-2018 Lawrence Livermore National Security, LLC and other +# Spack Project Developers. See the top-level COPYRIGHT file for details. +# +# SPDX-License-Identifier: (Apache-2.0 OR MIT) + +from spack import * + + +class PyCogent(PythonPackage): + """A toolkit for statistical analysis of biological sequences.""" + + homepage = "http://pycogent.org" + url = "https://pypi.io/packages/source/c/cogent/cogent-1.9.tar.gz" + + version('1.9', sha256='57d8c58e0273ffe4f2b907874f9b49dadfd0600f5507b7666369f4e44d56ce14') + version('1.5.3', url="https://pypi.io/packages/source/c/cogent/cogent-1.5.3.tgz", + sha256='1215ac219070b7b2207b0b47b4388510f3e30ccd88160aa9f02f25d24bcbcd95') + + 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') |