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| -rw-r--r-- | var/spack/repos/builtin/packages/py-atropos/package.py | 26 |
1 files changed, 26 insertions, 0 deletions
diff --git a/var/spack/repos/builtin/packages/py-atropos/package.py b/var/spack/repos/builtin/packages/py-atropos/package.py new file mode 100644 index 0000000000..2e92394a75 --- /dev/null +++ b/var/spack/repos/builtin/packages/py-atropos/package.py @@ -0,0 +1,26 @@ +# Copyright 2013-2019 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 PyAtropos(PythonPackage): + """Atropos is tool for specific, sensitive, and speedy trimming of NGS + reads. It is a fork of the venerable Cutadapt read trimmer.""" + + homepage = "https://atropos.readthedocs.io" + url = "https://pypi.io/packages/source/a/atropos/atropos-1.1.22.tar.gz" + git = "https://github.com/jdidion/atropos.git" + + version('1.1.22', sha256='05e40cb9337421479c692e1154b962fbf811d7939b72c197a024929b7ae88b78') + + depends_on('python@3.3:', type=('build', 'run')) + depends_on('py-setuptools', type=('build', 'run')) + depends_on('py-cython@0.25.2:', type='build') + depends_on('py-tqdm', type=('build', 'run'), when='+tqdm') + depends_on('py-pysam', type=('build', 'run'), when='+pysam') + + variant('tqdm', default=False, description='Enable progress bar') + variant('pysam', default=False, description='Enable bam file parsing') |