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| -rw-r--r-- | var/spack/repos/builtin/packages/py-pyani/package.py | 55 |
1 files changed, 55 insertions, 0 deletions
diff --git a/var/spack/repos/builtin/packages/py-pyani/package.py b/var/spack/repos/builtin/packages/py-pyani/package.py new file mode 100644 index 0000000000..fb7520342b --- /dev/null +++ b/var/spack/repos/builtin/packages/py-pyani/package.py @@ -0,0 +1,55 @@ +############################################################################## +# Copyright (c) 2013-2017, Lawrence Livermore National Security, LLC. +# Produced at the Lawrence Livermore National Laboratory. +# +# This file is part of Spack. +# Created by Todd Gamblin, tgamblin@llnl.gov, All rights reserved. +# LLNL-CODE-647188 +# +# For details, see https://github.com/spack/spack +# Please also see the NOTICE and LICENSE files for our notice and the LGPL. +# +# This program is free software; you can redistribute it and/or modify +# it under the terms of the GNU Lesser General Public License (as +# published by the Free Software Foundation) version 2.1, February 1999. +# +# This program is distributed in the hope that it will be useful, but +# WITHOUT ANY WARRANTY; without even the IMPLIED WARRANTY OF +# MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the terms and +# conditions of the GNU Lesser General Public License for more details. +# +# You should have received a copy of the GNU Lesser General Public +# License along with this program; if not, write to the Free Software +# Foundation, Inc., 59 Temple Place, Suite 330, Boston, MA 02111-1307 USA +############################################################################## +from spack import * + + +class PyPyani(PythonPackage): + """pyani is a Python3 module that provides support for calculating + average nucleotide identity (ANI) and related measures for whole genome + comparisons, and rendering relevant graphical summary output. Where + available, it takes advantage of multicore systems, and can integrate + with SGE/OGE-type job schedulers for the sequence comparisons.""" + + homepage = "http://widdowquinn.github.io/pyani" + url = "https://pypi.io/packages/source/p/pyani/pyani-0.2.7.tar.gz" + + version('0.2.7', '239ba630d375a81c35b7c60fb9bec6fa') + version('0.2.6', 'd5524b9a3c62c36063ed474ea95785c9') + + depends_on('python@3.5:') + depends_on('py-setuptools', type='build') + depends_on('py-matplotlib', type=('build', 'run')) + depends_on('py-seaborn', type=('build', 'run')) + + # Required for ANI analysis + depends_on('py-biopython', type=('build', 'run')) + depends_on('py-pandas', type=('build', 'run')) + depends_on('py-scipy', type=('build', 'run')) + + # Required for ANIb analysis + depends_on('blast-plus~python', type='run') + + # Required for ANIm analysis + depends_on('mummer', type='run') |