py-checkm-genome: Create new package (#7200)

1 files changed, 43 insertions, 0 deletions

diff --git a/var/spack/repos/builtin/packages/py-checkm-genome/package.py b/var/spack/repos/builtin/packages/py-checkm-genome/package.py
new file mode 100644
index 0000000000..355f7e0951
--- /dev/null
+++ b/var/spack/repos/builtin/packages/py-checkm-genome/package.py
@@ -0,0 +1,43 @@
+##############################################################################
+# 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 PyCheckmGenome(PythonPackage):
+    """Assess the quality of microbial genomes recovered from isolates, single
+    cells, and metagenomes"""
+
+    homepage = "https://ecogenomics.github.io/CheckM"
+    url      = "https://pypi.io/packages/source/c/checkm-genome/checkm-genome-1.0.11.tar.gz"
+
+    version('1.0.11', '3058546ec324e2420cf72f0d2576114b')
+
+    depends_on('hmmer@3.1b1:')
+    depends_on('prodigal@2.6.1:')
+    depends_on('py-numpy@1.8.0:',        type=('build', 'run'))
+    depends_on('py-scipy@0.9.0:',        type=('build', 'run'))
+    depends_on('py-matplotlib@1.3.1:',   type=('build', 'run'))
+    depends_on('py-pysam@0.8.3:',        type=('build', 'run'))
+    depends_on('py-dendropy@4.0.0:',     type=('build', 'run'))