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authorLuke Diorio-Toth <ldioriototh@gmail.com>2022-06-30 12:58:12 -0500
committerGitHub <noreply@github.com>2022-06-30 10:58:12 -0700
commit60c533b80be9c25d66a8409cb906417ab43a8085 (patch)
tree97c78364e4665358fa2cdd64adb8f993c5877ef5
parent60d94f2782aa7944a5e69619355676ccc8225ef4 (diff)
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py-cmseq: new package (#31375)
* py-cmseq: new package * py-cmseq: fixed copyright year * py-cmseq: changed download to pi, added deps
-rw-r--r--var/spack/repos/builtin/packages/py-cmseq/package.py26
1 files changed, 26 insertions, 0 deletions
diff --git a/var/spack/repos/builtin/packages/py-cmseq/package.py b/var/spack/repos/builtin/packages/py-cmseq/package.py
new file mode 100644
index 0000000000..c1490969d6
--- /dev/null
+++ b/var/spack/repos/builtin/packages/py-cmseq/package.py
@@ -0,0 +1,26 @@
+# Copyright 2013-2022 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.package import *
+
+
+class PyCmseq(PythonPackage):
+ """CMSeq is a set of commands to provide an interface
+ to .bam files for coverage and sequence consensus."""
+
+ homepage = "https://github.com/SegataLab/cmseq"
+ pypi = "CMSeq/CMSeq-1.0.4.tar.gz"
+
+ version('1.0.4', sha256='93038a6dba826e29a66df3ec8ab2b3e3872acac7af9df245e4a5a624584aca5c')
+
+ depends_on('py-numpy', type=('build', 'run'))
+ depends_on('py-scipy', type=('build', 'run'))
+ depends_on('py-bcbio-gff', type=('build', 'run'))
+ depends_on('samtools@1.2:', type=('build', 'run'))
+ depends_on('py-pysam', type=('build', 'run'))
+ depends_on('py-pandas', type=('build', 'run'))
+ depends_on('py-biopython@:1.76', type=('build', 'run'))
+ depends_on('py-setuptools@:57', type=('build'))