From cab2af9a71da9ca0fb098f39751db5cf3ff50ebc Mon Sep 17 00:00:00 2001
From: Justin S <3630356+codeandkey@users.noreply.github.com>
Date: Fri, 31 Jul 2020 11:58:53 -0500
Subject: [PATCH] py-mixedhtseq: new package at 0.1.0 (#17702)
* py-mixedhtseq: new package at 0.1.0
* py-mixedhtseq: flake8 fixes
---
.../builtin/packages/py-mixedhtseq/package.py | 39 +++++++++++++++++++
1 file changed, 39 insertions(+)
create mode 100644 var/spack/repos/builtin/packages/py-mixedhtseq/package.py
diff --git a/var/spack/repos/builtin/packages/py-mixedhtseq/package.py b/var/spack/repos/builtin/packages/py-mixedhtseq/package.py
new file mode 100644
index 0000000000..c01348a099
--- /dev/null
+++ b/var/spack/repos/builtin/packages/py-mixedhtseq/package.py
@@ -0,0 +1,39 @@
+# Copyright 2013-2020 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 *
+import glob
+
+
+class PyMixedhtseq(PythonPackage):
+ """HTSeq for mixed single and paired end reads"""
+
+ homepage = "https://github.com/schae234/MixedHTSeq"
+ url = "https://github.com/schae234/MixedHTSeq/archive/v0.1.0.tar.gz"
+
+ version('0.1.0', sha256='234689c8743ae2ba7ad13bc1809a5248184a4b8d16112d5413e09164ab67e157')
+
+ depends_on('python@2.5:2.8', type=('build', 'run'))
+ depends_on('py-numpy', type=('build', 'run'))
+ depends_on('py-htseq', type=('build', 'run'))
+ depends_on('py-ipython', type=('build', 'run'))
+ depends_on('py-pandas', type=('build', 'run'))
+
+ depends_on('py-setuptools', type='build')
+
+ @run_after('install')
+ def install_scripts(self):
+ shebang = '#!{0}\n'.format(self.spec['python'].command)
+
+ for fname in glob.glob('scripts/*.py'):
+ filter_file('^#!.*', '', fname)
+ with open(fname, 'r') as orig:
+ fdata = orig.read()
+ with open(fname, 'w') as new:
+ new.write(shebang + fdata)
+ set_executable(fname)
+
+ mkdirp(self.prefix.bin)
+ install_tree('scripts', self.prefix.bin)
--
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