wgsim: Create new package. (#7674)

* wgsim: Create new package.

* fix flake8 error.

* wgsim: change cc compiler to spack_cc.

* add missing dependency.

1 files changed, 47 insertions, 0 deletions

diff --git a/var/spack/repos/builtin/packages/wgsim/package.py b/var/spack/repos/builtin/packages/wgsim/package.py
new file mode 100644
index 0000000000..fa3cc8c13e
--- /dev/null
+++ b/var/spack/repos/builtin/packages/wgsim/package.py
@@ -0,0 +1,47 @@
+##############################################################################
+# 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 Wgsim(Package):
+    """Wgsim is a small tool for simulating sequence reads from a reference
+    genome.
+
+    It is able to simulate diploid genomes with SNPs and insertion/deletion
+    (INDEL) polymorphisms, and simulate reads with uniform substitution
+    sequencing errors. It does not generate INDEL sequencing errors, but this
+    can be partly compensated by simulating INDEL polymorphisms."""
+
+    homepage = "https://github.com/lh3/wgsim"
+
+    version('2011.10.17', git='https://github.com/lh3/wgsim.git', commit='a12da3375ff3b51a5594d4b6fa35591173ecc229')
+
+    depends_on('zlib')
+
+    def install(self, spec, prefix):
+        cc = Executable(spack_cc)
+        cc('-g', '-O2', '-Wall', '-o', 'wgsim', 'wgsim.c', '-lz', '-lm')
+
+        install_tree(self.stage.source_path, prefix.bin)