1 files changed, 31 insertions, 0 deletions
diff --git a/var/spack/repos/builtin/packages/xhmm/package.py b/var/spack/repos/builtin/packages/xhmm/package.py
new file mode 100644
index 0000000000..3538641da6
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+++ b/var/spack/repos/builtin/packages/xhmm/package.py
@@ -0,0 +1,31 @@
+# Copyright 2013-2018 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 *
+
+
+class Xhmm(MakefilePackage):
+    """The XHMM C++ software suite was written to
+    call copy number variation (CNV) from next-generation
+    sequencing projects, where exome capture was used
+    (or targeted sequencing, more generally)."""
+
+    homepage = "http://atgu.mgh.harvard.edu/xhmm/index.shtml"
+    git      = "https://bitbucket.org/statgen/xhmm.git"
+
+    version('20160104', commit='cc14e528d90932f059ac4fe94e869e81221fd732')
+
+    depends_on('lapack')
+
+    def edit(self, spec, prefix):
+        filter_file('GCC', 'CC', 'sources/hmm++/config_rules.Makefile')
+        filter_file('GCC =gcc', '', 'sources/hmm++/config_defs.Makefile')
+
+    def build(self, spec, prefix):
+        make('LAPACK_LIBS=%s' % ''.join(spec['lapack'].libs.names))
+
+    def install(self, spec, prefix):
+        mkdir(prefix.bin)
+        install('xhmm', prefix.bin)