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diff --git a/var/spack/repos/builtin/packages/rna-seqc/package.py b/var/spack/repos/builtin/packages/rna-seqc/package.py
new file mode 100644
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+++ b/var/spack/repos/builtin/packages/rna-seqc/package.py
@@ -0,0 +1,43 @@
+# 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 *
+import os.path
+
+
+class RnaSeqc(Package):
+    """RNA-SeQC is a java program which computes a series of quality control
+    metrics for RNA-seq data."""
+
+    homepage = "http://archive.broadinstitute.org/cancer/cga/rna-seqc"
+    url      = "http://www.broadinstitute.org/cancer/cga/tools/rnaseqc/RNA-SeQC_v1.1.8.jar"
+
+    version('1.1.8', '71d7b5d3b3dcc1893cdc7f6819185d41', expand=False)
+    version('1.1.7', '2d0b8ecac955af2f9bc1b185fdfb6b45', expand=False)
+    version('1.1.6', 'fa9c9885081ae2e47f285c7c0f596a14', expand=False)
+    version('1.1.5', '4b875671e906f708cbb8fd9bcf0e958d', expand=False)
+    version('1.1.4', 'b04d06947c48cb2dc1b0ba29c8232db5', expand=False)
+
+    depends_on('jdk@8:', type='run')
+
+    def install(self, spec, prefix):
+        mkdirp(prefix.bin)
+        jar_file = 'RNA-SeQC_v{0}.jar'.format(self.version.dotted)
+        install(jar_file, prefix.bin)
+
+        # Set up a helper script to call java on the jar file,
+        # explicitly codes the path for java and the jar file.
+        script_sh = join_path(os.path.dirname(__file__), "rna-seqc.sh")
+        script = join_path(prefix.bin, "rna-seqc")
+        install(script_sh, script)
+        set_executable(script)
+
+        # Munge the helper script to explicitly point to java and the
+        # jar file.
+        java = self.spec['jdk'].prefix.bin.java
+        kwargs = {'ignore_absent': False, 'backup': False, 'string': False}
+        filter_file('^java', java, script, **kwargs)
+        filter_file('RNA-SeQC_v{0}.jar', join_path(prefix.bin, jar_file),
+                    script, **kwargs)