1 files changed, 56 insertions, 0 deletions
diff --git a/var/spack/repos/builtin/packages/r-biocgenerics/package.py b/var/spack/repos/builtin/packages/r-biocgenerics/package.py
new file mode 100644
index 0000000000..ce93356541
--- /dev/null
+++ b/var/spack/repos/builtin/packages/r-biocgenerics/package.py
@@ -0,0 +1,56 @@
+##############################################################################
+# Copyright (c) 2013-2016, 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/llnl/spack
+# Please also see the LICENSE file 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 RBiocgenerics(Package):
+    """S4 generic functions needed by many Bioconductor packages."""
+
+    homepage = 'https://bioconductor.org/packages/BiocGenerics/'
+    version('bioc-3.3',
+            git='https://github.com/Bioconductor-mirror/BiocGenerics.git',
+            branch='release-3.3')
+    version('bioc-3.2',
+            git='https://github.com/Bioconductor-mirror/BiocGenerics.git',
+            branch='release-3.2')
+
+    extends('r')
+
+    def validate(self, spec):
+        """
+        Checks that the version of R is appropriate for the Bioconductor
+        version.
+        """
+        if spec.satisfies('@bioc-3.3'):
+            if not spec.satisfies('^R@3.3.0:3.3.9'):
+                raise InstallError('Must use R-3.3 for Bioconductor-3.3')
+        elif spec.satisfies('@bioc-3.2'):
+            if not spec.satisfies('^R@3.2.0:3.2.9'):
+                raise InstallError('Must use R-3.2 for Bioconductor-3.2')
+
+    def install(self, spec, prefix):
+        self.validate(spec)
+        R('CMD', 'INSTALL', '--library=%s' %
+          self.module.r_lib_dir, '%s' % self.stage.source_path)