mitofates: new package and dependency libsvm (#4741)

2 files changed, 84 insertions, 0 deletions

diff --git a/var/spack/repos/builtin/packages/libsvm/package.py b/var/spack/repos/builtin/packages/libsvm/package.py
new file mode 100644
index 0000000000..3a52d4f3ef
--- /dev/null
+++ b/var/spack/repos/builtin/packages/libsvm/package.py
@@ -0,0 +1,43 @@
+##############################################################################
+# 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 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 Libsvm(MakefilePackage):
+    """Libsvm is a simple, easy-to-use, and efficient software for SVM
+       classification and regression."""
+
+    homepage = "https://www.csie.ntu.edu.tw/~cjlin/libsvm/"
+    url      = "https://github.com/cjlin1/libsvm/archive/v322.tar.gz"
+
+    version('322', 'd9617d29efad013573f63ca9a517f490')
+
+    def install(self, spec, prefix):
+        mkdirp(prefix.bin)
+        mkdirp(prefix.lib)
+        install('svm-predict', prefix.bin)
+        install('svm-scale', prefix.bin)
+        install('svm-train', prefix.bin)
+        install('svm.o', prefix.lib)
diff --git a/var/spack/repos/builtin/packages/mitofates/package.py b/var/spack/repos/builtin/packages/mitofates/package.py
new file mode 100644
index 0000000000..0ca4ae58f2
--- /dev/null
+++ b/var/spack/repos/builtin/packages/mitofates/package.py
@@ -0,0 +1,41 @@
+##############################################################################
+# 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 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 Mitofates(Package):
+    """MitoFates predicts mitochondrial presequence, a cleavable localization
+       signal located in N-terminal, and its cleaved position."""
+
+    homepage = "http://mitf.cbrc.jp/MitoFates/cgi-bin/top.cgi"
+    url      = "http://mitf.cbrc.jp/MitoFates/program/MitoFates_1.2.tar.gz"
+
+    version('1.2', 'aaac42a8e8c7318a4abde9df3a4b72d1')
+
+    depends_on('libsvm')
+
+    def install(self, spec, prefix):
+        install_tree('bin', prefix.bin)
+        install('MitoFates.pl', prefix)