sra-toolkit: new package (#5588)

* sra-toolkit: new package

* adding description and homepage

1 files changed, 45 insertions, 0 deletions

diff --git a/var/spack/repos/builtin/packages/sra-toolkit/package.py b/var/spack/repos/builtin/packages/sra-toolkit/package.py
new file mode 100644
index 0000000000..b678d3e94e
--- /dev/null
+++ b/var/spack/repos/builtin/packages/sra-toolkit/package.py
@@ -0,0 +1,45 @@
+##############################################################################
+# 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/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 SraToolkit(Package):
+    """The NCBI SRA Toolkit enables reading ("dumping") of sequencing files
+       from the SRA database and writing ("loading") files into the .sra
+       format."""
+
+    homepage = "https://trace.ncbi.nlm.nih.gov/Traces/sra"
+    url      = "https://ftp-trace.ncbi.nlm.nih.gov/sra/sdk/2.8.2-1/sratoolkit.2.8.2-1-centos_linux64.tar.gz"
+
+    version('2.8.2-1', '3a2910754aea71aba5662804efff2a68')
+
+    def url_for_version(self, version):
+        url = 'https://ftp-trace.ncbi.nlm.nih.gov/sra/sdk/{0}/sratoolkit.{0}-centos_linux64.tar.gz'
+        return url.format(version)
+
+    def install(self, spec, prefix):
+        install_tree('bin', prefix.bin)
+        install_tree('example', prefix.example)
+        install_tree('schema', prefix.schema)