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authorGeorge Hartzell <hartzell@alerce.com>2016-08-01 17:38:38 -0400
committerGeorge Hartzell <hartzell@alerce.com>2016-08-04 14:18:02 -0400
commite17862c421c3b8fdc25a06256afb6fd38b15aef2 (patch)
tree452f4ce69dacb824fa0b0096ec1d685efa26fa02
parentd5bb2955b19ed8fba29b6c0f11ea9cafcec6db9b (diff)
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Add package for fastx toolkit
Tools for working with FASTA/FASTQ files.
-rw-r--r--var/spack/repos/builtin/packages/fastx_toolkit/package.py43
1 files changed, 43 insertions, 0 deletions
diff --git a/var/spack/repos/builtin/packages/fastx_toolkit/package.py b/var/spack/repos/builtin/packages/fastx_toolkit/package.py
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+++ b/var/spack/repos/builtin/packages/fastx_toolkit/package.py
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+##############################################################################
+# 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 FastxToolkit(Package):
+ """The FASTX-Toolkit is a collection of command line tools for
+ Short-Reads FASTA/FASTQ files preprocessing."""
+
+ homepage = "http://hannonlab.cshl.edu/fastx_toolkit/"
+ url = "https://github.com/agordon/fastx_toolkit/releases/download/0.0.14/fastx_toolkit-0.0.14.tar.bz2"
+
+ version('0.0.14', 'bf1993c898626bb147de3d6695c20b40')
+
+ depends_on('libgtextutils')
+
+ def install(self, spec, prefix):
+ configure('--prefix={0}'.format(prefix))
+
+ make()
+ make('install')