From cf884900597d3c1a3c5f0c4c0521df3b0e273765 Mon Sep 17 00:00:00 2001 From: Audrey Thoma Date: Fri, 21 Jul 2017 14:25:02 -0500 Subject: sickle: new package (#4851) --- var/spack/repos/builtin/packages/sickle/package.py | 43 ++++++++++++++++++++++ 1 file changed, 43 insertions(+) create mode 100644 var/spack/repos/builtin/packages/sickle/package.py (limited to 'var') diff --git a/var/spack/repos/builtin/packages/sickle/package.py b/var/spack/repos/builtin/packages/sickle/package.py new file mode 100644 index 0000000000..eee50d39aa --- /dev/null +++ b/var/spack/repos/builtin/packages/sickle/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 Sickle(MakefilePackage): + """Sickle is a tool that uses sliding windows along with quality and + length thresholds to determine when quality is sufficiently low to trim + the 3'-end of reads and also determines when the quality is + sufficiently high enough to trim the 5'-end of reads.""" + + homepage = "https://github.com/najoshi/sickle" + url = "https://github.com/najoshi/sickle/archive/v1.33.tar.gz" + + version('1.33', '9e2ba812183e1515198c9e15c4cd2cd7') + + depends_on('zlib') + + def install(self, spec, prefix): + mkdirp(prefix.bin) + install('sickle', prefix.bin) -- cgit v1.2.3-70-g09d2