From fa3edd4af094bd6bf6f5a56668302eef19284bb3 Mon Sep 17 00:00:00 2001 From: lingnanyuan <1297162327@qq.com> Date: Fri, 6 Apr 2018 15:40:58 -0500 Subject: hapdip: Create new package and its dependency k8. (#7685) * k8: Create new package. * hapdip: Create new package. * Change description. --- var/spack/repos/builtin/packages/hapdip/package.py | 39 ++++++++++++++++++ var/spack/repos/builtin/packages/k8/package.py | 46 ++++++++++++++++++++++ 2 files changed, 85 insertions(+) create mode 100644 var/spack/repos/builtin/packages/hapdip/package.py create mode 100644 var/spack/repos/builtin/packages/k8/package.py (limited to 'var') diff --git a/var/spack/repos/builtin/packages/hapdip/package.py b/var/spack/repos/builtin/packages/hapdip/package.py new file mode 100644 index 0000000000..066282c461 --- /dev/null +++ b/var/spack/repos/builtin/packages/hapdip/package.py @@ -0,0 +1,39 @@ +############################################################################## +# 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/spack/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 Hapdip(Package): + """The CHM1-NA12878 benchmark for single-sample SNP/INDEL calling from + WGS Illumina data.""" + + homepage = "https://github.com/lh3/hapdip" + + version('2018.02.20', git='https://github.com/lh3/hapdip.git', commit='7c12f684471999a543fdacce972c9c86349758a3') + + depends_on('k8', type='run') + + def install(self, spec, prefix): + install_tree('.', prefix.bin) diff --git a/var/spack/repos/builtin/packages/k8/package.py b/var/spack/repos/builtin/packages/k8/package.py new file mode 100644 index 0000000000..801323229d --- /dev/null +++ b/var/spack/repos/builtin/packages/k8/package.py @@ -0,0 +1,46 @@ +############################################################################## +# Copyright (c) 2013-2018, 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/spack/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 +############################################################################## +import sys +import os +from spack import * + + +class K8(Package): + """K8 is a Javascript shell based on Google's V8 Javascript engine.""" + + homepage = "https://github.com/attractivechaos/k8" + url = "https://github.com/attractivechaos/k8/releases/download/v0.2.4/k8-0.2.4.tar.bz2" + + version('0.2.4', 'edc5579ff18842a2a59aa92ce8bab8b4') + + depends_on('zlib', type='run') + + def install(self, spec, prefix): + if (sys.platform == 'darwin'): + os.rename('k8-Darwin', 'k8') + + if (sys.platform != 'darwin'): + os.rename('k8-Linux', 'k8') + install_tree('.', prefix.bin) -- cgit v1.2.3-70-g09d2