From 93879e575db9686b34bc5500415cea7597fd1006 Mon Sep 17 00:00:00 2001 From: simo-tuomisto Date: Sun, 18 Nov 2018 03:19:04 +0000 Subject: mixcr: Added a new package for MiXCR. (#9864) * mixcr: Added a new package for MiXCR. * mixcr: Fixed spack license string. --- var/spack/repos/builtin/packages/mixcr/package.py | 29 +++++++++++++++++++++++ 1 file changed, 29 insertions(+) create mode 100644 var/spack/repos/builtin/packages/mixcr/package.py (limited to 'var') diff --git a/var/spack/repos/builtin/packages/mixcr/package.py b/var/spack/repos/builtin/packages/mixcr/package.py new file mode 100644 index 0000000000..3fef5fdb55 --- /dev/null +++ b/var/spack/repos/builtin/packages/mixcr/package.py @@ -0,0 +1,29 @@ +# Copyright 2013-2018 Lawrence Livermore National Security, LLC and other +# Spack Project Developers. See the top-level COPYRIGHT file for details. +# +# SPDX-License-Identifier: (Apache-2.0 OR MIT) + +from spack import * + + +class Mixcr(Package): + """MiXCR is a universal framework that processes big immunome data from + raw sequences to quantitated clonotypes. MiXCR efficiently handles + paired- and single-end reads, considers sequence quality, corrects PCR + errors and identifies germline hypermutations. The software supports + both partial- and full-length profiling and employs all available RNA or + DNA information, including sequences upstream of V and downstream of J + gene segments.""" + + homepage = "https://mixcr.readthedocs.io/en/master/index.html" + url = "https://github.com/milaboratory/mixcr/releases/download/v3.0.2/mixcr-3.0.2.zip" + + version('3.0.2', sha256='b4dcad985053438d5f5590555f399edfbd8cb514e1b9717620ee0ad0b5eb6b33') + + depends_on('java@8:') + + def install(self, spec, prefix): + install_tree('.', prefix) + + def setup_environment(self, spack_env, run_env): + run_env.prepend_path('PATH', self.prefix) -- cgit v1.2.3-70-g09d2