From f5b5036ad55bf6e56cd5e1013d4eaacd6c56db7b Mon Sep 17 00:00:00 2001 From: snehring Date: Thu, 20 Feb 2020 11:45:57 -0600 Subject: adding package igv (#15096) * igv: adding package igv * removing some remaining initial boilerplate * changing path construction to be more correct * adding in type for java dep, also forgot about prefix.bin etc --- var/spack/repos/builtin/packages/igv/package.py | 36 +++++++++++++++++++++++++ 1 file changed, 36 insertions(+) create mode 100644 var/spack/repos/builtin/packages/igv/package.py (limited to 'var') diff --git a/var/spack/repos/builtin/packages/igv/package.py b/var/spack/repos/builtin/packages/igv/package.py new file mode 100644 index 0000000000..990b5e1962 --- /dev/null +++ b/var/spack/repos/builtin/packages/igv/package.py @@ -0,0 +1,36 @@ +# Copyright 2013-2020 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 Igv(Package): + """The Integrative Genomics Viewer (IGV) is a high-performance visualization + tool for interactive exploration of large, integrated genomic datasets. + It supports a wide variety of data types, including array-based and + next-generation sequence data, and genomic annotations.""" + + homepage = "https://software.broadinstitute.org/software/igv/home" + url = "https://data.broadinstitute.org/igv/projects/downloads/2.8/IGV_Linux_2.8.0.zip" + + maintainers = ['snehring'] + + version('2.8.0', sha256='897f683645b02c4da55424110b885071c2b9dd51bc180174e2a9b10788bf3257') + + # They ship with 11, out of an abundance of caution I'm going to restrict + # it to just 11. + + depends_on('java@11:11.99', type='run') + + def install(self, spec, prefix): + # Binary dist, just copy what we need, which should be the lib + # directory, the two script, and the arg file + install_tree('lib', prefix.lib) + mkdirp(prefix.bin) + filter_file('^prefix=.*$', 'prefix=' + prefix, + 'igv.sh', 'igv_hidpi.sh') + install('igv.sh', prefix.bin) + install('igv_hidpi.sh', prefix.bin) + install('igv.args', prefix) -- cgit v1.2.3-70-g09d2