62927654dd
We'd like to use a consistent checksum scheme everywhere so that we can:
a) incorporate archive checksums into our specs and have a
consistent hashing algorithm across all specs.
b) index mirrors with a consistent type of checksum, and not one that
is dependent on how spack packages are written.
- [x] convert existing md5, sha224, sha512, sha1 checksums to sha256
41 lines
1.4 KiB
Python
41 lines
1.4 KiB
Python
# Copyright 2013-2019 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 *
|
|
import os
|
|
|
|
|
|
class Igvtools(Package):
|
|
"""IGVTools suite of command-line utilities for preprocessing data
|
|
files"""
|
|
|
|
homepage = "https://software.broadinstitute.org/software/igv/home"
|
|
url = "http://data.broadinstitute.org/igv/projects/downloads/2.3/igvtools_2.3.98.zip"
|
|
|
|
version('2.3.98', sha256='07027c179f25960bab9919f255c0f8e08f0861861ac6dc02d92be8313e0316a4')
|
|
|
|
depends_on('java@8:')
|
|
|
|
def install(self, spec, prefix):
|
|
mkdirp(prefix.bin)
|
|
jar_file = 'igvtools.jar'
|
|
install(jar_file, prefix.bin)
|
|
install_tree('genomes', prefix.genomes)
|
|
|
|
# Set up a helper script to call java on the jar file,
|
|
# explicitly codes the path for java and the jar file.
|
|
script_sh = join_path(os.path.dirname(__file__), "igvtools.sh")
|
|
script = prefix.bin.igvtools
|
|
install(script_sh, script)
|
|
set_executable(script)
|
|
|
|
# Munge the helper script to explicitly point to java and the
|
|
# jar file.
|
|
java = spec['java'].prefix.bin.java
|
|
kwargs = {'ignore_absent': False, 'backup': False, 'string': False}
|
|
filter_file('^java', java, script, **kwargs)
|
|
filter_file(jar_file, join_path(prefix.bin, jar_file),
|
|
script, **kwargs)
|