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igv: changing to 'all platforms' version. Adding igvtools variant. (#30379)

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snehring 2022-05-04 01:29:06 -05:00 committed by GitHub
parent b8ebaa0813
commit d0fdaf6d03
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1 changed files with 18 additions and 11 deletions
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var/spack/repos/builtin/packages/igv/package.py
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@ -13,24 +13,31 @@ class Igv(Package):
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"
url = "https://data.broadinstitute.org/igv/projects/downloads/2.8/IGV_2.8.0.zip"
maintainers = ['snehring']
version('2.8.0', sha256='897f683645b02c4da55424110b885071c2b9dd51bc180174e2a9b10788bf3257')
version('2.12.3', sha256='c87a109deb35994e1b28dee80b5acfd623ec3257f031fcd9cfce008cd32a4cf2')
version('2.8.0', sha256='33f3ac57017907b931f90c35b63b2de2e4f8d2452f0fbb5be39d30288fc9b2c6')
# They ship with 11, out of an abundance of caution I'm going to restrict
# it to just 11.
depends_on('java@11:', type='run')
depends_on('java@11:11.99', type='run')
variant('igvtools', default=False, description='Include igvtools')
def url_for_version(self, version):
url = 'https://data.broadinstitute.org/igv/projects/downloads/{0}/IGV_{1}.zip'
return url.format(version.up_to(2), version)
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=.*$', 'prefix=' + prefix,
'igv.sh', 'igv_hidpi.sh')
install('igv.sh', prefix.bin)
install('igv_hidpi.sh', prefix.bin)
install('igv.args', prefix)
files = ['igv.sh', 'igv_hidpi.sh']
if '+igvtools' in spec:
files.extend(['igvtools', 'igvtools_gui', 'igvtools_gui_hidpi'])
for f in files:
filter_file('^prefix=.*$', 'prefix=' + prefix, f)
filter_file(' java ', ' {0} '.format(spec['java'].prefix.bin.java),
f)
set_executable(f)
install(f, prefix.bin)