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| author | snehring <snehring@users.noreply.github.com> | 2022-05-04 01:29:06 -0500 |
|---|---|---|
| committer | GitHub <noreply@github.com> | 2022-05-04 08:29:06 +0200 |
| commit | d0fdaf6d03bff323744235c5eb30e134d78918e6 (patch) | |
| tree | 69a7db16cf0b71431d5e0640f95af3238804e50d /var | |
| parent | b8ebaa081312acc432aa7aeaa14f856fa405981a (diff) | |
| download | spack-d0fdaf6d03bff323744235c5eb30e134d78918e6.tar.gz spack-d0fdaf6d03bff323744235c5eb30e134d78918e6.tar.bz2 spack-d0fdaf6d03bff323744235c5eb30e134d78918e6.tar.xz spack-d0fdaf6d03bff323744235c5eb30e134d78918e6.zip | |
igv: changing to 'all platforms' version. Adding igvtools variant. (#30379)
Diffstat (limited to 'var')
| -rw-r--r-- | var/spack/repos/builtin/packages/igv/package.py | 29 |
1 files changed, 18 insertions, 11 deletions
diff --git a/var/spack/repos/builtin/packages/igv/package.py b/var/spack/repos/builtin/packages/igv/package.py index 152c16df53..18d44b8acb 100644 --- a/var/spack/repos/builtin/packages/igv/package.py +++ b/var/spack/repos/builtin/packages/igv/package.py @@ -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) |