diff options
Diffstat (limited to 'var/spack/repos/builtin/packages/r-rtracklayer/package.py')
| -rw-r--r-- | var/spack/repos/builtin/packages/r-rtracklayer/package.py | 61 |
1 files changed, 35 insertions, 26 deletions
diff --git a/var/spack/repos/builtin/packages/r-rtracklayer/package.py b/var/spack/repos/builtin/packages/r-rtracklayer/package.py index e272d6a80d..0020bf75b2 100644 --- a/var/spack/repos/builtin/packages/r-rtracklayer/package.py +++ b/var/spack/repos/builtin/packages/r-rtracklayer/package.py @@ -1,4 +1,4 @@ -# Copyright 2013-2019 Lawrence Livermore National Security, LLC and other +# 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) @@ -7,39 +7,48 @@ from spack import * class RRtracklayer(RPackage): - """Extensible framework for interacting with multiple genome browsers + """R interface to genome annotation files and the UCSC genome browser. + + Extensible framework for interacting with multiple genome browsers (currently UCSC built-in) and manipulating annotation tracks in various formats (currently GFF, BED, bedGraph, BED15, WIG, BigWig and 2bit built-in). The user may export/import tracks to/from the supported browsers, as well as query and modify the browser state, such as the current viewport.""" - homepage = "http://bioconductor.org/packages/rtracklayer/" + homepage = "https://bioconductor.org/packages/rtracklayer" git = "https://git.bioconductor.org/packages/rtracklayer.git" - version('1.40.5', commit='4e5b06daccd0bca1ddcd93052deca896ade58fd6') + version('1.44.4', commit='aec96e85daf53b5c5eb2e89250d2755352be4de3') + version('1.42.2', commit='76702f671faea736807d54aeecfbadcd152d94c5') + version('1.40.6', commit='ba9a6e711504a702147383bc7abfcc36eb304df7') + version('1.38.3', commit='f20db703c09dc7e808c09e9b78c15aec9e546248') version('1.36.6', commit='8c0ac7230f94e0c5a981acbb178c8de70e968131') - depends_on('r-xml', type=('build', 'run')) - depends_on('r-biocgenerics', type=('build', 'run')) - depends_on('r-biocgenerics@0.25.1:', when='@1.40.5', type=('build', 'run')) - depends_on('r-s4vectors', type=('build', 'run')) - depends_on('r-s4vectors@0.17.25:', when='@1.40.5', type=('build', 'run')) - depends_on('r-iranges', type=('build', 'run')) - depends_on('r-iranges@2.13.13:', when='@1.40.5', type=('build', 'run')) - depends_on('r-xvector', type=('build', 'run')) - depends_on('r-xvector@0.19.7:', when='@1.40.5', type=('build', 'run')) - depends_on('r-genomeinfodb', type=('build', 'run')) - depends_on('r-genomeinfodb@1.15.2:', when='@1.40.5', type=('build', 'run')) - depends_on('r-biostrings', type=('build', 'run')) - depends_on('r-biostrings@2.47.6:', when='@1.40.5', type=('build', 'run')) + depends_on('r@3.3:', type=('build', 'run')) + depends_on('r-genomicranges@1.21.20:', type=('build', 'run')) + depends_on('r-xml@1.98-0:', type=('build', 'run')) + depends_on('r-biocgenerics@0.13.8:', type=('build', 'run')) + depends_on('r-s4vectors@0.13.13:', type=('build', 'run')) + depends_on('r-iranges@2.3.7:', type=('build', 'run')) + depends_on('r-xvector@0.9.4:', type=('build', 'run')) + depends_on('r-genomeinfodb@1.3.14:', type=('build', 'run')) + depends_on('r-biostrings@2.43.7:', type=('build', 'run')) depends_on('r-zlibbioc', type=('build', 'run')) - depends_on('r-rcurl', type=('build', 'run')) - depends_on('r-rsamtools', type=('build', 'run')) - depends_on('r-rsamtools@1.31.2:', when='@1.40.5', type=('build', 'run')) - depends_on('r-genomicalignments', type=('build', 'run')) - depends_on('r-genomicalignments@1.15.6:', when='@1.40.5', type=('build', 'run')) - depends_on('r-genomicranges@1.21.20:', when='@1.36.3', type=('build', 'run')) - depends_on('r-genomicranges@1.31.8:', when='@1.40.5', type=('build', 'run')) - depends_on('r@3.4.0:3.4.9', when='@1.36.6', type=('build', 'run')) - depends_on('r@3.5.0:3.5.9', when='@1.40.5', type=('build', 'run')) + depends_on('r-rcurl@1.4-2:', type=('build', 'run')) + depends_on('r-rsamtools@1.17.8:', type=('build', 'run')) + depends_on('r-genomicalignments@1.5.4:', type=('build', 'run')) + + depends_on('r-iranges@2.11.12:', when='@1.38.3:', type=('build', 'run')) + + depends_on('r-genomicranges@1.31.8:', when='@1.40.6:', type=('build', 'run')) + depends_on('r-biocgenerics@0.25.1:', when='@1.40.6:', type=('build', 'run')) + depends_on('r-s4vectors@0.17.25:', when='@1.40.6:', type=('build', 'run')) + depends_on('r-iranges@2.13.13:', when='@1.40.6:', type=('build', 'run')) + depends_on('r-xvector@0.19.7:', when='@1.40.6:', type=('build', 'run')) + depends_on('r-genomeinfodb@1.15.2:', when='@1.40.6:', type=('build', 'run')) + depends_on('r-biostrings@2.47.6:', when='@1.40.6:', type=('build', 'run')) + depends_on('r-rsamtools@1.31.2:', when='@1.40.6:', type=('build', 'run')) + depends_on('r-genomicalignments@1.15.6:', when='@1.40.6:', type=('build', 'run')) + + depends_on('r-s4vectors@0.19.22:', when='@1.42.2:', type=('build', 'run')) |