diff options
Diffstat (limited to 'var/spack/repos/builtin/packages/r-ggbio/package.py')
| -rw-r--r-- | var/spack/repos/builtin/packages/r-ggbio/package.py | 48 |
1 files changed, 32 insertions, 16 deletions
diff --git a/var/spack/repos/builtin/packages/r-ggbio/package.py b/var/spack/repos/builtin/packages/r-ggbio/package.py index b4918a8a1f..2e52e4edf4 100644 --- a/var/spack/repos/builtin/packages/r-ggbio/package.py +++ b/var/spack/repos/builtin/packages/r-ggbio/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) @@ -7,43 +7,59 @@ from spack import * class RGgbio(RPackage): - """The ggbio package extends and specializes the grammar of graphics for + """Visualization tools for genomic data. + + The ggbio package extends and specializes the grammar of graphics for biological data. The graphics are designed to answer common scientific questions, in particular those often asked of high throughput genomics data. All core Bioconductor data structures are supported, where appropriate. The package supports detailed views of particular genomic regions, as well as genome-wide overviews. Supported overviews include ideograms and grand linear views. High-level plots include sequence - fragment length, edge-linked interval to data view, mismatch pileup, - and several splicing summaries.""" + fragment length, edge-linked interval to data view, mismatch pileup, and + several splicing summaries.""" - homepage = "http://bioconductor.org/packages/ggbio/" + homepage = "https://bioconductor.org/packages/ggbio" git = "https://git.bioconductor.org/packages/ggbio.git" + version('1.32.0', commit='04bd12fbe0b1c5c6b721a5f927e1352765f9bf88') + version('1.30.0', commit='8b05258b089b06a743352e92058edda06c24cfb7') + version('1.28.5', commit='594521ca556ef7d97cf4882ecfa54d22c2a2faba') + version('1.26.1', commit='b4f4c898c92aa1082aa7574f1e5c2a0dae943fbc') version('1.24.1', commit='ef04c1bca1330f37152bcc21080cbde94849a094') + depends_on('r-biocgenerics', type=('build', 'run')) + depends_on('r-ggplot2@1.0.0:', type=('build', 'run')) depends_on('r-gridextra', type=('build', 'run')) depends_on('r-scales', type=('build', 'run')) depends_on('r-reshape2', type=('build', 'run')) depends_on('r-gtable', type=('build', 'run')) depends_on('r-hmisc', type=('build', 'run')) - depends_on('r-biovizbase', type=('build', 'run')) + depends_on('r-biovizbase@1.23.3:', type=('build', 'run')) depends_on('r-biobase', type=('build', 'run')) - depends_on('r-s4vectors', type=('build', 'run')) + depends_on('r-s4vectors@0.13.13:', type=('build', 'run')) depends_on('r-iranges', type=('build', 'run')) - depends_on('r-genomeinfodb', type=('build', 'run')) - depends_on('r-genomicranges', type=('build', 'run')) + depends_on('r-genomeinfodb@1.1.3:', type=('build', 'run')) + depends_on('r-genomicranges@1.21.10:', type=('build', 'run')) depends_on('r-summarizedexperiment', type=('build', 'run')) depends_on('r-biostrings', type=('build', 'run')) - depends_on('r-rsamtools', type=('build', 'run')) - depends_on('r-genomicalignments', type=('build', 'run')) + depends_on('r-rsamtools@1.17.28:', type=('build', 'run')) + depends_on('r-genomicalignments@1.1.16:', type=('build', 'run')) depends_on('r-bsgenome', type=('build', 'run')) - depends_on('r-variantannotation', type=('build', 'run')) - depends_on('r-rtracklayer', type=('build', 'run')) - depends_on('r-genomicfeatures', type=('build', 'run')) + depends_on('r-variantannotation@1.11.4:', type=('build', 'run')) + depends_on('r-rtracklayer@1.25.16:', type=('build', 'run')) + depends_on('r-genomicfeatures@1.17.13:', type=('build', 'run')) depends_on('r-organismdbi', type=('build', 'run')) depends_on('r-ggally', type=('build', 'run')) - depends_on('r-ensembldb', type=('build', 'run')) + depends_on('r-ensembldb@1.99.13:', type=('build', 'run')) depends_on('r-annotationdbi', type=('build', 'run')) depends_on('r-annotationfilter', type=('build', 'run')) - depends_on('r@3.4.0:3.4.9', when='@1.24.1') + + depends_on('r-iranges@2.11.16:', when='@1.26.1:', type=('build', 'run')) + depends_on('r-genomicranges@1.29.14:', when='@1.26.1:', type=('build', 'run')) + depends_on('r-genomicfeatures@1.29.11:', when='@1.26.1:', type=('build', 'run')) + + depends_on('r-biovizbase@1.28.2:', when='@1.28.5:', type=('build', 'run')) + depends_on('r-rlang', when='@1.28.5:', type=('build', 'run')) + + depends_on('r-biovizbase@1.29.2:', when='@1.30.0:', type=('build', 'run')) |