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Diffstat (limited to 'var/spack/repos/builtin/packages/r-ensembldb/package.py')
| -rw-r--r-- | var/spack/repos/builtin/packages/r-ensembldb/package.py | 96 |
1 files changed, 48 insertions, 48 deletions
diff --git a/var/spack/repos/builtin/packages/r-ensembldb/package.py b/var/spack/repos/builtin/packages/r-ensembldb/package.py index 92876b5a4c..8e2403c6bf 100644 --- a/var/spack/repos/builtin/packages/r-ensembldb/package.py +++ b/var/spack/repos/builtin/packages/r-ensembldb/package.py @@ -9,54 +9,54 @@ from spack.package import * class REnsembldb(RPackage): """Utilities to create and use Ensembl-based annotation databases. - The package provides functions to create and use transcript centric - annotation databases/packages. The annotation for the databases are - directly fetched from Ensembl using their Perl API. The functionality - and data is similar to that of the TxDb packages from the - GenomicFeatures package, but, in addition to retrieve all - gene/transcript models and annotations from the database, ensembldb - provides a filter framework allowing to retrieve annotations for - specific entries like genes encoded on a chromosome region or transcript - models of lincRNA genes. EnsDb databases built with ensembldb contain - also protein annotations and mappings between proteins and their - encoding transcripts. Finally, ensembldb provides functions to map - between genomic, transcript and protein coordinates.""" + The package provides functions to create and use transcript centric + annotation databases/packages. The annotation for the databases are + directly fetched from Ensembl using their Perl API. The functionality + and data is similar to that of the TxDb packages from the + GenomicFeatures package, but, in addition to retrieve all + gene/transcript models and annotations from the database, ensembldb + provides a filter framework allowing to retrieve annotations for + specific entries like genes encoded on a chromosome region or transcript + models of lincRNA genes. EnsDb databases built with ensembldb contain + also protein annotations and mappings between proteins and their + encoding transcripts. Finally, ensembldb provides functions to map + between genomic, transcript and protein coordinates.""" bioc = "ensembldb" - version('2.20.1', commit='e547d184730cfe5e65f59e4f3512395fb1cdba1a') - version('2.18.3', commit='e2fcfc0c7700110df070a171d2d542b37ec098f3') - version('2.14.0', commit='c7150519ed4ef38e5eac1043209863dbc7be43a1') - version('2.8.1', commit='a4d8d89c143dca86b364d59dff8e46cc81c41ac0') - version('2.6.8', commit='c2c4f41b4ecc81d5328ce1d380065dfcb5e0c54c') - version('2.4.1', commit='b5b6b94826a2f46a4faecb9dde750ecd3bfaf327') - version('2.2.2', commit='d71610e58aed88dbbe6a74e7a8ddfb7451398060') - version('2.0.4', commit='514623d71e3cca7a4e547adb579b5a958702ef86') - - depends_on('r@3.5.0:', type=('build', 'run'), when='@2.20.1:') - depends_on('r-biocgenerics@0.15.10:', type=('build', 'run')) - depends_on('r-genomicranges@1.23.21:', type=('build', 'run')) - depends_on('r-genomicranges@1.31.18:', type=('build', 'run'), when='@2.4.1:') - depends_on('r-genomicfeatures@1.23.18:', type=('build', 'run')) - depends_on('r-genomicfeatures@1.29.10:', type=('build', 'run'), when='@2.2.2:') - depends_on('r-annotationfilter@0.99.7:', type=('build', 'run')) - depends_on('r-annotationfilter@1.1.9:', type=('build', 'run'), when='@2.2.2:') - depends_on('r-annotationfilter@1.5.2:', type=('build', 'run'), when='@2.6.8:') - depends_on('r-rsqlite@1.1:', type=('build', 'run')) - depends_on('r-dbi', type=('build', 'run')) - depends_on('r-biobase', type=('build', 'run')) - depends_on('r-genomeinfodb', type=('build', 'run')) - depends_on('r-annotationdbi@1.31.19:', type=('build', 'run')) - depends_on('r-rtracklayer', type=('build', 'run')) - depends_on('r-s4vectors', type=('build', 'run')) - depends_on('r-s4vectors@0.23.10:', type=('build', 'run'), when='@2.14.0:') - depends_on('r-rsamtools', type=('build', 'run')) - depends_on('r-iranges', type=('build', 'run')) - depends_on('r-iranges@2.11.16:', type=('build', 'run'), when='@2.2.2:') - depends_on('r-iranges@2.13.24:', type=('build', 'run'), when='@2.4.1:') - depends_on('r-protgenerics', type=('build', 'run')) - depends_on('r-biostrings', type=('build', 'run')) - depends_on('r-biostrings@2.47.9:', type=('build', 'run'), when='@2.4.1:') - depends_on('r-curl', type=('build', 'run')) - - depends_on('r-annotationhub', type=('build', 'run'), when='@2.0.4:2.2.2') + version("2.20.1", commit="e547d184730cfe5e65f59e4f3512395fb1cdba1a") + version("2.18.3", commit="e2fcfc0c7700110df070a171d2d542b37ec098f3") + version("2.14.0", commit="c7150519ed4ef38e5eac1043209863dbc7be43a1") + version("2.8.1", commit="a4d8d89c143dca86b364d59dff8e46cc81c41ac0") + version("2.6.8", commit="c2c4f41b4ecc81d5328ce1d380065dfcb5e0c54c") + version("2.4.1", commit="b5b6b94826a2f46a4faecb9dde750ecd3bfaf327") + version("2.2.2", commit="d71610e58aed88dbbe6a74e7a8ddfb7451398060") + version("2.0.4", commit="514623d71e3cca7a4e547adb579b5a958702ef86") + + depends_on("r@3.5.0:", type=("build", "run"), when="@2.20.1:") + depends_on("r-biocgenerics@0.15.10:", type=("build", "run")) + depends_on("r-genomicranges@1.23.21:", type=("build", "run")) + depends_on("r-genomicranges@1.31.18:", type=("build", "run"), when="@2.4.1:") + depends_on("r-genomicfeatures@1.23.18:", type=("build", "run")) + depends_on("r-genomicfeatures@1.29.10:", type=("build", "run"), when="@2.2.2:") + depends_on("r-annotationfilter@0.99.7:", type=("build", "run")) + depends_on("r-annotationfilter@1.1.9:", type=("build", "run"), when="@2.2.2:") + depends_on("r-annotationfilter@1.5.2:", type=("build", "run"), when="@2.6.8:") + depends_on("r-rsqlite@1.1:", type=("build", "run")) + depends_on("r-dbi", type=("build", "run")) + depends_on("r-biobase", type=("build", "run")) + depends_on("r-genomeinfodb", type=("build", "run")) + depends_on("r-annotationdbi@1.31.19:", type=("build", "run")) + depends_on("r-rtracklayer", type=("build", "run")) + depends_on("r-s4vectors", type=("build", "run")) + depends_on("r-s4vectors@0.23.10:", type=("build", "run"), when="@2.14.0:") + depends_on("r-rsamtools", type=("build", "run")) + depends_on("r-iranges", type=("build", "run")) + depends_on("r-iranges@2.11.16:", type=("build", "run"), when="@2.2.2:") + depends_on("r-iranges@2.13.24:", type=("build", "run"), when="@2.4.1:") + depends_on("r-protgenerics", type=("build", "run")) + depends_on("r-biostrings", type=("build", "run")) + depends_on("r-biostrings@2.47.9:", type=("build", "run"), when="@2.4.1:") + depends_on("r-curl", type=("build", "run")) + + depends_on("r-annotationhub", type=("build", "run"), when="@2.0.4:2.2.2") |