37 lines
1.5 KiB
Python
37 lines
1.5 KiB
Python
# Copyright 2013-2020 Lawrence Livermore National Security, LLC and other
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# Spack Project Developers. See the top-level COPYRIGHT file for details.
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#
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# SPDX-License-Identifier: (Apache-2.0 OR MIT)
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from spack import *
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class RBamsignals(RPackage):
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"""Extract read count signals from bam files.
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This package allows to efficiently obtain count vectors from indexed bam
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files. It counts the number of reads in given genomic ranges and it
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computes reads profiles and coverage profiles. It also handles paired-
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end data."""
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homepage = "https://bioconductor.org/packages/bamsignals"
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git = "https://git.bioconductor.org/packages/bamsignals.git"
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version('1.16.0', commit='dba9a4ae1613d2700f122ade1e9b90ca8fce5657')
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version('1.14.0', commit='3107d3a35830e879eeddf127a81016ea1ca9b53d')
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version('1.12.1', commit='06b6282df377cf9db58e8016be4ac8ddcc960939')
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version('1.10.0', commit='7499312ce71e8680680eda10b49d7dff682fc776')
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version('1.8.0', commit='b123b83e8e026c9ec91209d4498aff3e95a5de23')
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depends_on('r@3.2.0:', type=('build', 'run'))
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depends_on('r-biocgenerics', type=('build', 'run'))
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depends_on('r-rcpp@0.10.6:', type=('build', 'run'))
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depends_on('r-iranges', type=('build', 'run'))
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depends_on('r-genomicranges', type=('build', 'run'))
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depends_on('r-zlibbioc', type=('build', 'run'))
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depends_on('r-rhtslib', type=('build', 'run'))
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depends_on('r-rhtslib@1.12.1:', when='@1.12.1:', type=('build', 'run'))
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depends_on('r-rhtslib@1.13.1:', when='@1.14.0:', type=('build', 'run'))
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