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New package: r-fdb-infiniummethylation-hg18 (#14890)

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This PR adds the r-fdb-infiniummethylation-hg18 package and the needed
dependency of r-txdb-hsapiens-ucsc-hg18-knowngene.
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Glenn Johnson 2020-02-13 19:49:24 -06:00 committed by GitHub
parent 725336ee48
commit 46ae3f0570
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# 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)
from spack import *
class RFdbInfiniummethylationHg18(RPackage):
"""Compiled HumanMethylation27 and HumanMethylation450 annotations"""
# This is a bioconductor package but there is no available git repository
homepage = "http://bioconductor.org/packages/release/data/annotation/html/FDb.InfiniumMethylation.hg18.html"
url = "http://bioconductor.org/packages/release/data/annotation/src/contrib/FDb.InfiniumMethylation.hg18_2.2.0.tar.gz"
version('2.2.0', sha256='4a9028ac03c11fffbab731ea750bc7f9b0884fc43c6a8dac6eb2c644e4c79f6f')
depends_on('r@2.10:', type=('build', 'run'))
depends_on('r-genomicfeatures@1.7.22:', type=('build', 'run'))
depends_on('r-txdb-hsapiens-ucsc-hg18-knowngene', type=('build', 'run'))
depends_on('r-org-hs-eg-db', type=('build', 'run'))
depends_on('r-annotationdbi', type=('build', 'run'))
depends_on('r-biostrings', type=('build', 'run'))

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# 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)
from spack import *
class RTxdbHsapiensUcscHg18Knowngene(RPackage):
"""Exposes an annotation databases generated from UCSC by exposing these as
TxDb objects"""
# This is a bioconductor package but ther is no available git repo
homepage = "http://bioconductor.org/packages/release/data/annotation/html/TxDb.Hsapiens.UCSC.hg18.knownGene.html"
url = "http://bioconductor.org/packages/release/data/annotation/src/contrib/TxDb.Hsapiens.UCSC.hg18.knownGene_3.2.2.tar.gz"
version('3.2.2', sha256='bc9ca40b4eab87f5ca64a4b876d42502b9b8e9f5983d745bfe0ee349d97b69fa')
depends_on('r-genomicfeatures@1.21.30:', type=('build', 'run'))
depends_on('r-annotationdbi', type=('build', 'run'))