8aa1eba2e0
This PR creates the r-watermelon package, along with dependencies. - new package: r-fdb-infiniummethylation-hg19 - new package: r-illuminahumanmethylation450kanno-ilmn12-hg19 - new package: r-lumi - new package: r-methylumi - new package: r-roc - new package: r-txdb-hsapiens-ucsc-hg19-knowngene - updated package: r-matrixstats, new version needed as a dependency
38 lines
1.7 KiB
Python
38 lines
1.7 KiB
Python
# 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 RLumi(RPackage):
|
|
"""The lumi package provides an integrated solution for the Illumina
|
|
microarray data analysis. It includes functions of Illumina BeadStudio
|
|
(GenomeStudio) data input, quality control, BeadArray-specific variance
|
|
stabilization, normalization and gene annotation at the probe level. It
|
|
also includes the functions of processing Illumina methylation microarrays,
|
|
especially Illumina Infinium methylation microarrays."""
|
|
|
|
homepage = "https://bioconductor.org/packages/release/bioc/html/lumi.html"
|
|
git = "https://git.bioconductor.org/packages/lumi"
|
|
|
|
version('2.38.0', commit='321d480d44ce9a0c02ce5af1bddc1f549abdea59')
|
|
|
|
depends_on('r@2.10:', type=('build', 'run'))
|
|
depends_on('r-biobase@2.5.5:', type=('build', 'run'))
|
|
depends_on('r-affy@1.23.4:', type=('build', 'run'))
|
|
depends_on('r-methylumi@2.3.2:', type=('build', 'run'))
|
|
depends_on('r-genomicfeatures', type=('build', 'run'))
|
|
depends_on('r-genomicranges', type=('build', 'run'))
|
|
depends_on('r-annotate', type=('build', 'run'))
|
|
depends_on('r-lattice', type=('build', 'run'))
|
|
depends_on('r-mgcv@1.4-0:', type=('build', 'run'))
|
|
depends_on('r-nleqslv', type=('build', 'run'))
|
|
depends_on('r-kernsmooth', type=('build', 'run'))
|
|
depends_on('r-preprocesscore', type=('build', 'run'))
|
|
depends_on('r-rsqlite', type=('build', 'run'))
|
|
depends_on('r-dbi', type=('build', 'run'))
|
|
depends_on('r-annotationdbi', type=('build', 'run'))
|
|
depends_on('r-mass', type=('build', 'run'))
|