mirror of
https://github.com/BioArchLinux/Packages.git
synced 2025-03-10 12:02:42 +00:00
*: Merge branch 'master' of github.com:BioArchLinux/Packages
This commit is contained in:
commit
f029587871
33 changed files with 0 additions and 852 deletions
|
|
@ -1,53 +0,0 @@
|
|||
# Maintainer: Guoyi Zhang <guoyizhang at malacology dot net>
|
||||
|
||||
_pkgname=ASpediaFI
|
||||
_pkgver=1.11.0
|
||||
pkgname=r-${_pkgname,,}
|
||||
pkgver=1.11.0
|
||||
pkgrel=3
|
||||
pkgdesc='ASpedia-FI: Functional Interaction Analysis of Alternative Splicing Events'
|
||||
arch=('any')
|
||||
url="https://bioconductor.org/packages/3.17/${_pkgname}"
|
||||
license=('GPL')
|
||||
depends=(
|
||||
r
|
||||
r-biocparallel
|
||||
r-biomart
|
||||
r-dplyr
|
||||
r-drawr
|
||||
r-e1071
|
||||
r-fgsea
|
||||
r-genomeinfodb
|
||||
r-genomicalignments
|
||||
r-genomicfeatures
|
||||
r-genomicranges
|
||||
r-ggplot2
|
||||
r-gviz
|
||||
r-igraph
|
||||
r-iranges
|
||||
r-ivas
|
||||
r-limma
|
||||
r-mgsz
|
||||
r-reshape2
|
||||
r-rocr
|
||||
r-rsamtools
|
||||
r-rtracklayer
|
||||
r-s4vectors
|
||||
r-scales
|
||||
r-summarizedexperiment
|
||||
)
|
||||
optdepends=(
|
||||
r-knitr
|
||||
)
|
||||
source=("https://bioconductor.org/packages/3.17/bioc/src/contrib/${_pkgname}_${_pkgver}.tar.gz")
|
||||
sha256sums=('bada73c70b81c82b88bd2a014b01d05a1eedde536a9df19311ae41a498f1568e')
|
||||
|
||||
build() {
|
||||
R CMD INSTALL ${_pkgname}_${_pkgver}.tar.gz -l "${srcdir}"
|
||||
}
|
||||
|
||||
package() {
|
||||
install -dm0755 "${pkgdir}/usr/lib/R/library"
|
||||
cp -a --no-preserve=ownership "${_pkgname}" "${pkgdir}/usr/lib/R/library"
|
||||
}
|
||||
# vim:set ts=2 sw=2 et:
|
||||
|
|
@ -1,13 +0,0 @@
|
|||
#!/usr/bin/env python3
|
||||
from lilaclib import *
|
||||
|
||||
def pre_build():
|
||||
for line in edit_file('PKGBUILD'):
|
||||
if line.startswith('_pkgver='):
|
||||
line = f'_pkgver={_G.newver}'
|
||||
print(line)
|
||||
update_pkgver_and_pkgrel(_G.newver.replace(':', '.').replace('-', '.'))
|
||||
|
||||
def post_build():
|
||||
git_pkgbuild_commit()
|
||||
update_aur_repo()
|
||||
|
|
@ -1,34 +0,0 @@
|
|||
build_prefix: extra-x86_64
|
||||
maintainers:
|
||||
- github: starsareintherose
|
||||
email: kuoi@bioarchlinux.org
|
||||
repo_depends:
|
||||
- r-biocparallel
|
||||
- r-biomart
|
||||
- r-dplyr
|
||||
- r-drawr
|
||||
- r-e1071
|
||||
- r-fgsea
|
||||
- r-genomeinfodb
|
||||
- r-genomicalignments
|
||||
- r-genomicfeatures
|
||||
- r-genomicranges
|
||||
- r-ggplot2
|
||||
- r-gviz
|
||||
- r-igraph
|
||||
- r-iranges
|
||||
- r-ivas
|
||||
- r-limma
|
||||
- r-mgsz
|
||||
- r-reshape2
|
||||
- r-rocr
|
||||
- r-rsamtools
|
||||
- r-rtracklayer
|
||||
- r-s4vectors
|
||||
- r-scales
|
||||
- r-summarizedexperiment
|
||||
update_on:
|
||||
- regex: ASpediaFI_([\d._-]+).tar.gz
|
||||
source: regex
|
||||
url: https://bioconductor.org/packages/3.17/ASpediaFI
|
||||
- alias: r
|
||||
|
|
@ -1,45 +0,0 @@
|
|||
# Maintainer: Guoyi Zhang <guoyizhang at malacology dot net>
|
||||
|
||||
_pkgname=CopywriteR
|
||||
_pkgver=2.29.0
|
||||
pkgname=r-${_pkgname,,}
|
||||
pkgver=2.29.0
|
||||
pkgrel=3
|
||||
pkgdesc='Copy number information from targeted sequencing using off-target reads'
|
||||
arch=('any')
|
||||
url="https://bioconductor.org/packages/3.17/${_pkgname}"
|
||||
license=('GPL')
|
||||
depends=(
|
||||
r
|
||||
r-biocparallel
|
||||
r-chipseq
|
||||
r-copyhelper
|
||||
r-data.table
|
||||
r-dnacopy
|
||||
r-futile.logger
|
||||
r-genomeinfodb
|
||||
r-genomicalignments
|
||||
r-genomicranges
|
||||
r-gtools
|
||||
r-iranges
|
||||
r-matrixstats
|
||||
r-rsamtools
|
||||
r-s4vectors
|
||||
)
|
||||
optdepends=(
|
||||
r-biocstyle
|
||||
r-sclcbam
|
||||
r-snow
|
||||
)
|
||||
source=("https://bioconductor.org/packages/3.17/bioc/src/contrib/${_pkgname}_${_pkgver}.tar.gz")
|
||||
sha256sums=('46f7f6918a01b13de3f730057c19c9e9bb8594df34c5ef1399efabc665f68cc0')
|
||||
|
||||
build() {
|
||||
R CMD INSTALL ${_pkgname}_${_pkgver}.tar.gz -l "${srcdir}"
|
||||
}
|
||||
|
||||
package() {
|
||||
install -dm0755 "${pkgdir}/usr/lib/R/library"
|
||||
cp -a --no-preserve=ownership "${_pkgname}" "${pkgdir}/usr/lib/R/library"
|
||||
}
|
||||
# vim:set ts=2 sw=2 et:
|
||||
|
|
@ -1,13 +0,0 @@
|
|||
#!/usr/bin/env python3
|
||||
from lilaclib import *
|
||||
|
||||
def pre_build():
|
||||
for line in edit_file('PKGBUILD'):
|
||||
if line.startswith('_pkgver='):
|
||||
line = f'_pkgver={_G.newver}'
|
||||
print(line)
|
||||
update_pkgver_and_pkgrel(_G.newver.replace(':', '.').replace('-', '.'))
|
||||
|
||||
def post_build():
|
||||
git_pkgbuild_commit()
|
||||
update_aur_repo()
|
||||
|
|
@ -1,24 +0,0 @@
|
|||
build_prefix: extra-x86_64
|
||||
maintainers:
|
||||
- github: starsareintherose
|
||||
email: kuoi@bioarchlinux.org
|
||||
repo_depends:
|
||||
- r-biocparallel
|
||||
- r-chipseq
|
||||
- r-copyhelper
|
||||
- r-data.table
|
||||
- r-dnacopy
|
||||
- r-futile.logger
|
||||
- r-genomeinfodb
|
||||
- r-genomicalignments
|
||||
- r-genomicranges
|
||||
- r-gtools
|
||||
- r-iranges
|
||||
- r-matrixstats
|
||||
- r-rsamtools
|
||||
- r-s4vectors
|
||||
update_on:
|
||||
- regex: CopywriteR_([\d._-]+).tar.gz
|
||||
source: regex
|
||||
url: https://bioconductor.org/packages/3.17/CopywriteR
|
||||
- alias: r
|
||||
|
|
@ -1,47 +0,0 @@
|
|||
# Maintainer: Guoyi Zhang <guoyizhang at malacology dot net>
|
||||
|
||||
_pkgname=epihet
|
||||
_pkgver=1.13.0
|
||||
pkgname=r-${_pkgname,,}
|
||||
pkgver=1.13.0
|
||||
pkgrel=3
|
||||
pkgdesc='Determining Epigenetic Heterogeneity from Bisulfite Sequencing Data'
|
||||
arch=('any')
|
||||
url="https://bioconductor.org/packages/3.17/${_pkgname}"
|
||||
license=('Artistic2.0')
|
||||
depends=(
|
||||
r
|
||||
r-data.table
|
||||
r-doparallel
|
||||
r-entropyexplorer
|
||||
r-foreach
|
||||
r-genomicranges
|
||||
r-ggplot2
|
||||
r-igraph
|
||||
r-iranges
|
||||
r-pheatmap
|
||||
r-qvalue
|
||||
r-reactomepa
|
||||
r-rtsne
|
||||
r-s4vectors
|
||||
r-wgcna
|
||||
)
|
||||
optdepends=(
|
||||
r-clusterprofiler
|
||||
r-ggfortify
|
||||
r-knitr
|
||||
r-org.hs.eg.db
|
||||
r-rmarkdown
|
||||
)
|
||||
source=("https://bioconductor.org/packages/3.17/bioc/src/contrib/${_pkgname}_${_pkgver}.tar.gz")
|
||||
sha256sums=('f928a39240a5e5a7de7d75b15fa2da62d01b3e6c276cb01d80467a34c87abadc')
|
||||
|
||||
build() {
|
||||
R CMD INSTALL ${_pkgname}_${_pkgver}.tar.gz -l "${srcdir}"
|
||||
}
|
||||
|
||||
package() {
|
||||
install -dm0755 "${pkgdir}/usr/lib/R/library"
|
||||
cp -a --no-preserve=ownership "${_pkgname}" "${pkgdir}/usr/lib/R/library"
|
||||
}
|
||||
# vim:set ts=2 sw=2 et:
|
||||
|
|
@ -1,13 +0,0 @@
|
|||
#!/usr/bin/env python3
|
||||
from lilaclib import *
|
||||
|
||||
def pre_build():
|
||||
for line in edit_file('PKGBUILD'):
|
||||
if line.startswith('_pkgver='):
|
||||
line = f'_pkgver={_G.newver}'
|
||||
print(line)
|
||||
update_pkgver_and_pkgrel(_G.newver.replace(':', '.').replace('-', '.'))
|
||||
|
||||
def post_build():
|
||||
git_pkgbuild_commit()
|
||||
update_aur_repo()
|
||||
|
|
@ -1,24 +0,0 @@
|
|||
build_prefix: extra-x86_64
|
||||
maintainers:
|
||||
- github: starsareintherose
|
||||
email: kuoi@bioarchlinux.org
|
||||
repo_depends:
|
||||
- r-data.table
|
||||
- r-doparallel
|
||||
- r-entropyexplorer
|
||||
- r-foreach
|
||||
- r-genomicranges
|
||||
- r-ggplot2
|
||||
- r-igraph
|
||||
- r-iranges
|
||||
- r-pheatmap
|
||||
- r-qvalue
|
||||
- r-reactomepa
|
||||
- r-rtsne
|
||||
- r-s4vectors
|
||||
- r-wgcna
|
||||
update_on:
|
||||
- regex: epihet_([\d._-]+).tar.gz
|
||||
source: regex
|
||||
url: https://bioconductor.org/packages/3.17/epihet
|
||||
- alias: r
|
||||
|
|
@ -1,41 +0,0 @@
|
|||
# Maintainer: Guoyi Zhang <guoyizhang at malacology dot net>
|
||||
|
||||
_pkgname=genotypeeval
|
||||
_pkgver=1.30.0
|
||||
pkgname=r-${_pkgname,,}
|
||||
pkgver=1.30.0
|
||||
pkgrel=3
|
||||
pkgdesc='QA/QC of a gVCF or VCF file'
|
||||
arch=('any')
|
||||
url="https://bioconductor.org/packages/3.17/${_pkgname}"
|
||||
license=('custom')
|
||||
depends=(
|
||||
r
|
||||
r-biocgenerics
|
||||
r-biocparallel
|
||||
r-genomeinfodb
|
||||
r-genomicranges
|
||||
r-ggplot2
|
||||
r-iranges
|
||||
r-rtracklayer
|
||||
r-variantannotation
|
||||
)
|
||||
optdepends=(
|
||||
r-rmarkdown
|
||||
r-snplocs.hsapiens.dbsnp141.grch38
|
||||
r-testthat
|
||||
r-txdb.hsapiens.ucsc.hg38.knowngene
|
||||
)
|
||||
source=("https://bioconductor.org/packages/3.17/bioc/src/contrib/${_pkgname}_${_pkgver}.tar.gz")
|
||||
sha256sums=('d4e2b92ddf1cb7f72cb131c05575fefa161d8c4527f9afb9530f6d120d6a2156')
|
||||
|
||||
build() {
|
||||
R CMD INSTALL ${_pkgname}_${_pkgver}.tar.gz -l "${srcdir}"
|
||||
}
|
||||
|
||||
package() {
|
||||
install -dm0755 "${pkgdir}/usr/lib/R/library"
|
||||
cp -a --no-preserve=ownership "${_pkgname}" "${pkgdir}/usr/lib/R/library"
|
||||
install -Dm644 "${_pkgname}/LICENSE" -t "${pkgdir}/usr/share/licenses/${pkgname}"
|
||||
}
|
||||
# vim:set ts=2 sw=2 et:
|
||||
|
|
@ -1,13 +0,0 @@
|
|||
#!/usr/bin/env python3
|
||||
from lilaclib import *
|
||||
|
||||
def pre_build():
|
||||
for line in edit_file('PKGBUILD'):
|
||||
if line.startswith('_pkgver='):
|
||||
line = f'_pkgver={_G.newver}'
|
||||
print(line)
|
||||
update_pkgver_and_pkgrel(_G.newver.replace(':', '.').replace('-', '.'))
|
||||
|
||||
def post_build():
|
||||
git_pkgbuild_commit()
|
||||
update_aur_repo()
|
||||
|
|
@ -1,18 +0,0 @@
|
|||
build_prefix: extra-x86_64
|
||||
maintainers:
|
||||
- github: starsareintherose
|
||||
email: kuoi@bioarchlinux.org
|
||||
repo_depends:
|
||||
- r-biocgenerics
|
||||
- r-biocparallel
|
||||
- r-genomeinfodb
|
||||
- r-genomicranges
|
||||
- r-ggplot2
|
||||
- r-iranges
|
||||
- r-rtracklayer
|
||||
- r-variantannotation
|
||||
update_on:
|
||||
- regex: genotypeeval_([\d._-]+).tar.gz
|
||||
source: regex
|
||||
url: https://bioconductor.org/packages/3.17/genotypeeval
|
||||
- alias: r
|
||||
|
|
@ -1,51 +0,0 @@
|
|||
# Maintainer: Guoyi Zhang <guoyizhang at malacology dot net>
|
||||
|
||||
_pkgname=metavizr
|
||||
_pkgver=1.21.0
|
||||
pkgname=r-${_pkgname,,}
|
||||
pkgver=1.21.0
|
||||
pkgrel=3
|
||||
pkgdesc='R Interface to the metaviz web app for interactive metagenomics data analysis and visualization'
|
||||
arch=('any')
|
||||
url="https://bioconductor.org/packages/3.17/${_pkgname}"
|
||||
license=('MIT')
|
||||
depends=(
|
||||
r
|
||||
r-biobase
|
||||
r-data.table
|
||||
r-digest
|
||||
r-epivizr
|
||||
r-epivizrdata
|
||||
r-epivizrserver
|
||||
r-epivizrstandalone
|
||||
r-genomeinfodb
|
||||
r-httr
|
||||
r-metagenomeseq
|
||||
r-phyloseq
|
||||
r-vegan
|
||||
)
|
||||
optdepends=(
|
||||
r-biocstyle
|
||||
r-etec16s
|
||||
r-experimenthub
|
||||
r-gss
|
||||
r-knitr
|
||||
r-matrixstats
|
||||
r-msd16s
|
||||
r-rmarkdown
|
||||
r-testthat
|
||||
r-tidyr
|
||||
)
|
||||
source=("https://bioconductor.org/packages/3.17/bioc/src/contrib/${_pkgname}_${_pkgver}.tar.gz")
|
||||
sha256sums=('bac67d6bc05818abd6bfaffc6969b74a7e5f00ae737b4de715b5584d0a7208b5')
|
||||
|
||||
build() {
|
||||
R CMD INSTALL ${_pkgname}_${_pkgver}.tar.gz -l "${srcdir}"
|
||||
}
|
||||
|
||||
package() {
|
||||
install -dm0755 "${pkgdir}/usr/lib/R/library"
|
||||
cp -a --no-preserve=ownership "${_pkgname}" "${pkgdir}/usr/lib/R/library"
|
||||
install -Dm644 "${_pkgname}/LICENSE" -t "${pkgdir}/usr/share/licenses/${pkgname}"
|
||||
}
|
||||
# vim:set ts=2 sw=2 et:
|
||||
|
|
@ -1,13 +0,0 @@
|
|||
#!/usr/bin/env python3
|
||||
from lilaclib import *
|
||||
|
||||
def pre_build():
|
||||
for line in edit_file('PKGBUILD'):
|
||||
if line.startswith('_pkgver='):
|
||||
line = f'_pkgver={_G.newver}'
|
||||
print(line)
|
||||
update_pkgver_and_pkgrel(_G.newver.replace(':', '.').replace('-', '.'))
|
||||
|
||||
def post_build():
|
||||
git_pkgbuild_commit()
|
||||
update_aur_repo()
|
||||
|
|
@ -1,22 +0,0 @@
|
|||
build_prefix: extra-x86_64
|
||||
maintainers:
|
||||
- github: starsareintherose
|
||||
email: kuoi@bioarchlinux.org
|
||||
repo_depends:
|
||||
- r-biobase
|
||||
- r-data.table
|
||||
- r-digest
|
||||
- r-epivizr
|
||||
- r-epivizrdata
|
||||
- r-epivizrserver
|
||||
- r-epivizrstandalone
|
||||
- r-genomeinfodb
|
||||
- r-httr
|
||||
- r-metagenomeseq
|
||||
- r-phyloseq
|
||||
- r-vegan
|
||||
update_on:
|
||||
- regex: metavizr_([\d._-]+).tar.gz
|
||||
source: regex
|
||||
url: https://bioconductor.org/packages/3.17/metavizr
|
||||
- alias: r
|
||||
|
|
@ -1,35 +0,0 @@
|
|||
# Maintainer: Guoyi Zhang <guoyizhang at malacology dot net>
|
||||
|
||||
_pkgname=optimr
|
||||
_pkgver=2019-12.16
|
||||
pkgname=r-${_pkgname,,}
|
||||
pkgver=2019.12.16
|
||||
pkgrel=6
|
||||
pkgdesc="A Replacement and Extension of the 'optim' Function"
|
||||
arch=('any')
|
||||
url="https://cran.r-project.org/package=${_pkgname}"
|
||||
license=('GPL')
|
||||
depends=(
|
||||
r
|
||||
r-numderiv
|
||||
r-optextras
|
||||
r-rcgmin
|
||||
r-rvmmin
|
||||
r-setrng
|
||||
)
|
||||
optdepends=(
|
||||
r-knitr
|
||||
r-rmarkdown
|
||||
)
|
||||
source=("https://cran.r-project.org/src/contrib/${_pkgname}_${_pkgver}.tar.gz")
|
||||
sha256sums=('73b1ed560ffd74599517e8baa4c5b293aa062e9c8d50219a3a24b63e72fa7c00')
|
||||
|
||||
build() {
|
||||
R CMD INSTALL ${_pkgname}_${_pkgver}.tar.gz -l "${srcdir}"
|
||||
}
|
||||
|
||||
package() {
|
||||
install -dm0755 "${pkgdir}/usr/lib/R/library"
|
||||
cp -a --no-preserve=ownership "${_pkgname}" "${pkgdir}/usr/lib/R/library"
|
||||
}
|
||||
# vim:set ts=2 sw=2 et:
|
||||
|
|
@ -1,13 +0,0 @@
|
|||
#!/usr/bin/env python3
|
||||
from lilaclib import *
|
||||
|
||||
def pre_build():
|
||||
for line in edit_file('PKGBUILD'):
|
||||
if line.startswith('_pkgver='):
|
||||
line = f'_pkgver={_G.newver}'
|
||||
print(line)
|
||||
update_pkgver_and_pkgrel(_G.newver.replace(':', '.').replace('-', '.'))
|
||||
|
||||
def post_build():
|
||||
git_pkgbuild_commit()
|
||||
update_aur_repo()
|
||||
|
|
@ -1,15 +0,0 @@
|
|||
build_prefix: extra-x86_64
|
||||
maintainers:
|
||||
- github: starsareintherose
|
||||
email: kuoi@bioarchlinux.org
|
||||
repo_depends:
|
||||
- r-numderiv
|
||||
- r-optextras
|
||||
- r-rcgmin
|
||||
- r-rvmmin
|
||||
- r-setrng
|
||||
update_on:
|
||||
- regex: optimr_([\d._-]+).tar.gz
|
||||
source: regex
|
||||
url: https://cran.r-project.org/package=optimr
|
||||
- alias: r
|
||||
|
|
@ -1,52 +0,0 @@
|
|||
# Maintainer: Guoyi Zhang <guoyizhang at malacology dot net>
|
||||
|
||||
_pkgname=perturbatr
|
||||
_pkgver=1.16.0
|
||||
pkgname=r-${_pkgname,,}
|
||||
pkgver=1.16.0
|
||||
pkgrel=5
|
||||
pkgdesc='Statistical Analysis of High-Throughput Genetic Perturbation Screens'
|
||||
arch=('any')
|
||||
url="https://bioconductor.org/packages/3.15/${_pkgname}"
|
||||
license=('GPL')
|
||||
depends=(
|
||||
r
|
||||
r-assertthat
|
||||
r-diffusr
|
||||
r-doparallel
|
||||
r-dplyr
|
||||
r-foreach
|
||||
r-formula.tools
|
||||
r-ggplot2
|
||||
r-igraph
|
||||
r-lazyeval
|
||||
r-lme4
|
||||
r-magrittr
|
||||
r-rlang
|
||||
r-scales
|
||||
r-tibble
|
||||
r-tidyr
|
||||
)
|
||||
optdepends=(
|
||||
r-biocstyle
|
||||
r-knitr
|
||||
r-lintr
|
||||
r-rmarkdown
|
||||
r-testthat
|
||||
)
|
||||
makedepends=(
|
||||
git
|
||||
)
|
||||
source=("git+https://git.bioconductor.org/packages/${_pkgname}")
|
||||
sha256sums=('SKIP')
|
||||
|
||||
build() {
|
||||
tar -zcvf ${_pkgname}_${_pkgver}.tar.gz ${_pkgname}
|
||||
R CMD INSTALL ${_pkgname}_${_pkgver}.tar.gz -l "${srcdir}"
|
||||
}
|
||||
|
||||
package() {
|
||||
install -dm0755 "${pkgdir}/usr/lib/R/library"
|
||||
cp -a --no-preserve=ownership "${_pkgname}" "${pkgdir}/usr/lib/R/library"
|
||||
}
|
||||
# vim:set ts=2 sw=2 et:
|
||||
|
|
@ -1,13 +0,0 @@
|
|||
#!/usr/bin/env python3
|
||||
from lilaclib import *
|
||||
|
||||
def pre_build():
|
||||
for line in edit_file('PKGBUILD'):
|
||||
if line.startswith('_pkgver='):
|
||||
line = f'_pkgver={_G.newver}'
|
||||
print(line)
|
||||
update_pkgver_and_pkgrel(_G.newver.replace(':', '.').replace('-', '.'))
|
||||
|
||||
def post_build():
|
||||
git_pkgbuild_commit()
|
||||
update_aur_repo()
|
||||
|
|
@ -1,25 +0,0 @@
|
|||
build_prefix: extra-x86_64
|
||||
maintainers:
|
||||
- github: starsareintherose
|
||||
email: kuoi@bioarchlinux.org
|
||||
repo_depends:
|
||||
- r-assertthat
|
||||
- r-diffusr
|
||||
- r-doparallel
|
||||
- r-dplyr
|
||||
- r-foreach
|
||||
- r-formula.tools
|
||||
- r-ggplot2
|
||||
- r-igraph
|
||||
- r-lazyeval
|
||||
- r-lme4
|
||||
- r-magrittr
|
||||
- r-rlang
|
||||
- r-scales
|
||||
- r-tibble
|
||||
- r-tidyr
|
||||
update_on:
|
||||
- regex: <td>(\d+.\d+.\d+)</td>
|
||||
source: regex
|
||||
url: https://bioconductor.org/packages/3.15/perturbatr
|
||||
- alias: r
|
||||
|
|
@ -1,38 +0,0 @@
|
|||
# Maintainer: Guoyi Zhang <guoyizhang at malacology dot net>
|
||||
|
||||
_pkgname=proFIA
|
||||
_pkgver=1.23.0
|
||||
pkgname=r-${_pkgname,,}
|
||||
pkgver=1.23.0
|
||||
pkgrel=3
|
||||
pkgdesc='Preprocessing of FIA-HRMS data'
|
||||
arch=('x86_64')
|
||||
url="https://bioconductor.org/packages/3.17/${_pkgname}"
|
||||
license=('CeCILL')
|
||||
depends=(
|
||||
r
|
||||
r-biobase
|
||||
r-biocparallel
|
||||
r-minpack.lm
|
||||
r-missforest
|
||||
r-pracma
|
||||
r-ropls
|
||||
r-xcms
|
||||
)
|
||||
optdepends=(
|
||||
r-biocgenerics
|
||||
r-knitr
|
||||
r-plasfia
|
||||
)
|
||||
source=("https://bioconductor.org/packages/3.17/bioc/src/contrib/${_pkgname}_${_pkgver}.tar.gz")
|
||||
sha256sums=('723bb21f11cfa9366f8ec1a229290f3383b621495d72d9df6e85b80088dc0878')
|
||||
|
||||
build() {
|
||||
R CMD INSTALL ${_pkgname}_${_pkgver}.tar.gz -l "${srcdir}"
|
||||
}
|
||||
|
||||
package() {
|
||||
install -dm0755 "${pkgdir}/usr/lib/R/library"
|
||||
cp -a --no-preserve=ownership "${_pkgname}" "${pkgdir}/usr/lib/R/library"
|
||||
}
|
||||
# vim:set ts=2 sw=2 et:
|
||||
|
|
@ -1,13 +0,0 @@
|
|||
#!/usr/bin/env python3
|
||||
from lilaclib import *
|
||||
|
||||
def pre_build():
|
||||
for line in edit_file('PKGBUILD'):
|
||||
if line.startswith('_pkgver='):
|
||||
line = f'_pkgver={_G.newver}'
|
||||
print(line)
|
||||
update_pkgver_and_pkgrel(_G.newver.replace(':', '.').replace('-', '.'))
|
||||
|
||||
def post_build():
|
||||
git_pkgbuild_commit()
|
||||
update_aur_repo()
|
||||
|
|
@ -1,17 +0,0 @@
|
|||
build_prefix: extra-x86_64
|
||||
maintainers:
|
||||
- github: starsareintherose
|
||||
email: kuoi@bioarchlinux.org
|
||||
repo_depends:
|
||||
- r-biobase
|
||||
- r-biocparallel
|
||||
- r-minpack.lm
|
||||
- r-missforest
|
||||
- r-pracma
|
||||
- r-ropls
|
||||
- r-xcms
|
||||
update_on:
|
||||
- regex: proFIA_([\d._-]+).tar.gz
|
||||
source: regex
|
||||
url: https://bioconductor.org/packages/3.17/proFIA
|
||||
- alias: r
|
||||
|
|
@ -1,39 +0,0 @@
|
|||
# Maintainer: Guoyi Zhang <guoyizhang at malacology dot net>
|
||||
|
||||
_pkgname=STAN
|
||||
_pkgver=2.26.2
|
||||
pkgname=r-${_pkgname,,}
|
||||
pkgver=2.26.2
|
||||
pkgrel=2
|
||||
pkgdesc='The Genomic STate ANnotation Package'
|
||||
arch=('x86_64')
|
||||
url="https://bioconductor.org/packages/3.17/${_pkgname}"
|
||||
license=('GPL')
|
||||
depends=(
|
||||
r
|
||||
r-biocgenerics
|
||||
r-genomeinfodb
|
||||
r-genomicranges
|
||||
r-gviz
|
||||
r-iranges
|
||||
r-poilog
|
||||
r-rsolnp
|
||||
r-s4vectors
|
||||
)
|
||||
optdepends=(
|
||||
r-biocstyle
|
||||
r-gplots
|
||||
r-knitr
|
||||
)
|
||||
source=("https://bioconductor.org/packages/3.17/bioc/src/contrib/${_pkgname}_${_pkgver}.tar.gz")
|
||||
sha256sums=('7b72748cb5e42f99f96eb34314230c3f047324d592680fb6c9762f15c582a435')
|
||||
|
||||
build() {
|
||||
R CMD INSTALL ${_pkgname}_${_pkgver}.tar.gz -l "${srcdir}"
|
||||
}
|
||||
|
||||
package() {
|
||||
install -dm0755 "${pkgdir}/usr/lib/R/library"
|
||||
cp -a --no-preserve=ownership "${_pkgname}" "${pkgdir}/usr/lib/R/library"
|
||||
}
|
||||
# vim:set ts=2 sw=2 et:
|
||||
|
|
@ -1,13 +0,0 @@
|
|||
#!/usr/bin/env python3
|
||||
from lilaclib import *
|
||||
|
||||
def pre_build():
|
||||
for line in edit_file('PKGBUILD'):
|
||||
if line.startswith('_pkgver='):
|
||||
line = f'_pkgver={_G.newver}'
|
||||
print(line)
|
||||
update_pkgver_and_pkgrel(_G.newver.replace(':', '.').replace('-', '.'))
|
||||
|
||||
def post_build():
|
||||
git_pkgbuild_commit()
|
||||
update_aur_repo()
|
||||
|
|
@ -1,18 +0,0 @@
|
|||
build_prefix: extra-x86_64
|
||||
maintainers:
|
||||
- github: starsareintherose
|
||||
email: kuoi@bioarchlinux.org
|
||||
repo_depends:
|
||||
- r-biocgenerics
|
||||
- r-genomeinfodb
|
||||
- r-genomicranges
|
||||
- r-gviz
|
||||
- r-iranges
|
||||
- r-poilog
|
||||
- r-rsolnp
|
||||
- r-s4vectors
|
||||
update_on:
|
||||
- regex: STAN_([\d._-]+).tar.gz
|
||||
source: regex
|
||||
url: https://bioconductor.org/packages/3.17/STAN
|
||||
- alias: r
|
||||
|
|
@ -1,45 +0,0 @@
|
|||
# Maintainer: Guoyi Zhang <guoyizhang at malacology dot net>
|
||||
|
||||
_pkgname=TarSeqQC
|
||||
_pkgver=1.28.0
|
||||
pkgname=r-${_pkgname,,}
|
||||
pkgver=1.28.0
|
||||
pkgrel=3
|
||||
pkgdesc='TARgeted SEQuencing Experiment Quality Control'
|
||||
arch=('any')
|
||||
url="https://bioconductor.org/packages/3.17/${_pkgname}"
|
||||
license=('GPL')
|
||||
depends=(
|
||||
r
|
||||
r-biocgenerics
|
||||
r-biocparallel
|
||||
r-biostrings
|
||||
r-cowplot
|
||||
r-genomeinfodb
|
||||
r-genomicalignments
|
||||
r-genomicranges
|
||||
r-ggplot2
|
||||
r-hmisc
|
||||
r-iranges
|
||||
r-openxlsx
|
||||
r-plyr
|
||||
r-reshape2
|
||||
r-rsamtools
|
||||
r-s4vectors
|
||||
)
|
||||
optdepends=(
|
||||
r-biocmanager
|
||||
r-runit
|
||||
)
|
||||
source=("https://bioconductor.org/packages/3.17/bioc/src/contrib/${_pkgname}_${_pkgver}.tar.gz")
|
||||
sha256sums=('65c8426620a3cede237452b3ff7bb84577a90e364fdb06e7a521ad563d523592')
|
||||
|
||||
build() {
|
||||
R CMD INSTALL ${_pkgname}_${_pkgver}.tar.gz -l "${srcdir}"
|
||||
}
|
||||
|
||||
package() {
|
||||
install -dm0755 "${pkgdir}/usr/lib/R/library"
|
||||
cp -a --no-preserve=ownership "${_pkgname}" "${pkgdir}/usr/lib/R/library"
|
||||
}
|
||||
# vim:set ts=2 sw=2 et:
|
||||
|
|
@ -1,13 +0,0 @@
|
|||
#!/usr/bin/env python3
|
||||
from lilaclib import *
|
||||
|
||||
def pre_build():
|
||||
for line in edit_file('PKGBUILD'):
|
||||
if line.startswith('_pkgver='):
|
||||
line = f'_pkgver={_G.newver}'
|
||||
print(line)
|
||||
update_pkgver_and_pkgrel(_G.newver.replace(':', '.').replace('-', '.'))
|
||||
|
||||
def post_build():
|
||||
git_pkgbuild_commit()
|
||||
update_aur_repo()
|
||||
|
|
@ -1,25 +0,0 @@
|
|||
build_prefix: extra-x86_64
|
||||
maintainers:
|
||||
- github: starsareintherose
|
||||
email: kuoi@bioarchlinux.org
|
||||
repo_depends:
|
||||
- r-biocgenerics
|
||||
- r-biocparallel
|
||||
- r-biostrings
|
||||
- r-cowplot
|
||||
- r-genomeinfodb
|
||||
- r-genomicalignments
|
||||
- r-genomicranges
|
||||
- r-ggplot2
|
||||
- r-hmisc
|
||||
- r-iranges
|
||||
- r-openxlsx
|
||||
- r-plyr
|
||||
- r-reshape2
|
||||
- r-rsamtools
|
||||
- r-s4vectors
|
||||
update_on:
|
||||
- regex: TarSeqQC_([\d._-]+).tar.gz
|
||||
source: regex
|
||||
url: https://bioconductor.org/packages/3.17/TarSeqQC
|
||||
- alias: r
|
||||
|
|
@ -1,32 +0,0 @@
|
|||
# system requirements: C++11, GNU make
|
||||
# Maintainer: Guoyi Zhang <guoyizhang at malacology dot net>
|
||||
|
||||
_pkgname=uchardet
|
||||
_pkgver=1.1.1
|
||||
pkgname=r-${_pkgname,,}
|
||||
pkgver=1.1.1
|
||||
pkgrel=4
|
||||
pkgdesc='The Universal Character Encoding Detector'
|
||||
arch=('x86_64')
|
||||
url="https://cran.r-project.org/package=${_pkgname}"
|
||||
license=('GPL')
|
||||
depends=(
|
||||
r
|
||||
)
|
||||
optdepends=(
|
||||
r-knitr
|
||||
r-rmarkdown
|
||||
r-tinytest
|
||||
)
|
||||
source=("https://cran.r-project.org/src/contrib/${_pkgname}_${_pkgver}.tar.gz")
|
||||
sha256sums=('b23129aa6a8abdfb7118e8b469abdb9e4a3a1ccb9ca50627ec0d577d00f27d54')
|
||||
|
||||
build() {
|
||||
R CMD INSTALL ${_pkgname}_${_pkgver}.tar.gz -l "${srcdir}"
|
||||
}
|
||||
|
||||
package() {
|
||||
install -dm0755 "${pkgdir}/usr/lib/R/library"
|
||||
cp -a --no-preserve=ownership "${_pkgname}" "${pkgdir}/usr/lib/R/library"
|
||||
}
|
||||
# vim:set ts=2 sw=2 et:
|
||||
|
|
@ -1,13 +0,0 @@
|
|||
#!/usr/bin/env python3
|
||||
from lilaclib import *
|
||||
|
||||
def pre_build():
|
||||
for line in edit_file('PKGBUILD'):
|
||||
if line.startswith('_pkgver='):
|
||||
line = f'_pkgver={_G.newver}'
|
||||
print(line)
|
||||
update_pkgver_and_pkgrel(_G.newver.replace(':', '.').replace('-', '.'))
|
||||
|
||||
def post_build():
|
||||
git_pkgbuild_commit()
|
||||
update_aur_repo()
|
||||
|
|
@ -1,9 +0,0 @@
|
|||
build_prefix: extra-x86_64
|
||||
maintainers:
|
||||
- github: starsareintherose
|
||||
email: kuoi@bioarchlinux.org
|
||||
update_on:
|
||||
- regex: uchardet_([\d._-]+).tar.gz
|
||||
source: regex
|
||||
url: https://cran.r-project.org/package=uchardet
|
||||
- alias: r
|
||||
Loading…
Add table
Reference in a new issue