mirror of
https://github.com/BioArchLinux/Packages.git
synced 2025-03-10 12:02:42 +00:00
r-*: use metadata checks for several packages
This commit is contained in:
Pekka Ristola
parent
b6e4318ed2
commit
fd49eeeb5d
24 changed files with 180 additions and 152 deletions
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@ -3,12 +3,12 @@
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_pkgname=flowPlots
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_pkgver=1.50.0
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pkgname=r-${_pkgname,,}
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pkgver=1.50.0
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pkgver=${_pkgver//-/.}
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pkgrel=1
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pkgdesc='flowPlots: analysis plots and data class for gated flow cytometry data'
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arch=('any')
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url="https://bioconductor.org/packages/${_pkgname}"
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license=('Artistic2.0')
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pkgdesc="analysis plots and data class for gated flow cytometry data"
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arch=(any)
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url="https://bioconductor.org/packages/$_pkgname"
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license=('Artistic-2.0')
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depends=(
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r
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)
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@ -16,14 +16,15 @@ optdepends=(
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r-vcd
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)
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source=("https://bioconductor.org/packages/release/bioc/src/contrib/${_pkgname}_${_pkgver}.tar.gz")
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sha256sums=('9ac84c0a3af3071a4dd2dbc70883105eced78c1996f1f282002dd0ccea7cb8d1')
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md5sums=('523b0d79646813f56d711d3e0f38a5e9')
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b2sums=('5b35b308070ff5bef1d1dd8ade1633843eb34202f32dcc311fe8519b28184e4d940446bec0f71d898d13acdc70a9899338f3d10753f62aeee544ede5ca309b92')
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build() {
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R CMD INSTALL ${_pkgname}_${_pkgver}.tar.gz -l "${srcdir}"
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mkdir build
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R CMD INSTALL -l build "$_pkgname"
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}
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package() {
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install -dm0755 "${pkgdir}/usr/lib/R/library"
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cp -a --no-preserve=ownership "${_pkgname}" "${pkgdir}/usr/lib/R/library"
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install -d "$pkgdir/usr/lib/R/library"
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cp -a --no-preserve=ownership "build/$_pkgname" "$pkgdir/usr/lib/R/library"
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}
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# vim:set ts=2 sw=2 et:
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@ -1,12 +1,13 @@
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#!/usr/bin/env python3
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from lilaclib import *
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import os
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import sys
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sys.path.append(os.path.normpath(f'{__file__}/../../../lilac-extensions'))
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from lilac_r_utils import r_pre_build
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def pre_build():
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for line in edit_file('PKGBUILD'):
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if line.startswith('_pkgver='):
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line = f'_pkgver={_G.newver}'
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print(line)
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update_pkgver_and_pkgrel(_G.newver.replace(':', '.').replace('-', '.'))
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r_pre_build(_G)
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def post_build():
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git_pkgbuild_commit()
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@ -3,7 +3,8 @@ maintainers:
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- github: starsareintherose
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email: kuoi@bioarchlinux.org
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update_on:
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- regex: flowPlots_([\d._-]+).tar.gz
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source: regex
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url: https://bioconductor.org/packages/flowPlots
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- source: rpkgs
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pkgname: flowPlots
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repo: bioc
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md5: true
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- alias: r
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@ -3,12 +3,12 @@
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_pkgname=fmrs
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_pkgver=1.12.0
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pkgname=r-${_pkgname,,}
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pkgver=1.12.0
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pkgver=${_pkgver//-/.}
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pkgrel=1
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pkgdesc='Variable Selection in Finite Mixture of AFT Regression and FMR'
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arch=('x86_64')
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url="https://bioconductor.org/packages/${_pkgname}"
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license=('GPL')
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pkgdesc="Variable Selection in Finite Mixture of AFT Regression and FMR Models"
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arch=(x86_64)
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url="https://bioconductor.org/packages/$_pkgname"
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license=('GPL-3.0-only')
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depends=(
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r
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)
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@ -16,17 +16,17 @@ optdepends=(
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r-biocgenerics
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r-knitr
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r-testthat
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r-utils
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)
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source=("https://bioconductor.org/packages/release/bioc/src/contrib/${_pkgname}_${_pkgver}.tar.gz")
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sha256sums=('6a9566cda423e834136eed456b6f702de7ed37c7624b06656d60417b793e57e3')
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md5sums=('ccf41504ab27d93464e555b363ef406a')
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b2sums=('f8b92bfe2b48cf70c50532ab837b13924006632d4265f4382ccc4609bcd9ea2fc0495fe4a2bb42a124482ed867444684272b235533bf2c367c6703b93854f0ca')
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build() {
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R CMD INSTALL ${_pkgname}_${_pkgver}.tar.gz -l "${srcdir}"
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mkdir build
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R CMD INSTALL -l build "$_pkgname"
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}
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package() {
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install -dm0755 "${pkgdir}/usr/lib/R/library"
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cp -a --no-preserve=ownership "${_pkgname}" "${pkgdir}/usr/lib/R/library"
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install -d "$pkgdir/usr/lib/R/library"
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cp -a --no-preserve=ownership "build/$_pkgname" "$pkgdir/usr/lib/R/library"
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}
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# vim:set ts=2 sw=2 et:
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@ -1,12 +1,13 @@
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#!/usr/bin/env python3
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from lilaclib import *
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import os
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import sys
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sys.path.append(os.path.normpath(f'{__file__}/../../../lilac-extensions'))
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from lilac_r_utils import r_pre_build
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def pre_build():
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for line in edit_file('PKGBUILD'):
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if line.startswith('_pkgver='):
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line = f'_pkgver={_G.newver}'
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print(line)
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update_pkgver_and_pkgrel(_G.newver.replace(':', '.').replace('-', '.'))
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r_pre_build(_G)
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def post_build():
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git_pkgbuild_commit()
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@ -3,7 +3,8 @@ maintainers:
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- github: starsareintherose
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email: kuoi@bioarchlinux.org
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update_on:
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- regex: fmrs_([\d._-]+).tar.gz
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source: regex
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url: https://bioconductor.org/packages/fmrs
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- source: rpkgs
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pkgname: fmrs
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repo: bioc
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md5: true
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- alias: r
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@ -3,12 +3,12 @@
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_pkgname=garfield
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_pkgver=1.30.0
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pkgname=r-${_pkgname,,}
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pkgver=1.30.0
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pkgver=${_pkgver//-/.}
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pkgrel=1
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pkgdesc='GWAS Analysis of Regulatory or Functional Information Enrichment with LD correction'
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arch=('x86_64')
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url="https://bioconductor.org/packages/${_pkgname}"
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license=('GPL')
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pkgdesc="GWAS Analysis of Regulatory or Functional Information Enrichment with LD correction"
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arch=(x86_64)
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url="https://bioconductor.org/packages/$_pkgname"
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license=('GPL-3.0-only')
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depends=(
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r
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)
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@ -16,14 +16,15 @@ optdepends=(
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r-knitr
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)
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source=("https://bioconductor.org/packages/release/bioc/src/contrib/${_pkgname}_${_pkgver}.tar.gz")
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sha256sums=('5841ed36941fad56a90d254a6396301432014af124144593d88e0efd72008a06')
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md5sums=('bf1974925a6c10b95ada01ff6d46bf15')
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b2sums=('df24e1ee2360e81ee2ac1b7f4a8a32e9dfa14610575d4dbc85831859960ceaa796c0c7b9cceed05ea933411aadd31ac8ef8af77f4809a9970ee9ed39bf40c467')
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build() {
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R CMD INSTALL ${_pkgname}_${_pkgver}.tar.gz -l "${srcdir}"
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mkdir build
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R CMD INSTALL -l build "$_pkgname"
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}
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package() {
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install -dm0755 "${pkgdir}/usr/lib/R/library"
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cp -a --no-preserve=ownership "${_pkgname}" "${pkgdir}/usr/lib/R/library"
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install -d "$pkgdir/usr/lib/R/library"
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cp -a --no-preserve=ownership "build/$_pkgname" "$pkgdir/usr/lib/R/library"
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}
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# vim:set ts=2 sw=2 et:
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@ -1,12 +1,13 @@
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#!/usr/bin/env python3
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from lilaclib import *
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import os
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import sys
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sys.path.append(os.path.normpath(f'{__file__}/../../../lilac-extensions'))
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from lilac_r_utils import r_pre_build
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def pre_build():
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for line in edit_file('PKGBUILD'):
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if line.startswith('_pkgver='):
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line = f'_pkgver={_G.newver}'
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print(line)
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update_pkgver_and_pkgrel(_G.newver.replace(':', '.').replace('-', '.'))
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r_pre_build(_G)
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def post_build():
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git_pkgbuild_commit()
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@ -3,7 +3,8 @@ maintainers:
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- github: starsareintherose
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email: kuoi@bioarchlinux.org
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update_on:
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- regex: garfield_([\d._-]+).tar.gz
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source: regex
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url: https://bioconductor.org/packages/garfield
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- source: rpkgs
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pkgname: garfield
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repo: bioc
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md5: true
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- alias: r
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@ -4,24 +4,25 @@
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_pkgname=gbRd
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_pkgver=0.4-11
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pkgname=r-${_pkgname,,}
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pkgver=0.4.11
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pkgver=${_pkgver//-/.}
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pkgrel=3
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pkgdesc='Utilities for processing Rd objects and files'
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arch=('any')
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url="https://cran.r-project.org/package=${_pkgname}"
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license=('GPL')
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pkgdesc="Utilities for processing Rd objects and files"
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arch=(any)
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url="https://cran.r-project.org/package=$_pkgname"
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license=('GPL-2.0-or-later')
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depends=(
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r
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)
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source=("https://cran.r-project.org/src/contrib/${_pkgname}_${_pkgver}.tar.gz")
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sha256sums=('0251f6dd6ca987a74acc4765838b858f1edb08b71dbad9e563669b58783ea91b')
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md5sums=('7d43d8e79f3cbdc917f44817a34d2d37')
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b2sums=('a7a68f4c58848057567252e2b437016a17bb95d98449b7268a5327d9c40d88863572342add28735599965308e7bba25d3c1e7be8b06c3283e6402ccec3082665')
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build() {
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R CMD INSTALL ${_pkgname}_${_pkgver}.tar.gz -l "${srcdir}"
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mkdir build
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R CMD INSTALL -l build "$_pkgname"
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}
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package() {
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install -dm0755 "${pkgdir}/usr/lib/R/library"
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cp -a --no-preserve=ownership "${_pkgname}" "${pkgdir}/usr/lib/R/library"
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install -d "$pkgdir/usr/lib/R/library"
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cp -a --no-preserve=ownership "build/$_pkgname" "$pkgdir/usr/lib/R/library"
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}
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# vim:set ts=2 sw=2 et:
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@ -1,12 +1,16 @@
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#!/usr/bin/env python3
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from lilaclib import *
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import os
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import sys
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sys.path.append(os.path.normpath(f'{__file__}/../../../lilac-extensions'))
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from lilac_r_utils import r_pre_build
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def pre_build():
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for line in edit_file('PKGBUILD'):
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if line.startswith('_pkgver='):
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line = f'_pkgver={_G.newver}'
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print(line)
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update_pkgver_and_pkgrel(_G.newver.replace(':', '.').replace('-', '.'))
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r_pre_build(
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_G,
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expect_needscompilation = "",
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)
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def post_build():
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git_pkgbuild_commit()
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@ -1,9 +1,10 @@
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build_prefix: extra-x86_64
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maintainers:
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- github: sukanka
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email: su975853527@gmail.com
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- github: sukanka
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email: su975853527@gmail.com
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update_on:
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- regex: gbRd_([\d._-]+).tar.gz
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source: regex
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url: https://cran.r-project.org/package=gbRd
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- alias: r
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- source: rpkgs
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pkgname: gbRd
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repo: cran
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md5: true
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- alias: r
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@ -3,24 +3,25 @@
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_pkgname=genoCN
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_pkgver=1.54.0
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pkgname=r-${_pkgname,,}
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pkgver=1.54.0
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pkgver=${_pkgver//-/.}
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pkgrel=1
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pkgdesc='genotyping and copy number study tools'
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arch=('x86_64')
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url="https://bioconductor.org/packages/${_pkgname}"
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license=('GPL')
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pkgdesc="genotyping and copy number study tools"
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arch=(x86_64)
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url="https://bioconductor.org/packages/$_pkgname"
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license=('GPL-2.0-or-later')
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depends=(
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r
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)
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source=("https://bioconductor.org/packages/release/bioc/src/contrib/${_pkgname}_${_pkgver}.tar.gz")
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sha256sums=('f3ddee592b99af2e2fb9b564e58930f117e5dbbe5a794dc6eee6ecdaf8519f88')
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md5sums=('ebc7fc5cb3b5c2bcd98718a7bcd95d6a')
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b2sums=('f1ba4cf2c955c7ae94a4bca074110f396a08e2dc1e42fe534266d76848a5c2528ab434b0147c3f0406d5fb708dca1df0603c67709153b9854643bd26806df7c2')
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build() {
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R CMD INSTALL ${_pkgname}_${_pkgver}.tar.gz -l "${srcdir}"
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mkdir build
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R CMD INSTALL -l build "$_pkgname"
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}
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package() {
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install -dm0755 "${pkgdir}/usr/lib/R/library"
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cp -a --no-preserve=ownership "${_pkgname}" "${pkgdir}/usr/lib/R/library"
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install -d "$pkgdir/usr/lib/R/library"
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cp -a --no-preserve=ownership "build/$_pkgname" "$pkgdir/usr/lib/R/library"
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}
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# vim:set ts=2 sw=2 et:
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|
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@ -1,12 +1,13 @@
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#!/usr/bin/env python3
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from lilaclib import *
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import os
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import sys
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sys.path.append(os.path.normpath(f'{__file__}/../../../lilac-extensions'))
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from lilac_r_utils import r_pre_build
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|
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def pre_build():
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for line in edit_file('PKGBUILD'):
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if line.startswith('_pkgver='):
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line = f'_pkgver={_G.newver}'
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print(line)
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update_pkgver_and_pkgrel(_G.newver.replace(':', '.').replace('-', '.'))
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r_pre_build(_G)
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def post_build():
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git_pkgbuild_commit()
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|
|
|
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|
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@ -3,7 +3,8 @@ maintainers:
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- github: starsareintherose
|
||||
email: kuoi@bioarchlinux.org
|
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update_on:
|
||||
- regex: genoCN_([\d._-]+).tar.gz
|
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source: regex
|
||||
url: https://bioconductor.org/packages/genoCN
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- source: rpkgs
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pkgname: genoCN
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repo: bioc
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md5: true
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- alias: r
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|
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|
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@ -3,12 +3,12 @@
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_pkgname=globalSeq
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_pkgver=1.30.0
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pkgname=r-${_pkgname,,}
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pkgver=1.30.0
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pkgver=${_pkgver//-/.}
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pkgrel=1
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pkgdesc='Global Test for Counts'
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arch=('any')
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url="https://bioconductor.org/packages/${_pkgname}"
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license=('GPL')
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pkgdesc="Global Test for Counts"
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arch=(any)
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url="https://bioconductor.org/packages/$_pkgname"
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license=('GPL-3.0-only')
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depends=(
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r
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)
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|
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@ -19,14 +19,15 @@ optdepends=(
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r-testthat
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)
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source=("https://bioconductor.org/packages/release/bioc/src/contrib/${_pkgname}_${_pkgver}.tar.gz")
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sha256sums=('e71a151ac910673542fbb47fd6c453cc00c6f21630fde9cf645ba39a399318ac')
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md5sums=('1b427214cf1345b8d75ba69dc02adb77')
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b2sums=('aa04d988e6f966e02ab983eb008bf26df43741297f2d01159aabf9dd2b28fde158d6c41c71f7904fb85573e65a02db7b87930f40ef104fa533cf623991f5feb9')
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build() {
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R CMD INSTALL ${_pkgname}_${_pkgver}.tar.gz -l "${srcdir}"
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mkdir build
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||||
R CMD INSTALL -l build "$_pkgname"
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}
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||||
|
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package() {
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install -dm0755 "${pkgdir}/usr/lib/R/library"
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||||
cp -a --no-preserve=ownership "${_pkgname}" "${pkgdir}/usr/lib/R/library"
|
||||
install -d "$pkgdir/usr/lib/R/library"
|
||||
cp -a --no-preserve=ownership "build/$_pkgname" "$pkgdir/usr/lib/R/library"
|
||||
}
|
||||
# vim:set ts=2 sw=2 et:
|
||||
|
|
|
|||
|
|
@ -1,12 +1,13 @@
|
|||
#!/usr/bin/env python3
|
||||
from lilaclib import *
|
||||
|
||||
import os
|
||||
import sys
|
||||
sys.path.append(os.path.normpath(f'{__file__}/../../../lilac-extensions'))
|
||||
from lilac_r_utils import r_pre_build
|
||||
|
||||
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('-', '.'))
|
||||
r_pre_build(_G)
|
||||
|
||||
def post_build():
|
||||
git_pkgbuild_commit()
|
||||
|
|
|
|||
|
|
@ -3,7 +3,8 @@ maintainers:
|
|||
- github: starsareintherose
|
||||
email: kuoi@bioarchlinux.org
|
||||
update_on:
|
||||
- regex: globalSeq_([\d._-]+).tar.gz
|
||||
source: regex
|
||||
url: https://bioconductor.org/packages/globalSeq
|
||||
- source: rpkgs
|
||||
pkgname: globalSeq
|
||||
repo: bioc
|
||||
md5: true
|
||||
- alias: r
|
||||
|
|
|
|||
|
|
@ -3,27 +3,25 @@
|
|||
_pkgname=gpls
|
||||
_pkgver=1.74.0
|
||||
pkgname=r-${_pkgname,,}
|
||||
pkgver=1.74.0
|
||||
pkgver=${_pkgver//-/.}
|
||||
pkgrel=1
|
||||
pkgdesc='Classification using generalized partial least squares'
|
||||
arch=('any')
|
||||
url="https://bioconductor.org/packages/${_pkgname}"
|
||||
license=('Artistic2.0')
|
||||
pkgdesc="Classification using generalized partial least squares"
|
||||
arch=(any)
|
||||
url="https://bioconductor.org/packages/$_pkgname"
|
||||
license=('Artistic-2.0')
|
||||
depends=(
|
||||
r
|
||||
)
|
||||
optdepends=(
|
||||
r-mass
|
||||
)
|
||||
source=("https://bioconductor.org/packages/release/bioc/src/contrib/${_pkgname}_${_pkgver}.tar.gz")
|
||||
sha256sums=('406afeee1ab2ebcc3a5ec952acf0143e558d130668a48e36147e612e196ed5fc')
|
||||
md5sums=('db6bc720156a5f7571a34e64b1189d3b')
|
||||
b2sums=('f647d89a455f050a3189a23cca82b14697f1ea5aebd6851900353cee91747f52f66f4d97550fa0d8c14a57fd97993ed8fadd11110aaf108cfd91e8d7a2ba61ca')
|
||||
|
||||
build() {
|
||||
R CMD INSTALL ${_pkgname}_${_pkgver}.tar.gz -l "${srcdir}"
|
||||
mkdir build
|
||||
R CMD INSTALL -l build "$_pkgname"
|
||||
}
|
||||
|
||||
package() {
|
||||
install -dm0755 "${pkgdir}/usr/lib/R/library"
|
||||
cp -a --no-preserve=ownership "${_pkgname}" "${pkgdir}/usr/lib/R/library"
|
||||
install -d "$pkgdir/usr/lib/R/library"
|
||||
cp -a --no-preserve=ownership "build/$_pkgname" "$pkgdir/usr/lib/R/library"
|
||||
}
|
||||
# vim:set ts=2 sw=2 et:
|
||||
|
|
|
|||
|
|
@ -1,12 +1,13 @@
|
|||
#!/usr/bin/env python3
|
||||
from lilaclib import *
|
||||
|
||||
import os
|
||||
import sys
|
||||
sys.path.append(os.path.normpath(f'{__file__}/../../../lilac-extensions'))
|
||||
from lilac_r_utils import r_pre_build
|
||||
|
||||
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('-', '.'))
|
||||
r_pre_build(_G)
|
||||
|
||||
def post_build():
|
||||
git_pkgbuild_commit()
|
||||
|
|
|
|||
|
|
@ -3,7 +3,8 @@ maintainers:
|
|||
- github: starsareintherose
|
||||
email: kuoi@bioarchlinux.org
|
||||
update_on:
|
||||
- regex: gpls_([\d._-]+).tar.gz
|
||||
source: regex
|
||||
url: https://bioconductor.org/packages/gpls
|
||||
- source: rpkgs
|
||||
pkgname: gpls
|
||||
repo: bioc
|
||||
md5: true
|
||||
- alias: r
|
||||
|
|
|
|||
|
|
@ -3,25 +3,28 @@
|
|||
_pkgname=GraphAlignment
|
||||
_pkgver=1.66.0
|
||||
pkgname=r-${_pkgname,,}
|
||||
pkgver=1.66.0
|
||||
pkgver=${_pkgver//-/.}
|
||||
pkgrel=1
|
||||
pkgdesc='GraphAlignment'
|
||||
arch=('x86_64')
|
||||
url="https://bioconductor.org/packages/${_pkgname}"
|
||||
license=('custom')
|
||||
pkgdesc="GraphAlignment"
|
||||
arch=(x86_64)
|
||||
url="https://bioconductor.org/packages/$_pkgname"
|
||||
license=('LicenseRef-GraphAlignment')
|
||||
depends=(
|
||||
r
|
||||
)
|
||||
source=("https://bioconductor.org/packages/release/bioc/src/contrib/${_pkgname}_${_pkgver}.tar.gz")
|
||||
sha256sums=('1a446d803266504325225dab0657932018e94c954fd2121769abd4baed90513e')
|
||||
md5sums=('0bc71a4722d0771d97671e81103bc8bb')
|
||||
b2sums=('e0a493bc0ef7423360c0dd3c9566666adbfcdb61410db2abb4fc34bc6582f0c651a7eefd58acf15d252fc15316534bba05d725b29587704eacdf37dea7ef8880')
|
||||
|
||||
build() {
|
||||
R CMD INSTALL ${_pkgname}_${_pkgver}.tar.gz -l "${srcdir}"
|
||||
mkdir build
|
||||
R CMD INSTALL -l build "$_pkgname"
|
||||
}
|
||||
|
||||
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}"
|
||||
install -d "$pkgdir/usr/lib/R/library"
|
||||
cp -a --no-preserve=ownership "build/$_pkgname" "$pkgdir/usr/lib/R/library"
|
||||
|
||||
install -d "$pkgdir/usr/share/licenses/$pkgname"
|
||||
ln -s "/usr/lib/R/library/$_pkgname/LICENSE" "$pkgdir/usr/share/licenses/$pkgname"
|
||||
}
|
||||
# vim:set ts=2 sw=2 et:
|
||||
|
|
|
|||
|
|
@ -1,12 +1,16 @@
|
|||
#!/usr/bin/env python3
|
||||
from lilaclib import *
|
||||
|
||||
import os
|
||||
import sys
|
||||
sys.path.append(os.path.normpath(f'{__file__}/../../../lilac-extensions'))
|
||||
from lilac_r_utils import r_pre_build
|
||||
|
||||
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('-', '.'))
|
||||
r_pre_build(
|
||||
_G,
|
||||
expect_license = "file LICENSE",
|
||||
)
|
||||
|
||||
def post_build():
|
||||
git_pkgbuild_commit()
|
||||
|
|
|
|||
|
|
@ -3,7 +3,8 @@ maintainers:
|
|||
- github: starsareintherose
|
||||
email: kuoi@bioarchlinux.org
|
||||
update_on:
|
||||
- regex: GraphAlignment_([\d._-]+).tar.gz
|
||||
source: regex
|
||||
url: https://bioconductor.org/packages/GraphAlignment
|
||||
- source: rpkgs
|
||||
pkgname: GraphAlignment
|
||||
repo: bioc
|
||||
md5: true
|
||||
- alias: r
|
||||
|
|
|
|||
Loading…
Add table
Reference in a new issue