diff --git a/BioArchLinux/r-tekrabber/PKGBUILD b/BioArchLinux/r-tekrabber/PKGBUILD new file mode 100644 index 0000000000..cacf7cc0af --- /dev/null +++ b/BioArchLinux/r-tekrabber/PKGBUILD @@ -0,0 +1,52 @@ +# Maintainer: Pekka Ristola + +_pkgname=TEKRABber +_pkgver=1.6.0 +pkgname=r-${_pkgname,,} +pkgver=${_pkgver//-/.} +pkgrel=1 +pkgdesc="An R package estimates the correlations of orthologs and transposable elements between two species" +arch=(x86_64) +url="https://bioconductor.org/packages/${_pkgname}" +license=(LGPL3) +depends=( + r-apeglm + r-biomart + r-deseq2 + r-dplyr + r-magrittr + r-rcpp + r-scbn +) +checkdepends=( + r-testthat +) +optdepends=( + r-biocstyle + r-bslib + r-ggplot2 + r-ggpubr + r-knitr + r-plotly + r-rmarkdown + r-shiny + r-testthat +) +source=("https://bioconductor.org/packages/release/bioc/src/contrib/${_pkgname}_${_pkgver}.tar.gz") +md5sums=('145026d8a5e02ec94f8a2a1f5405851e') +sha256sums=('7495840995103b2303fb7d0f12440aa43e5d6d2e6e72e8fb9983c9f3da891950') + +build() { + mkdir -p build + R CMD INSTALL "$_pkgname" -l build +} + +check() { + cd "$_pkgname/tests" + R_LIBS="$srcdir/build" NOT_CRAN=true Rscript --vanilla testthat.R +} + +package() { + install -d "$pkgdir/usr/lib/R/library" + cp -a --no-preserve=ownership "build/$_pkgname" "$pkgdir/usr/lib/R/library" +} diff --git a/BioArchLinux/r-tekrabber/lilac.py b/BioArchLinux/r-tekrabber/lilac.py new file mode 100644 index 0000000000..807047611d --- /dev/null +++ b/BioArchLinux/r-tekrabber/lilac.py @@ -0,0 +1,17 @@ +#!/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(): + r_pre_build( + _G, + expect_license = "LGPL (>=3)", + ) + +def post_build(): + git_pkgbuild_commit() + update_aur_repo() diff --git a/BioArchLinux/r-tekrabber/lilac.yaml b/BioArchLinux/r-tekrabber/lilac.yaml new file mode 100644 index 0000000000..3401f01867 --- /dev/null +++ b/BioArchLinux/r-tekrabber/lilac.yaml @@ -0,0 +1,20 @@ +build_prefix: extra-x86_64 +maintainers: +- github: pekkarr + email: pekkarr@protonmail.com +repo_depends: +- r-apeglm +- r-biomart +- r-deseq2 +- r-dplyr +- r-magrittr +- r-rcpp +- r-scbn +repo_makedepends: +- r-testthat +update_on: +- source: rpkgs + pkgname: TEKRABber + repo: bioc + md5: true +- alias: r