diff --git a/BioArchLinux/r-ifaa/PKGBUILD b/BioArchLinux/r-ifaa/PKGBUILD new file mode 100644 index 0000000000..e9db919bfb --- /dev/null +++ b/BioArchLinux/r-ifaa/PKGBUILD @@ -0,0 +1,54 @@ +# Maintainer: Pekka Ristola + +_pkgname=IFAA +_pkgver=1.2.0 +pkgname=r-${_pkgname,,} +pkgver=${_pkgver//-/.} +pkgrel=1 +pkgdesc="Robust Inference for Absolute Abundance in Microbiome Analysis" +arch=(any) +url="https://bioconductor.org/packages/${_pkgname}" +license=(GPL2) +depends=( + r-desctools + r-doparallel + r-dorng + r-foreach + r-glmnet + r-hdci + r-mathjaxr + r-matrixextra + r-parallelly + r-s4vectors + r-stringr + r-summarizedexperiment +) +checkdepends=( + r-biocgenerics + r-runit +) +optdepends=( + r-biocgenerics + r-biocstyle + r-knitr + r-rmarkdown + r-runit +) +source=("https://bioconductor.org/packages/release/bioc/src/contrib/${_pkgname}_${_pkgver}.tar.gz") +md5sums=('2fed85b602afd876a82a6f150f7edcc6') +sha256sums=('b35d7c37bb908bb3efaab5796eb45226c7bfca005260091fe324fb36153a7daf') + +build() { + mkdir -p build + R CMD INSTALL "$_pkgname" -l build +} + +check() { + cd "$_pkgname/tests" + R_LIBS="$srcdir/build" Rscript --vanilla runTests.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-ifaa/lilac.py b/BioArchLinux/r-ifaa/lilac.py new file mode 100644 index 0000000000..b5cdb057c5 --- /dev/null +++ b/BioArchLinux/r-ifaa/lilac.py @@ -0,0 +1,14 @@ +#!/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) + +def post_build(): + git_pkgbuild_commit() + update_aur_repo() diff --git a/BioArchLinux/r-ifaa/lilac.yaml b/BioArchLinux/r-ifaa/lilac.yaml new file mode 100644 index 0000000000..40aafc22f5 --- /dev/null +++ b/BioArchLinux/r-ifaa/lilac.yaml @@ -0,0 +1,26 @@ +build_prefix: extra-x86_64 +maintainers: +- github: pekkarr + email: pekkarr@protonmail.com +repo_depends: +- r-desctools +- r-doparallel +- r-dorng +- r-foreach +- r-glmnet +- r-hdci +- r-mathjaxr +- r-matrixextra +- r-parallelly +- r-s4vectors +- r-stringr +- r-summarizedexperiment +repo_makedepends: +- r-biocgenerics +- r-runit +update_on: +- source: rpkgs + pkgname: IFAA + repo: bioc + md5: true +- alias: r