diff --git a/BioArchLinux/r-iseede/PKGBUILD b/BioArchLinux/r-iseede/PKGBUILD new file mode 100644 index 0000000000..19994c9df7 --- /dev/null +++ b/BioArchLinux/r-iseede/PKGBUILD @@ -0,0 +1,54 @@ +# Maintainer: Pekka Ristola + +_pkgname=iSEEde +_pkgver=1.0.0 +pkgname=r-${_pkgname,,} +pkgver=${_pkgver//-/.} +pkgrel=1 +pkgdesc="iSEE extension for panels related to differential expression analysis" +arch=(any) +url="https://bioconductor.org/packages/${_pkgname}" +license=(Artistic2.0) +depends=( + r-deseq2 + r-edger + r-isee + r-s4vectors + r-shiny + r-summarizedexperiment +) +checkdepends=( + r-testthat +) +optdepends=( + r-airway + r-biocstyle + r-covr + r-knitr + r-limma + r-org.hs.eg.db + r-refmanager + r-rmarkdown + r-scuttle + r-sessioninfo + r-statmod + r-testthat +) +source=("https://bioconductor.org/packages/release/bioc/src/contrib/${_pkgname}_${_pkgver}.tar.gz") +md5sums=('4d6215b9243635ed9dd3b6fcf5cbf166') +sha256sums=('9cc20577ff9d5a98e2116dc0981f02885c0a620fd5ce3b887299c52c68332295') + +build() { + mkdir -p build + R CMD INSTALL "$_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-iseede/lilac.py b/BioArchLinux/r-iseede/lilac.py new file mode 100644 index 0000000000..b5cdb057c5 --- /dev/null +++ b/BioArchLinux/r-iseede/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-iseede/lilac.yaml b/BioArchLinux/r-iseede/lilac.yaml new file mode 100644 index 0000000000..f5be11eca2 --- /dev/null +++ b/BioArchLinux/r-iseede/lilac.yaml @@ -0,0 +1,19 @@ +build_prefix: extra-x86_64 +maintainers: +- github: pekkarr + email: pekkarr@protonmail.com +repo_depends: +- r-deseq2 +- r-edger +- r-isee +- r-s4vectors +- r-shiny +- r-summarizedexperiment +repo_makedepends: +- r-testthat +update_on: +- source: rpkgs + pkgname: iSEEde + repo: bioc + md5: true +- alias: r