diff --git a/BioArchLinux/r-spatiallibd/PKGBUILD b/BioArchLinux/r-spatiallibd/PKGBUILD new file mode 100644 index 0000000000..bf25b83132 --- /dev/null +++ b/BioArchLinux/r-spatiallibd/PKGBUILD @@ -0,0 +1,78 @@ +# Maintainer: Pekka Ristola + +_pkgname=spatialLIBD +_pkgver=1.12.0 +pkgname=r-${_pkgname,,} +pkgver=${_pkgver//-/.} +pkgrel=1 +pkgdesc="spatialLIBD: an R/Bioconductor package to visualize spatially-resolved transcriptomics data" +arch=(any) +url="https://bioconductor.org/packages/${_pkgname}" +license=(Artistic2.0) +depends=( + r-annotationhub + r-benchmarkme + r-biocfilecache + r-biocgenerics + r-cowplot + r-dt + r-edger + r-experimenthub + r-fields + r-genomicranges + r-ggplot2 + r-golem + r-iranges + r-jsonlite + r-limma + r-magick + r-paletteer + r-plotly + r-png + r-rcolorbrewer + r-rtracklayer + r-s4vectors + r-scater + r-scuttle + r-sessioninfo + r-shiny + r-shinywidgets + r-singlecellexperiment + r-spatialexperiment + r-statmod + r-summarizedexperiment + r-tibble + r-viridislite +) +checkdepends=( + r-testthat +) +optdepends=( + r-biocmanager + r-biocstyle + r-covr + r-here + r-knitr + r-lobstr + r-refmanager + r-rmarkdown + r-testthat +) +source=("https://bioconductor.org/packages/release/data/experiment/src/contrib/${_pkgname}_${_pkgver}.tar.gz") +md5sums=('1c14166eb3d988b152448d770f491507') +sha256sums=('2d7b2497287d769ed075701e98abd5465803fbad64cd846abc4173c6bac4e011') + +build() { + mkdir -p build + R CMD INSTALL "$_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-spatiallibd/lilac.py b/BioArchLinux/r-spatiallibd/lilac.py new file mode 100644 index 0000000000..b5cdb057c5 --- /dev/null +++ b/BioArchLinux/r-spatiallibd/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-spatiallibd/lilac.yaml b/BioArchLinux/r-spatiallibd/lilac.yaml new file mode 100644 index 0000000000..46048d4430 --- /dev/null +++ b/BioArchLinux/r-spatiallibd/lilac.yaml @@ -0,0 +1,46 @@ +build_prefix: extra-x86_64 +maintainers: +- github: pekkarr + email: pekkarr@protonmail.com +repo_depends: +- r-annotationhub +- r-benchmarkme +- r-biocfilecache +- r-biocgenerics +- r-cowplot +- r-dt +- r-edger +- r-experimenthub +- r-fields +- r-genomicranges +- r-ggplot2 +- r-golem +- r-iranges +- r-jsonlite +- r-limma +- r-magick +- r-paletteer +- r-plotly +- r-png +- r-rcolorbrewer +- r-rtracklayer +- r-s4vectors +- r-scater +- r-scuttle +- r-sessioninfo +- r-shiny +- r-shinywidgets +- r-singlecellexperiment +- r-spatialexperiment +- r-statmod +- r-summarizedexperiment +- r-tibble +- r-viridislite +repo_makedepends: +- r-testthat +update_on: +- source: rpkgs + pkgname: spatialLIBD + repo: bioc-data-experiment + md5: true +- alias: r