r-spatiallibd: init, dependency of r-escher

BioArchLinux/r-spatiallibd/PKGBUILD

@@ -0,0 +1,78 @@
+# Maintainer: Pekka Ristola <pekkarr [at] protonmail [dot] com>
+
+_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"
+}

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()

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