r-voyager: init

BioArchLinux/r-automap/PKGBUILD

@@ -0,0 +1,32 @@
+# Maintainer: Pekka Ristola <pekkarr [at] protonmail [dot] com>
+
+_pkgname=automap
+_pkgver=1.1-9
+pkgname=r-${_pkgname,,}
+pkgver=${_pkgver//-/.}
+pkgrel=1
+pkgdesc="Automatic Interpolation Package"
+arch=(any)
+url="https://cran.r-project.org/package=${_pkgname}"
+license=(GPL)
+depends=(
+  r-ggplot2
+  r-gstat
+  r-reshape
+  r-sf
+  r-sp
+  r-stars
+)
+source=("https://cran.r-project.org/src/contrib/${_pkgname}_${_pkgver}.tar.gz")
+md5sums=('e73467a1c2fa43bd4f4f536ec51ad71b')
+sha256sums=('f3070aed385352d2595ceddd74cb03cd71965f2e60b675832d16ec2ead6f3a43')
+
+build() {
+  mkdir -p build
+  R CMD INSTALL "$_pkgname" -l build
+}
+
+package() {
+  install -d "$pkgdir/usr/lib/R/library"
+  cp -a --no-preserve=ownership "build/$_pkgname" "$pkgdir/usr/lib/R/library"
+}

BioArchLinux/r-automap/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-automap/lilac.yaml

@@ -0,0 +1,17 @@
+build_prefix: extra-x86_64
+maintainers:
+- github: pekkarr
+  email: pekkarr@protonmail.com
+repo_depends:
+- r-ggplot2
+- r-gstat
+- r-reshape
+- r-sf
+- r-sp
+- r-stars
+update_on:
+- source: rpkgs
+  pkgname: automap
+  repo: cran
+  md5: true
+- alias: r

BioArchLinux/r-voyager/PKGBUILD

@@ -0,0 +1,86 @@
+# Maintainer: Pekka Ristola <pekkarr [at] protonmail [dot] com>
+
+_pkgname=Voyager
+_pkgver=1.4.0
+pkgname=r-${_pkgname,,}
+pkgver=${_pkgver//-/.}
+pkgrel=1
+pkgdesc="From geospatial to spatial omics"
+arch=(any)
+url="https://bioconductor.org/packages/${_pkgname}"
+license=(Artistic2.0)
+depends=(
+  r-biocparallel
+  r-bluster
+  r-ggnewscale
+  r-ggplot2
+  r-lifecycle
+  r-matrixstats
+  r-patchwork
+  r-rlang
+  r-rspectra
+  r-s4vectors
+  r-scales
+  r-scico
+  r-sf
+  r-singlecellexperiment
+  r-spatialexperiment
+  r-spatialfeatureexperiment
+  r-spdep
+  r-summarizedexperiment
+  r-terra
+)
+checkdepends=(
+  r-automap
+  r-dropletutils
+  r-ggh4x
+  r-gstat
+  r-hexbin
+  r-scater
+  r-scattermore
+  r-scran
+  r-sfedata
+  r-testthat
+  r-vdiffr
+  r-vroom
+)
+optdepends=(
+  r-automap
+  r-biocsingular
+  r-biocstyle
+  r-cowplot
+  r-experimenthub
+  r-ggh4x
+  r-gstat
+  r-hexbin
+  r-knitr
+  r-pheatmap
+  r-rhdf5
+  r-rmarkdown
+  r-scater
+  r-scattermore
+  r-scran
+  r-sfarrow
+  r-sfedata
+  r-testthat
+  r-vdiffr
+  r-vroom
+)
+source=("https://bioconductor.org/packages/release/bioc/src/contrib/${_pkgname}_${_pkgver}.tar.gz")
+md5sums=('1cc32e63cf1c410d82c2cd1a26f9f929')
+sha256sums=('e04a6570a1b15319841d68946f59a9f9296b52c0776200a68663313ff447f538')
+
+build() {
+  mkdir -p build
+  R CMD INSTALL "$_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-voyager/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-voyager/lilac.yaml

@@ -0,0 +1,43 @@
+build_prefix: extra-x86_64
+maintainers:
+- github: pekkarr
+  email: pekkarr@protonmail.com
+repo_depends:
+- r-biocparallel
+- r-bluster
+- r-ggnewscale
+- r-ggplot2
+- r-lifecycle
+- r-matrixstats
+- r-patchwork
+- r-rlang
+- r-rspectra
+- r-s4vectors
+- r-scales
+- r-scico
+- r-sf
+- r-singlecellexperiment
+- r-spatialexperiment
+- r-spatialfeatureexperiment
+- r-spdep
+- r-summarizedexperiment
+- r-terra
+repo_makedepends:
+- r-automap
+- r-dropletutils
+- r-ggh4x
+- r-gstat
+- r-hexbin
+- r-scater
+- r-scattermore
+- r-scran
+- r-sfedata
+- r-testthat
+- r-vdiffr
+- r-vroom
+update_on:
+- source: rpkgs
+  pkgname: Voyager
+  repo: bioc
+  md5: true
+- alias: r