r-alabaster.vcf: init

BioArchLinux/r-alabaster.vcf/PKGBUILD

@@ -0,0 +1,49 @@
+# Maintainer: Pekka Ristola <pekkarr [at] protonmail [dot] com>
+
+_pkgname=alabaster.vcf
+_pkgver=1.0.0
+pkgname=r-${_pkgname,,}
+pkgver=${_pkgver//-/.}
+pkgrel=1
+pkgdesc="Save and Load Variant Data to/from File"
+arch=(any)
+url="https://bioconductor.org/packages/${_pkgname}"
+license=(MIT)
+depends=(
+  r-alabaster.base
+  r-alabaster.se
+  r-alabaster.string
+  r-rsamtools
+  r-s4vectors
+  r-variantannotation
+)
+checkdepends=(
+  r-testthat
+)
+optdepends=(
+  r-biocstyle
+  r-knitr
+  r-rmarkdown
+  r-testthat
+)
+source=("https://bioconductor.org/packages/release/bioc/src/contrib/${_pkgname}_${_pkgver}.tar.gz")
+md5sums=('a512241aa940a4dd220d86da0b94aea4')
+sha256sums=('94b90cf7ecdf2a699e4e55a0a8a60da9ed5a85197ce7362eb0247df2f037255d')
+
+build() {
+  mkdir -p build
+  R CMD INSTALL "$_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" "$pkgdir/usr/lib/R/library"
+
+  install -d "$pkgdir/usr/share/licenses/$pkgname"
+  ln -s "/usr/lib/R/library/$_pkgname/LICENSE" "$pkgdir/usr/share/licenses/$pkgname"
+}

BioArchLinux/r-alabaster.vcf/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-alabaster.vcf/lilac.yaml

@@ -0,0 +1,19 @@
+build_prefix: extra-x86_64
+maintainers:
+- github: pekkarr
+  email: pekkarr@protonmail.com
+repo_depends:
+- r-alabaster.base
+- r-alabaster.se
+- r-alabaster.string
+- r-rsamtools
+- r-s4vectors
+- r-variantannotation
+repo_makedepends:
+- r-testthat
+update_on:
+- source: rpkgs
+  pkgname: alabaster.vcf
+  repo: bioc
+  md5: true
+- alias: r