diff --git a/BioArchLinux/r-ctsv/PKGBUILD b/BioArchLinux/r-ctsv/PKGBUILD new file mode 100644 index 0000000000..233b10c9a9 --- /dev/null +++ b/BioArchLinux/r-ctsv/PKGBUILD @@ -0,0 +1,44 @@ +# Maintainer: Pekka Ristola + +_pkgname=CTSV +_pkgver=1.4.0 +pkgname=r-${_pkgname,,} +pkgver=${_pkgver//-/.} +pkgrel=1 +pkgdesc="Identification of cell-type-specific spatially variable genes accounting for excess zeros" +arch=(any) +url="https://bioconductor.org/packages/${_pkgname}" +license=(GPL3) +depends=( + r-biocparallel + r-knitr + r-pscl + r-qvalue + r-spatialexperiment + r-summarizedexperiment +) +checkdepends=( + r-testthat +) +optdepends=( + r-biocstyle + r-testthat +) +source=("https://bioconductor.org/packages/release/bioc/src/contrib/${_pkgname}_${_pkgver}.tar.gz") +md5sums=('4a3f8c7b5398449ea01b312ed7da1f43') +sha256sums=('c9ab303473fa093de52c3a25dc2e46413399cef5284aa2c177299c03e61fcc02') + +build() { + mkdir -p build + R CMD INSTALL "$_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-ctsv/lilac.py b/BioArchLinux/r-ctsv/lilac.py new file mode 100644 index 0000000000..39dc53390d --- /dev/null +++ b/BioArchLinux/r-ctsv/lilac.py @@ -0,0 +1,17 @@ +#!/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, + expect_needscompilation = True, + ) + +def post_build(): + git_pkgbuild_commit() + update_aur_repo() diff --git a/BioArchLinux/r-ctsv/lilac.yaml b/BioArchLinux/r-ctsv/lilac.yaml new file mode 100644 index 0000000000..38b7a05f5a --- /dev/null +++ b/BioArchLinux/r-ctsv/lilac.yaml @@ -0,0 +1,19 @@ +build_prefix: extra-x86_64 +maintainers: +- github: pekkarr + email: pekkarr@protonmail.com +repo_depends: +- r-biocparallel +- r-knitr +- r-pscl +- r-qvalue +- r-spatialexperiment +- r-summarizedexperiment +repo_makedepends: +- r-testthat +update_on: +- source: rpkgs + pkgname: CTSV + repo: bioc + md5: true +- alias: r