r-ifaa: init

BioArchLinux/r-ifaa/PKGBUILD

@@ -0,0 +1,54 @@
+# Maintainer: Pekka Ristola <pekkarr [at] protonmail [dot] com>
+
+_pkgname=IFAA
+_pkgver=1.2.0
+pkgname=r-${_pkgname,,}
+pkgver=${_pkgver//-/.}
+pkgrel=1
+pkgdesc="Robust Inference for Absolute Abundance in Microbiome Analysis"
+arch=(any)
+url="https://bioconductor.org/packages/${_pkgname}"
+license=(GPL2)
+depends=(
+  r-desctools
+  r-doparallel
+  r-dorng
+  r-foreach
+  r-glmnet
+  r-hdci
+  r-mathjaxr
+  r-matrixextra
+  r-parallelly
+  r-s4vectors
+  r-stringr
+  r-summarizedexperiment
+)
+checkdepends=(
+  r-biocgenerics
+  r-runit
+)
+optdepends=(
+  r-biocgenerics
+  r-biocstyle
+  r-knitr
+  r-rmarkdown
+  r-runit
+)
+source=("https://bioconductor.org/packages/release/bioc/src/contrib/${_pkgname}_${_pkgver}.tar.gz")
+md5sums=('2fed85b602afd876a82a6f150f7edcc6')
+sha256sums=('b35d7c37bb908bb3efaab5796eb45226c7bfca005260091fe324fb36153a7daf')
+
+build() {
+  mkdir -p build
+  R CMD INSTALL "$_pkgname" -l build
+}
+
+check() {
+  cd "$_pkgname/tests"
+  R_LIBS="$srcdir/build" Rscript --vanilla runTests.R
+}
+
+package() {
+  install -d "$pkgdir/usr/lib/R/library"
+  cp -a --no-preserve=ownership "build/$_pkgname" "$pkgdir/usr/lib/R/library"
+}

BioArchLinux/r-ifaa/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-ifaa/lilac.yaml

@@ -0,0 +1,26 @@
+build_prefix: extra-x86_64
+maintainers:
+- github: pekkarr
+  email: pekkarr@protonmail.com
+repo_depends:
+- r-desctools
+- r-doparallel
+- r-dorng
+- r-foreach
+- r-glmnet
+- r-hdci
+- r-mathjaxr
+- r-matrixextra
+- r-parallelly
+- r-s4vectors
+- r-stringr
+- r-summarizedexperiment
+repo_makedepends:
+- r-biocgenerics
+- r-runit
+update_on:
+- source: rpkgs
+  pkgname: IFAA
+  repo: bioc
+  md5: true
+- alias: r