From d1cc758742c384e196c9e196f614bfd36164c8fc Mon Sep 17 00:00:00 2001
From: Pekka Ristola <pekkarr@protonmail.com>
Date: Sat, 21 Oct 2023 15:26:34 +0300
Subject: [PATCH] r-edirquery: init

---
 BioArchLinux/r-edirquery/PKGBUILD   | 44 +++++++++++++++++++++++++++++
 BioArchLinux/r-edirquery/lilac.py   | 14 +++++++++
 BioArchLinux/r-edirquery/lilac.yaml | 18 ++++++++++++
 3 files changed, 76 insertions(+)
 create mode 100644 BioArchLinux/r-edirquery/PKGBUILD
 create mode 100644 BioArchLinux/r-edirquery/lilac.py
 create mode 100644 BioArchLinux/r-edirquery/lilac.yaml

diff --git a/BioArchLinux/r-edirquery/PKGBUILD b/BioArchLinux/r-edirquery/PKGBUILD
new file mode 100644
index 0000000000..e829f79a28
--- /dev/null
+++ b/BioArchLinux/r-edirquery/PKGBUILD
@@ -0,0 +1,44 @@
+# Maintainer: Pekka Ristola <pekkarr [at] protonmail [dot] com>
+
+_pkgname=EDIRquery
+_pkgver=1.0.0
+pkgname=r-${_pkgname,,}
+pkgver=${_pkgver//-/.}
+pkgrel=1
+pkgdesc="Query the EDIR Database For Specific Gene"
+arch=(any)
+url="https://bioconductor.org/packages/${_pkgname}"
+license=(GPL3)
+depends=(
+  r-genomicranges
+  r-interactionset
+  r-readr
+  r-tibble
+  r-tictoc
+)
+checkdepends=(
+  r-testthat
+)
+optdepends=(
+  r-knitr
+  r-rmarkdown
+  r-testthat
+)
+source=("https://bioconductor.org/packages/release/bioc/src/contrib/${_pkgname}_${_pkgver}.tar.gz")
+md5sums=('5ef6b7ba141cd7778c7d5bf31d138af2')
+sha256sums=('2bb82f36bb6b77b3c0d1cee3612b73128781c9933b522f19a059963044b5a0a8')
+
+build() {
+  mkdir -p build
+  R CMD INSTALL "$_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-edirquery/lilac.py b/BioArchLinux/r-edirquery/lilac.py
new file mode 100644
index 0000000000..b5cdb057c5
--- /dev/null
+++ b/BioArchLinux/r-edirquery/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()
diff --git a/BioArchLinux/r-edirquery/lilac.yaml b/BioArchLinux/r-edirquery/lilac.yaml
new file mode 100644
index 0000000000..d041f3efe0
--- /dev/null
+++ b/BioArchLinux/r-edirquery/lilac.yaml
@@ -0,0 +1,18 @@
+build_prefix: extra-x86_64
+maintainers:
+- github: pekkarr
+  email: pekkarr@protonmail.com
+repo_depends:
+- r-genomicranges
+- r-interactionset
+- r-readr
+- r-tibble
+- r-tictoc
+repo_makedepends:
+- r-testthat
+update_on:
+- source: rpkgs
+  pkgname: EDIRquery
+  repo: bioc
+  md5: true
+- alias: r