From 5a6b3e86486f4d89adcc250b55ce532feaf4db58 Mon Sep 17 00:00:00 2001
From: Pekka Ristola <pekkarr@protonmail.com>
Date: Tue, 5 Dec 2023 13:30:36 +0200
Subject: [PATCH] r-scbubbletree: init

---
 BioArchLinux/r-scbubbletree/PKGBUILD   | 50 ++++++++++++++++++++++++++
 BioArchLinux/r-scbubbletree/lilac.py   | 18 ++++++++++
 BioArchLinux/r-scbubbletree/lilac.yaml | 23 ++++++++++++
 3 files changed, 91 insertions(+)
 create mode 100644 BioArchLinux/r-scbubbletree/PKGBUILD
 create mode 100644 BioArchLinux/r-scbubbletree/lilac.py
 create mode 100644 BioArchLinux/r-scbubbletree/lilac.yaml

diff --git a/BioArchLinux/r-scbubbletree/PKGBUILD b/BioArchLinux/r-scbubbletree/PKGBUILD
new file mode 100644
index 0000000000..3736866d16
--- /dev/null
+++ b/BioArchLinux/r-scbubbletree/PKGBUILD
@@ -0,0 +1,50 @@
+# Maintainer: Pekka Ristola <pekkarr [at] protonmail [dot] com>
+
+_pkgname=scBubbletree
+_pkgver=1.4.0
+pkgname=r-${_pkgname,,}
+pkgver=${_pkgver//-/.}
+pkgrel=1
+pkgdesc="Quantitative visual exploration of scRNA-seq data"
+arch=(any)
+url="https://bioconductor.org/packages/${_pkgname}"
+license=(GPL3)
+depends=(
+  r-ape
+  r-future
+  r-future.apply
+  r-ggplot2
+  r-ggtree
+  r-patchwork
+  r-proxy
+  r-reshape2
+  r-scales
+  r-seurat
+)
+checkdepends=(
+  r-testthat
+)
+optdepends=(
+  r-biocstyle
+  r-knitr
+  r-singlecellexperiment
+  r-testthat
+)
+source=("https://bioconductor.org/packages/release/bioc/src/contrib/${_pkgname}_${_pkgver}.tar.gz")
+md5sums=('d64f38622d8aec6ebb23e81231710134')
+sha256sums=('52ec5264b10e4b8df9e56a31f654adc102e99c66455fb9bbce4c3ab51ae79533')
+
+build() {
+  mkdir -p build
+  R CMD INSTALL "$_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-scbubbletree/lilac.py b/BioArchLinux/r-scbubbletree/lilac.py
new file mode 100644
index 0000000000..44e81be18d
--- /dev/null
+++ b/BioArchLinux/r-scbubbletree/lilac.py
@@ -0,0 +1,18 @@
+#!/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_license = "GPL-3 + file LICENSE",
+        expect_systemrequirements = "Python (>= 3.6), leidenalg (>= 0.8.2)",
+    )
+
+def post_build():
+    git_pkgbuild_commit()
+    update_aur_repo()
diff --git a/BioArchLinux/r-scbubbletree/lilac.yaml b/BioArchLinux/r-scbubbletree/lilac.yaml
new file mode 100644
index 0000000000..a69902217c
--- /dev/null
+++ b/BioArchLinux/r-scbubbletree/lilac.yaml
@@ -0,0 +1,23 @@
+build_prefix: extra-x86_64
+maintainers:
+- github: pekkarr
+  email: pekkarr@protonmail.com
+repo_depends:
+- r-ape
+- r-future
+- r-future.apply
+- r-ggplot2
+- r-ggtree
+- r-patchwork
+- r-proxy
+- r-reshape2
+- r-scales
+- r-seurat
+repo_makedepends:
+- r-testthat
+update_on:
+- source: rpkgs
+  pkgname: scBubbletree
+  repo: bioc
+  md5: true
+- alias: r