From 4d239e8e5eafe8bdcde4dc493fe5bdeb8c0ecf9e Mon Sep 17 00:00:00 2001
From: Boris Shor <boris@bshor.com>
Date: Tue, 8 Sep 2026 08:52:21 -0500
Subject: [PATCH 1/2] r-tstoml: add pinned TOML editing dependency for pak

---
 BioArchLinux/r-tstoml/PKGBUILD   | 46 ++++++++++++++++++++++++++++++++
 BioArchLinux/r-tstoml/lilac.yaml | 21 +++++++++++++++
 2 files changed, 67 insertions(+)
 create mode 100644 BioArchLinux/r-tstoml/PKGBUILD
 create mode 100644 BioArchLinux/r-tstoml/lilac.yaml

diff --git a/BioArchLinux/r-tstoml/PKGBUILD b/BioArchLinux/r-tstoml/PKGBUILD
new file mode 100644
index 0000000000..fdb09afba5
--- /dev/null
+++ b/BioArchLinux/r-tstoml/PKGBUILD
@@ -0,0 +1,46 @@
+# Maintainer: Boris Shor <boris@bshor.com>
+
+_pkgname=tstoml
+_commit=548e2e71195906584b17ac0aa83e4d3edcef8da2
+pkgname=r-tstoml
+pkgver=0.0.0.9000
+pkgrel=1
+pkgdesc="Edit TOML Files"
+arch=(x86_64)
+url="https://github.com/gaborcsardi/tstoml"
+license=('MIT')
+depends=(
+  r-tsitter
+)
+checkdepends=(
+  r-hms
+  r-pillar
+  r-testthat
+  r-withr
+)
+optdepends=(
+  r-asciicast
+  r-hms
+  r-pillar
+  r-testthat
+  r-withr
+)
+source=("${_pkgname}-${_commit}.tar.gz::${url}/archive/${_commit}.tar.gz")
+sha256sums=('9e8c3c7ea9505440901d8b2e12108cd1d0b1af9505c114e96da14c6f5583559c')
+
+build() {
+  mkdir build
+  R CMD INSTALL -l build "$_pkgname-$_commit"
+}
+
+check() {
+  cd "$_pkgname-$_commit/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"
+}
diff --git a/BioArchLinux/r-tstoml/lilac.yaml b/BioArchLinux/r-tstoml/lilac.yaml
new file mode 100644
index 0000000000..b6e03a2b37
--- /dev/null
+++ b/BioArchLinux/r-tstoml/lilac.yaml
@@ -0,0 +1,21 @@
+build_prefix: extra-x86_64
+maintainers:
+- github: bshor
+  email: boris@bshor.com
+repo_depends:
+- r-tsitter
+repo_makedepends:
+- r-hms
+- r-pillar
+- r-testthat
+- r-withr
+# No release tags; the published source asset still imports the obsolete ts.
+# Review and update the pinned commit manually when upstream changes.
+pre_build_script: |
+  update_pkgver_and_pkgrel(_G.newver)
+post_build_script: |
+  git_pkgbuild_commit()
+update_on:
+- source: manual
+  manual: '0.0.0.9000'
+- alias: r

From 2894c6f204ed16dff6e686815f9e370489b213ab Mon Sep 17 00:00:00 2001
From: Boris Shor <boris@bshor.com>
Date: Tue, 8 Sep 2026 08:52:31 -0500
Subject: [PATCH 2/2] r-pak: prepare 0.11.1 update with system dependencies

---
 BioArchLinux/r-pak/PKGBUILD   | 12 +++++++++---
 BioArchLinux/r-pak/lilac.yaml |  6 ++++++
 2 files changed, 15 insertions(+), 3 deletions(-)

diff --git a/BioArchLinux/r-pak/PKGBUILD b/BioArchLinux/r-pak/PKGBUILD
index 22ad4f94f4..7c4b943f47 100644
--- a/BioArchLinux/r-pak/PKGBUILD
+++ b/BioArchLinux/r-pak/PKGBUILD
@@ -3,7 +3,7 @@
 # Contributor: peippo <christoph+aur@christophfink.com>
 
 _pkgname=pak
-_pkgver=0.9.5
+_pkgver=0.11.1
 pkgname=r-${_pkgname,,}
 pkgver=${_pkgver//-/.}
 pkgrel=1
@@ -26,13 +26,19 @@ depends=(
   r-processx
   r-ps
   r-r6
+  r-tsitter
+  r-tstoml
   r-zip
   r-keyring
   r-yaml
 )
 checkdepends=(
   r-mockery
+  r-pingr
+  r-pkgload
   r-testthat
+  r-webfakes
+  r-withr
 )
 optdepends=(
   r-covr
@@ -48,9 +54,9 @@ optdepends=(
 )
 source=("https://cran.r-project.org/src/contrib/${_pkgname}_${_pkgver}.tar.gz"
         "system-libs.patch")
-md5sums=('dcedd9fca4f9603fc2793ea2686dc2c9'
+md5sums=('201eaa969a601b2efc6253432a283741'
          '29b1470e2d25f82ebeafc02fe3b2594a')
-b2sums=('ef89e33cb8f40b1b80c049c602122c66a46ce2c7e2ad4075d41b85863ee0aebf9cecd55943098e20b98fede494ff416a959dffccaa0a36a719d5e840978c0719'
+b2sums=('75c6adc393ebe8a5a0169d6c01c7a20011fb0f672e06742d6bcb2ae0af3df506607b954e1e76261c5b939974769b92198840d026bd6b4d0b7ef018870c2ab3ae'
         'b422c6a23d6850831433fdcf3e81684189bdaea1735fcc85edeff3202fe084f4167876949ff9ddfd5654cb2ce202ed005800a217dfe9bb12fb8240456880b4f1')
 
 prepare() {
diff --git a/BioArchLinux/r-pak/lilac.yaml b/BioArchLinux/r-pak/lilac.yaml
index e4f580f431..cbd157217b 100644
--- a/BioArchLinux/r-pak/lilac.yaml
+++ b/BioArchLinux/r-pak/lilac.yaml
@@ -17,12 +17,18 @@ repo_depends:
 - r-processx
 - r-ps
 - r-r6
+- r-tsitter
+- r-tstoml
 - r-zip
 - r-keyring
 - r-yaml
 repo_makedepends:
 - r-mockery
+- r-pingr
+- r-pkgload
 - r-testthat
+- r-webfakes
+- r-withr
 update_on:
 - source: rpkgs
   pkgname: pak