try using experimental quarto to see whether it solves ci issue

.github/workflows/R-CMD-check.yaml

@@ -34,6 +34,10 @@ jobs:
     steps:
       - uses: actions/checkout@v4
 
+      - uses: quarto-dev/quarto-actions/setup@v2
+        with:
+          version: 1.6.30
+
       - uses: r-lib/actions/setup-pandoc@v2
 
       - uses: r-lib/actions/setup-tinytex@v2

.github/workflows/pkgdown.yaml

@@ -31,6 +31,10 @@ jobs:
     steps:
       - uses: actions/checkout@v4
 
+      - uses: quarto-dev/quarto-actions/setup@v2
+        with:
+          version: 1.6.30
+
       - uses: r-lib/actions/setup-pandoc@v2
 
       - uses: r-lib/actions/setup-r@v2

CHANGELOG.md

@@ -76,6 +76,8 @@ For more information, please visit the [package website](https://laminr.lamin.ai
 
 * Improve documentation for installing suggested dependencies and what they are requrire for (PR #56)
 
+* Use quarto 1.6 for rendering the vignettes (PR #60).
+
 ## BUG FIXES
 
 * Fixed the parsing of the env files in `~/.lamin` due to changes in the lamindb-setup Python package (PR #12).

vignettes/usage.Rmd → vignettes/usage.qmd

@@ -1,19 +1,15 @@
 ---
 title: "Usage"
-output: rmarkdown::html_vignette
 vignette: >
   %\VignetteIndexEntry{Usage}
   %\VignetteEncoding{UTF-8}
-  %\VignetteEngine{knitr::rmarkdown}
+  %\VignetteEngine{quarto::html}
+knitr:
+  opts_chunk: 
+    collapse: true
+    comment: "#>"
 ---
 
-```{r, include = FALSE}
-knitr::opts_chunk$set(
-  collapse = TRUE,
-  comment = "#>"
-)
-```
-
 LaminDB is an open-source data framework for biology. You can find out about some of its features in the [documentation of the lamindb Python package](https://docs.lamin.ai/introduction).
 
 This vignette will show you how to use the `laminr` package to interact with LaminDB.