From ef0d3926f0403dfaac0a6f6958c536bc9e604b10 Mon Sep 17 00:00:00 2001
From: George Chen <72078254+jiajic@users.noreply.github.com>
Date: Sun, 24 Nov 2024 22:04:05 -0500
Subject: [PATCH] remove unfinished vignettes

---
 vignettes/janesick_scrna.Rmd     |  0
 vignettes/xenium_lung_cancer.Rmd | 50 --------------------------------
 2 files changed, 50 deletions(-)
 delete mode 100644 vignettes/janesick_scrna.Rmd
 delete mode 100644 vignettes/xenium_lung_cancer.Rmd

diff --git a/vignettes/janesick_scrna.Rmd b/vignettes/janesick_scrna.Rmd
deleted file mode 100644
index e69de29bb..000000000
diff --git a/vignettes/xenium_lung_cancer.Rmd b/vignettes/xenium_lung_cancer.Rmd
deleted file mode 100644
index 6849ae19e..000000000
--- a/vignettes/xenium_lung_cancer.Rmd
+++ /dev/null
@@ -1,50 +0,0 @@
----
-title: "Xenium FFPE Human Lung Cancer with Multimodal Cell Segmentation"
-output: 
-  html_document:
-    number_sections: true
-    toc: true
-pkgdown:
-  as_is: true
-vignette: >
-  %\VignetteIndexEntry{Xenium FFPE Human Lung Cancer with Multimodal Cell Segmentation}
-  %\VignetteEngine{knitr::rmarkdown}
-  %\VignetteEncoding{UTF-8}
----
-
-
-# Install extra package: _arrow_
-
-Xenium datasets requires arrow with 'ZTSD' support to be installed to work with parquet files.
-This is optional if you want to use a different format for the tabular data.
-```{r, eval = FALSE}
-if (!requireNamespace("arrow", quietly = TRUE)) {
-  # install with compression library needed for 10x parquet files
-  Sys.setenv(ARROW_WITH_ZSTD = "ON") 
-  install.packages("arrow", repos = c("https://apache.r-universe.dev"))
-}
-
-# check arrow_info() to see that zstd support should be TRUE
-# See https://arrow.apache.org/docs/r/articles/install.html for details
-zstd <- arrow::arrow_info()$capabilities[["zstd"]]
-if (!zstd) {
-  stop("arrow needs to be reinstalled with the command above.")
-}
-```
-
-
-
-
-```{r, eval=FALSE}
-library(Giotto)
-
-# 1. ** SET WORKING DIRECTORY WHERE PROJECT OUPUTS WILL SAVE TO **
-results_folder = '/path/to/save/directory/'
-
-# 2. Create Giotto instructions
-# Directly saving plots to the working directory without rendering them in the editor saves time.
-instrs = createGiottoInstructions(save_dir = results_folder,
-                                  save_plot = TRUE,
-                                  show_plot = FALSE,
-                                  return_plot = FALSE)
-```