From abe703d8d591cc7e038a470daa9b2c7162b4641c Mon Sep 17 00:00:00 2001
From: oscarospina <oscaredd_ol@yahoo.es>
Date: Wed, 4 Aug 2021 16:31:12 -0400
Subject: [PATCH] fix plot_STclusters

---
 .DS_Store                            | Bin 16388 -> 16388 bytes
 R/plot_STclusters.R                  |   3 ++-
 vignettes/spatialGE_troubleshoot.Rmd |  24 ++++++++++++++++++++++++
 3 files changed, 26 insertions(+), 1 deletion(-)
 create mode 100755 vignettes/spatialGE_troubleshoot.Rmd

diff --git a/.DS_Store b/.DS_Store
index 73e5109f5298e5736b25c035b94355d37ccc82bd..636ee5927e0cb7f554f440c178c5b6271415f1e0 100644
GIT binary patch
delta 17
YcmZo^U~Fk%+)yb#v2fC6Zi%1j06f?R)c^nh

delta 19
acmZo^U~Fk%+)ydb$T+cZ;%07%pXvZZdj{43

diff --git a/R/plot_STclusters.R b/R/plot_STclusters.R
index 5f195ff..cf4ab53 100755
--- a/R/plot_STclusters.R
+++ b/R/plot_STclusters.R
@@ -24,7 +24,8 @@
 #
 plot_STclusters <- function(x, plot_who=NULL, purity=F, color_pal='light', visium=T){
 
-  require(ggplot2)
+  require('ggplot2')
+  require('magrittr')
 
   if(is.null(plot_who)){
     subjs <- (1:length(x@st_clusters$clust_dfs))
diff --git a/vignettes/spatialGE_troubleshoot.Rmd b/vignettes/spatialGE_troubleshoot.Rmd
new file mode 100755
index 0000000..c8e0251
--- /dev/null
+++ b/vignettes/spatialGE_troubleshoot.Rmd
@@ -0,0 +1,24 @@
+---
+title: "Troubleshooting"
+output: rmarkdown::html_vignette
+vignette: >
+  %\VignetteIndexEntry{spatialGE_tutorial}
+  %\VignetteEngine{knitr::rmarkdown}
+  %\VignetteEncoding{UTF-8}
+---
+
+```{r, include = FALSE}
+knitr::opts_chunk$set(
+  collapse = TRUE,
+  comment = "#>"
+)
+```
+
+### When using `readRDS` to load an STList, I get 'Error: vector memory exhausted'. What can I do?
+This error results from R's default memoery limits. Provided your computer has 
+enough memory to hold an STList in memory, this error message can be overridden by
+typing in a Terminal (Mac OS):
+```
+echo 'R_MAX_VSIZE=100Gb' >> ~/.Renviron
+```
+Then, close and re-open R and try to load the STList again.
\ No newline at end of file