Cluster setup failed. 2 of 2 workers failed to connect. #5
Description
hi, I am going to build a ts file from a matrix. It has 7274 cells with 22457 genes. It is running in rstudio server with 8 CPU and 64G RAM.
Code:
library(tSpace)
Idents(scRNA) <- "orig.ident"
df <- subset(scRNA, idents = 'day5')
df <- GetAssayData(df,slot="data",assay="RNA")
ts <- tSpace(df = df,
K = 20, L = 15,
D = 'pearson_correlation',
graph = 5,
trajectories = 200,
wp = 15, dr = 'pca', core_no = 2)
It shown error like below:
Step 1:Finding graphError in makePSOCKcluster(names = spec, ...) : Cluster setup failed. 2 of 2 workers failed to connect.
In addition: Warning messages: 1: In system(cmd, wait = FALSE) : system call failed: Cannot allocate memory 2: In system(cmd, wait = FALSE) : error in running command Error in save(list = names(.GlobalEnv), file = outfile, version = version, : error writing to connection Error saving session (search_path): R code execution error Error in system(paste(which, shQuote(names[i])), intern = TRUE, ignore.stderr = TRUE) : cannot popen '/usr/bin/which 'pdflatex' 2>/dev/null', probable reason 'Cannot allocate memory' Error in system(paste(which, shQuote(names[i])), intern = TRUE, ignore.stderr = TRUE) : cannot popen '/usr/bin/which 'pdflatex' 2>/dev/null', probable reason 'Cannot allocate memory'
Hope some one would give me some suggestion!
Best!