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After Slack discussion, @drpatelh created this branch that set the option --max-ppsize=500000 that allows increasing the size of the protect call stack and solves this issue. See here.
hello,
I am running nf core ChIPseq pipeline using nextflow and docker. I get the follwoing error after which the pipeline aborts.
Command error:
Loading required package: Rcpp
Error: protect(): protection stack overflow
Execution halted
command:
It runs for some hours and then throws this error (attached error report)
pipeline_report.txt:
thanks for your help
ps: I suspect it has something to do with https://stackoverflow.com/questions/32826906/how-to-solve-protection-stack-overflow-issue-in-r-studio but I am not sure how to achieve this on R (not rstudio).
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