[Bioc-devel] Memory error from sesame build

Zhou, Wanding W@nd|ng@Zhou @end|ng |rom Pennmed|c|ne@upenn@edu
Mon Nov 22 14:17:31 CET 2021

Recently we are experience some memory issue on both development and release (mostly Windows) that causes the sesame package build to fail. We are trying to address it but it seems to run fine locally on our side.

This is the error on the development branch

Setting options('download.file.method.GEOquery'='auto')
Setting options('GEOquery.inmemory.gpl'=FALSE)
Error: processing vignette 'sesame.Rmd' failed with diagnostics:
C stack usage  7977908 is too close to the limit

And this is the error on the release branch

> data = data.frame(estimate=c(runif(10, 0, 10)))
> plotLollipop(data)
Error in grid.newpage() :
  'Calloc' could not allocate memory (27541715 of 1 bytes)
Calls: <Anonymous> -> print.ggplot -> grid.newpage

Let me know if you are aware of something or have a clue. Any insight will be super helpful!


Zoom link: https://us02web.zoom.us/j/4248839577

Wanding Zhou, Ph.D.
Assistant Professor

Office: CTRB 9050
3501 Civic Center Blvd
Philadelphia, PA 19104
Lab:  https://zhou-lab.github.io/
Phone (o):  (215) 590-0473

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