GDCprepare() - R Session Aborted
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@1df7d9a9
Last seen 7 days ago
Greece

Hello! I get the “R Session Aborted, R encountered a fatal error. The session was terminated.” warning in RStudio when I’m running loading my downloaded from TCGA using GDCprepare().

I don’t get any error messages at the console. I suppose my code is working just right since I’m getting a percent and an ETA.

At first the warning would appear at about 6% but then after restarting the session and rerunning the code, time after time, the percent rises. My last 4-5 session the percent is stuck between 20-23% and it won’t get any higher.

Thanks a lot in advance!!

TCGAbiolinks R GDCprepare() • 738 views
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Hi,

Could you provide:

  1. the R code using TCGAbiolinks (GDCquery).
  2. The amount of RAM memory/SWAP memory do your machines have?

I would guess the amount of memory you need might be not enough to prepare the data.

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The problem was my RAM memory. I had an upgrade and then I also changed the limit of RAM memory usage of the RStudio.

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