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gagneurlab / drop

Pipeline to find aberrant events in RNA-Seq data, useful for diagnosis of rare disorders
MIT License
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Default running folder is out of space #529

Closed hermean closed 2 months ago

hermean commented 2 months ago

Dear developers,

Thank you for this great tool!

Recently I was using rnaVariantCalling and encountered a problem of space shortage on my disk (the demo run was fine, probably due to the small size).

Here is the error message: [E::bgzf_flush] File write failed (wrong size) [E::bgzf_close] File write failed samtools sort: failed to create temporary file "/home/hermean/drop/CurrentRun_hg19/Output/processed_data/rnaVariantCalling/out/bam/R003/R003_Aligned.sortedByCoord.out.bam.tmp.0023.bam": No space left on device

It appears that /home/hermean is full (only 20G space left). My question is how to set the default disk/folder for the running, then I can select a folder with enough disk space available.

Thanks again!

vyepez88 commented 2 months ago

Hi! Thanks! Yes, you can specify the path where all the output of DROP will be saved in the root parameter of the config file

hermean commented 2 months ago

Thanks very much for the quick reply and it solved the problem!