samtools view: error closing standard output: -1

sdparekh / zUMIs

zUMIs: A fast and flexible pipeline to process RNA sequencing data with UMIs

GNU General Public License v3.0

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samtools view: error closing standard output: -1 #336

Closed Liripo closed 1 year ago

Liripo commented 1 year ago

When I run the zUMIs-mapping.R script in Rstduio, I get the error message in the figure below, but the program does run with results. I don't know what is causing the error message. And my samtools version is 1.10.

cziegenhain commented 1 year ago

Hi,

Running zUMIs as individual scripts in RStudio is not tested or supported. Please run via zUMIs.sh and post the full log and your config file if you need assistance.

Best, Christoph

Liripo commented 1 year ago

Hi， Thank you for your quick reply! I am closing this issue for now. Best