The issue for creating temporary file - Githubissues

alexdobin / STAR

RNA-seq aligner

MIT License

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The issue for creating temporary file #1855

Open dahun73 opened 1 year ago

dahun73 commented 1 year ago

Hello Alex!

I have one question about tmp file using STAR. I first tried to run STAR and save aligned files in mounted NAS. However, the error message came out like this: Exiting because of *FATAL ERROR*: could not create FIFO file

So, I tried setting other directory outside of NAS using '--outTmpDir' option. Then it was successful. I'm curious about why only tmp file could not be created in NAS. Is there only one way setting other directory?

23.05.12 added I think NAS file system do not support FIFO file. Although I set up file system for ext4, I could not mount NAS for ext4 type. As a result, I should point specific tmp directory outside NAS, right?

Thank you for reading! Dahun

alexdobin commented 1 year ago

Hi Dahun,

that's correct, if your partition does not support FIFO files (e.g. MS-Windows), you would need to specify a Linux partition with --outTmpDir