gravatar for Nikolay_Ivanov

2 hours ago by

Weill Cornell Medicine

Hi all,

I am downloading fastq files from the SRA using the fasterq-dump tool of sra-tools:

fasterq-dump -e 7 -t /path/to/SCRATCH_DIR -O /path/to/output/dir SRR7634511

I’m using my institution’s cluster and there are 13T of available space on the disk (the temp and output directories are on the same disk). However, a few minutes into the download, I’m getting the following error:

2021-02-04T23:17:48 fasterq-dump.2.10.9 err: storage exhausted while
writing file within file system module - system bad file descriptor
error fd=‘4'

How can I alleviate this error? Thank you!

-Nikolay



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