Fastq dump error
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7.0 years ago
aj123 ▴ 100

Hi I'm getting the following error while converting the sra to fastq using fastq dump:

fastq-dump.2.5.7 err: storage exhausted while writing file within file system module - system bad file descriptor error fd='4'

tried the usual places but not able to find a solution to this.

sratoolkit fastq SRA • 6.9k views
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Looks like you run out of space.

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7.0 years ago

Likely storage issue, also check this out error report´╝Üwhile running fastq-dump

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Note also that fastq-dump by default places a cache file in your home directory which it does not remove after completed download. So it might as well be your home partition that is filled up.

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