1)给出软件或者SRA的全路径 2)更新sra-tools的版本 但是仍然出现上述问题,于是使用最终的办法: 3)重新下载sra数据,便可解决以上问题
I downloaded 330 SRA files by prefetch and tried to extract fastq files using for loop + fasterq-dump When I run this very simple bash script, error messages pop up #!/bin/bash for i in $(cat accession.txt) # It contains SRA accession do...
2024-01-28T11:17:08 fasterq-dump.3.0.10 err: the input data is missing the QUALITY-column fasterq-dump quit with error code 3 I would like to know what the reasons are, and possible solutions, thank you very much!
-pe smp 3 \ -binding linear:3 \"/broad/dunnlab/BLM/bash_scripts/SRR15808961_fasterq.sh" The tool interprets it as 250 bytes, as can be seen in your first captured output: "disk-limit input : 250 bytes" Just omit it. It looks like the tool picks up the limits of your real drive...
fastq-dump quit with error code 3 commentedDec 7, 2020 The logging output of SRA Tools can be somewhat cryptic. But in this case it's fairly clear: storage exhausted while writing file within file system module https://github.com/ncbi/sra-tools/wiki/HowTo:-fasterq-dump ...