Comments (3)
Midnighter
commented on August 12, 2024
This is by design, as it alerts you to the fact that they don't exist. However, you can configure the error strategy to ignore them, if you like.
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drpatelh
commented on August 12, 2024
Yep, there isn't much we can do here other than what @Midnighter suggested. Do any of the sra-tools have an option to validate a set of ids without downloading them? If so, we could have a pre-validation step that catches and reports this earlier and maybe even cleans the ids up before trying to download.
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drpatelh
commented on August 12, 2024
Closing now but please feel free to re-open if anyone finds this and has any bright ideas.
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Related Issues (20)
- Failed to pull singularity image HOT 2
- sra_ids_to_runinfo.py: command not found HOT 3
- TypeError: unsupported operand type(s) for |: 'dict' and 'dict' HOT 1
- error executing process HOT 3
- Add compatibility with sarek samplesheet
- SRAtools download seems to insert paired-end suffix into workdir path HOT 6
- Support .ngc file for dbgap downloads HOT 2
- FEAT: Pass scientific name as input to download the data
- Pipeline fails for large studies HOT 1
- Use nf-test for input validation
- check out extensions for input files HOT 1
- Add ability to download more than 2 FastQ files via FTP and Aspera HOT 3
- Merge technical replicates (SRR1 + SRR2 -> SRX)
- nf-validation-1.1.3: Operation not supported HOT 20
- `vdb-validate` does not detect file corruption HOT 5
- URGENT: pin nf-validation version HOT 1
- wget host address error HOT 5
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