Hi
I tried to submit a job and i got this error.
Can someone help please?
{
“history_id”: “54ccb97e3ead941e”,
“tool_id”: “toolshed.g2.bx.psu.edu/repos/iuc/snpeff/snpEff/5.2+galaxy0”,
“tool_version”: “5.2+galaxy0”,
“inputs”: {
“input”: {
“batch”: false,
“product”: false,
“values”: [
{
“id”: “4838ba20a6d867657db399e2e3380209”,
“src”: “hda”,
“map_over_type”: null
}
]
},
“inputFormat”: “vcf”,
“outputFormat”: “vcf”,
“csvStats”: false,
“generate_stats”: true,
“snpDb|genomeSrc”: “history”,
“snpDb|snpeff_db”: {
“batch”: false,
“product”: false,
“values”: [
{
“id”: “4838ba20a6d86765af2c08b62be422e9”,
“src”: “hda”,
“map_over_type”: null
}
]
},
“snpDb|reg_section|regulation”: null,
“udLength”: “0”,
“spliceSiteSize”: “2”,
“spliceRegion|setSpliceRegions”: “no”,
“annotations”: null,
“intervals”: null,
“transcripts”: null,
“filterOut”: null,
“filter|specificEffects”: “no”,
“chr”: null,
“noLog”: true
}
}
1 Like
Unfortunately, this can currently happen with the latest version of SnpEff if the downloaded genomedb file was originally built for an older version of the tool.
In such cases, please resort to version 4.3T for both downloading and effects annotation until we have a solution for the underlying problem.
1 Like
Thank you very much. I will use version 4.3.
1 Like
Thank you very much. I will try with the 4.3 version
XREF
For anyone interested who comes across the same issue with the SnpEFF 5.N tools, this is our tracking ticket. → Usage issues with downloaded snpeff 5.N databases ORG and EU · Issue #6956 · galaxyproject/tools-iuc · GitHub