schema_input.json

{
    "$schema": "https://json-schema.org/draft-07/schema",
    "$id": "https://raw.githubusercontent.com/phac-nml/fetchdatairidanext/main/assets/schema_input.json",
    "title": "phac-nml/fetchdatairidanext pipeline - params.input schema",
    "description": "Schema for the file provided with params.input",
    "type": "array",
    "items": {
        "type": "object",
        "properties": {
            "sample": {
                "type": "string",
                "pattern": "^[A-Za-z0-9_.-]+$",
                "meta": ["irida_id"],
                "unique": true,
                "errorMessage": "Sample name must be provided and cannot contain spaces"
            },
            "sample_name": {
                "type": "string",
                "meta": ["id"],
                "errorMessage": "Optional. Used to override reads filename when used in tools like IRIDA-Next"
            },
            "insdc_accession": {
                "type": "string",
                "pattern": "^(SRR|ERR|DRR)\\S+$",
                "meta": ["insdc_accession"],
                "errorMessage": "Must provide a valid accession"
            }
        },
        "required": ["sample", "insdc_accession"]
    }
}