Does

nextflow_schema.json

support arrays as input? I'm trying to get something along the lines of the following to work but keep getting linting errors:

"somatic_var_keep": {
                    "type": "array",
                    "description": "List of somatic variant callers to use. Must include at least one of [deepsomatic, clair].",
                    "items": {
                        "type": "string",
                        "enum": ["deepsomatic", "clair"]
                    },
                    "minItems": 1,
                    "default": "['deepsomatic', 'clair']"
                }

This works for me

"fastq_read1": {
      "type": ["string", "array"],
      "items": {
        "type": "string",
        "format": "file-path",
        "exists": true
      },
      "default": "[]",
      "format": "file-path"
    },

In case it helps, the usual way to handle params with multiple options is to set it to

string

and use

.split()

to convert it into a list inside the workflow, and then validate it as required. It would be interesting to see a pure nf-schema solution though.

It at least passes linting now, lets see if it works in the actual test profile as well quick look

This works for me as well (same formatting as above)

"genome_accessions": {
                "type": "array",
                "items": { "type": "string" },
                "hidden": true,
                "description": "Genome accessions"
            },

Yes the schema should support arrays. But they are kind of meaningless unless you supply your params via a

-params-file

because there is no support for array params on the cli