nextflow_schema.json

{
    "$schema": "http://json-schema.org/draft-07/schema",
    "$id": "https://raw.githubusercontent.com/Sage-Bionetworks/GENIE-Sponsored-Projects/develop/nextflow_schema.json",
    "title": "Sage-Bionetworks/GENIE-Sponsored-Projects parameters",
    "description": "Nextflow pipeline for BPC cBioportal release",
    "type": "object",
    "definitions": {
        "parameters": {
            "title": "Input options",
            "type": "object",
            "fa_icon": "fas fa-terminal",
            "description": "Define BPC cBioportal release pipeline parameters.",
            "properties": {
                "cohort": {
                    "type": "string",
                    "default": "NSCLC",
                    "description": "Name of the cohort to release for BPC.",
                    "enum": [
                        "BLADDER",
                        "BrCa",
                        "CRC",
                        "NSCLC",
                        "PANC",
                        "Prostate",
                        "CRC2",
                        "NSCLC2",
                        "MELANOMA",
                        "OVARIAN",
                        "ESOPHAGO",
                        "RENAL"
                    ]
                },
                "release": {
                    "type": "string",
                    "description": "Name for this BPC cBioportal release",
                    "default": "1.1-consortium"
                },
                "production": {
                    "type": "boolean",
                    "description": "Whether to run in production mode or not. Production mode means uploading to Synapse.",
                    "default": false,
                    "enum": [
                        true,
                        false
                    ]
                },
                "help": {
                    "type": "boolean",
                    "description": "Display input options and descriptions",
                    "default": false
                }
            }
        }
    },
    "allOf": [
        {
            "$ref": "#/definitions/parameters"
        }
    ]
}