description: A PEP for nascent RNA samples for the PEPPRO pipeline.
imports:
  - http://schema.databio.org/pep/2.0.0.yaml
properties:
  samples:
    type: array
    items:
      type: object
      properties:
        sample_name: 
          type: string
          description: "Name of the sample"
        organism: 
          type: string
          description: "Organism"
        protocol: 
          type: string
          description: "Specifies whether the sample is pro-seq or gro-seq"
          enum: ["PRO", "pro", "PRO-SEQ", "PRO-seq", "proseq", "PROSEQ", "GRO", "gro", "groseq", "GROSEQ", "GRO-SEQ", "GRO-seq"]
        genome:
          type: string
          description: "Refgenie genome registry identifier"
        read_type:
          type: string
          description: "Is this single or paired-end data?"
          enum: ["SINGLE", "PAIRED"]
        read1:
          anyOf:
            - type: string
              description: "Fastq file for read 1"
            - type: array
              items:
                type: string
        read2:
          anyOf:
            - type: string
              description: "Fastq file for read 2 (for paired-end experiments)"
            - type: array
              items:
                type: string
        umi_len:
          type: string
          description: "Length of the Unique Molecular Identifier, if any"
      required:
        - sample_name
        - protocol
        - read1
        - genome
required:
  - samples