quartet-rnaseq-qc/schema.json

{
  "formMode":"batch",
  "fields":[
    {
      "tmplType":"sample_id",
      "type":"number",
      "label":"Sample ID",
      "name":"sample_id",
      "question":"How many samples? For auto generating sample id.",
      "placeholder":"How many samples? For auto generating sample id.",
      "model":"sample_id",
      "disabled":false,
      "min":1,
      "max":100,
      "config":{
        "rules":[{"type":"number","required":true,"message":"Please input a number."}]
      }
    },
    {
      "tmplType":"file",
      "label":"Read1 Files",
      "model":"read1",
      "readOnly":false,
      "multiple":true,
      "filterType":"fastq|fastq.gz|fq|fq.gz",
      "placeholder":"Select files for read1.",
      "config":{
        "rules":[
          {
            "type":"array",
            "required":true,
            "message":"Please select files for read1."
          }
        ]
      }
    },
    {
      "tmplType":"file",
      "label":"Read2 Files",
      "model":"read2",
      "readOnly":false,
      "multiple":true,
      "filterType":"fastq|fastq.gz|fq|fq.gz",
      "placeholder":"Select files for read2.",
      "config":{
        "rules":[
          {
            "type":"array",
            "required":true,
            "message":"Please select files for read2."
          }
        ]
      }
    },
    {
      "tmplType":"file",
      "label":"FastqScreen Conf File",
      "model":"fastq_screen_conf",
      "readOnly":false,
      "multiple":false,
      "filterType":"conf",
      "placeholder":"Select file for fastq screen.",
      "config":{
        "initialValue": "oss://pgx-reference-data/fastq_screen_reference/fastq_screen.conf",
        "rules":[{"required":true,"message":"Please select file for fastq screen."}]
      }
    },
    {
      "tmplType":"file",
      "label":"References of Fastq Screen",
      "model":"screen_ref_dir",
      "readOnly":false,
      "filterType":"",
      "multiple":false,
      "placeholder":"Select directory for Fastq Screen References.",
      "config":{
        "initialValue": "oss://pgx-reference-data/fastq_screen_reference/",
        "rules":[
          {
            "required":true,
            "message":"Select directory for Fastq Screen References."
          }
        ]
      }
    },
    {
      "tmplType":"file",
      "label":"Index Directory",
      "model":"idx",
      "readOnly":false,
      "filterType":"",
      "multiple":false,
      "placeholder":"Select directory for idx.",
      "config":{
        "initialValue": "oss://pgx-reference-data/reference/hisat2/grch38_snp_tran/",
        "rules":[{"required":true,"message":"Please select directory for idx."}]
      }
    },
    {
      "tmplType":"file",
      "label":"GTF File",
      "model":"gtf",
      "readOnly":false,
      "multiple":false,
      "filterType":"gtf",
      "placeholder":"Select file for gtf.",
      "config":{
         "initialValue": "oss://pgx-reference-data/reference/annotation/Homo_sapiens.GRCh38.93.gtf",
         "rules":[{"required":true,"message":"Please select file for gtf."}]
      }
    },
    {
      "tmplType":"input",
      "type":"string",
      "label":"Adapter Sequence",
      "name":"adapter_sequence",
      "placeholder":"Please enter adapter sequence.",
      "model":"adapter_sequence",
      "disabled":false,
      "min":1,
      "max":100,
      "config":{
        "initialValue":"AGATCGGAAGAGCACACGTCTGAACTCCAGTCA",
        "rules":[
          {
            "type":"string",
            "required":false,
            "message":"Please input an adapter sequence."
          }
        ]
      }
    },
    {
      "tmplType":"input",
      "type":"string",
      "label":"Adapter Sequence R2",
      "name":"adapter_sequence_r2",
      "placeholder":"Please enter adapter sequence.",
      "model":"adapter_sequence_r2",
      "disabled":false,
      "min":1,
      "max":100,
      "config":{
        "initialValue":"AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGT",
        "rules":[
          {
            "type":"string",
            "required":false,
            "message":"Please input an adapter sequence."
          }
        ]
      }
    },
    {
      "tmplType":"actions",
      "buttons":[
        {"type":"cancel","buttonType":"default","buttonLabel":"Previous Step"},
        {
          "type":"submit",
          "buttonType":"primary",
          "buttonLabel":"Next Step",
          "validate":true
        }
      ]
    }
  ]
}