read_tsv

Array[Array[String]] read_tsv(File)

Reads a tab-separated value (TSV) file as an Array[Array[String]] representing a table of values. Trailing end-of-line characters (\r and \n) are removed from each line.

There is no requirement that the rows of the table are all the same length.

If the file is empty, an empty array is returned.

Parameters

1. File: Path of the TSV file to read.

Returns: An Array of rows in the TSV file, where each row is an Array[String] of fields.

Example: read_tsv_task.wdl

version 1.1

task read_tsv {
  command <<<
    {
      printf "row1\tvalue1\n"
      printf "row2\tvalue2\n"
      printf "row3\tvalue3\n"
    } >> data.tsv
  >>>

  output {
    Array[Array[String]] output_table = read_tsv("data.tsv")
  }
}

{}

{
  "read_tsv.output_table": [
    ["row1", "value1"],
    ["row2", "value2"],
    ["row3", "value3"]
  ]
}