annotate test-data/cutadapt_rest.json @ 27:de6cebe3c043 draft

"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/cutadapt commit 5eacc4a26d9cd55d1d34d1c35ab200733da6948f"

{
  "tag": "Cutadapt report",
  "schema_version": [0, 1],
  "cutadapt_version": "3.5",
  "python_version": "3.9.7",
  "command_line_arguments": [
    "-j=1",
    "--json",
    "stats.json",
    "-a",
    "AAAGATG",
    "--rest-file=rest_output.fa",
    "--output=out1.fa",
    "--error-rate=0.1",
    "--times=1",
    "--overlap=3",
    "--action=trim",
    "cutadapt_rest_fa.fa"
  ],
  "cores": 1,
  "input": {
    "path1": "cutadapt_rest_fa.fa",
    "path2": null,
    "paired": false
  },
  "read_counts": {
    "input": 5,
    "filtered": {
      "too_short": null,
      "too_long": null,
      "too_many_n": null,
      "too_many_expected_errors": null,
      "casava_filtered": null,
      "discard_trimmed": null,
      "discard_untrimmed": null
    },
    "output": 5,
    "reverse_complemented": null,
    "read1_with_adapter": 5,
    "read2_with_adapter": null
  },
  "basepair_counts": {
    "input": 97,
    "input_read1": 97,
    "input_read2": null,
    "quality_trimmed": null,
    "quality_trimmed_read1": null,
    "quality_trimmed_read2": null,
    "output": 35,
    "output_read1": 35,
    "output_read2": null
  },
  "adapters_read1": [
    {
      "name": "1",
      "total_matches": 5,
      "on_reverse_complement": null,
      "linked": false,
      "five_prime_end": null,
      "three_prime_end": {
        "type": "regular_three_prime",
        "sequence": "AAAGATG",
        "error_rate": 0.1,
        "indels": true,
        "error_lengths": [7],
        "matches": 5,
        "adjacent_bases": {
          "A": 0,
          "C": 0,
          "G": 5,
          "T": 0,
          "": 0
        },
        "dominant_adjacent_base": null,
        "trimmed_lengths": [
          {"len": 7, "expect": 0.0, "counts": [1]},
          {"len": 12, "expect": 0.0, "counts": [1]},
          {"len": 14, "expect": 0.0, "counts": [2]},
          {"len": 15, "expect": 0.0, "counts": [1]}
        ]
      }
    }
  ],
  "adapters_read2": null
}