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

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

--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/test-data/cutadapt_rest.json	Mon Nov 01 12:14:05 2021 +0000
@@ -0,0 +1,85 @@
+{
+  "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
+}