Mercurial > repos > lparsons > cutadapt

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

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"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/cutadapt commit 5eacc4a26d9cd55d1d34d1c35ab200733da6948f"
author iuc
date Mon, 01 Nov 2021 12:14:05 +0000
parents
children 9845c649f41b
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26:44e2cc14f75b 27:de6cebe3c043
1 {
2 "tag": "Cutadapt report",
3 "schema_version": [0, 1],
4 "cutadapt_version": "3.5",
5 "python_version": "3.9.7",
6 "command_line_arguments": [
7 "-j=1",
8 "--json",
9 "stats.json",
10 "-a",
11 "AAAGATG",
12 "--rest-file=rest_output.fa",
13 "--output=out1.fa",
14 "--error-rate=0.1",
15 "--times=1",
16 "--overlap=3",
17 "--action=trim",
18 "cutadapt_rest_fa.fa"
19 ],
20 "cores": 1,
21 "input": {
22 "path1": "cutadapt_rest_fa.fa",
23 "path2": null,
24 "paired": false
25 },
26 "read_counts": {
27 "input": 5,
28 "filtered": {
29 "too_short": null,
30 "too_long": null,
31 "too_many_n": null,
32 "too_many_expected_errors": null,
33 "casava_filtered": null,
34 "discard_trimmed": null,
35 "discard_untrimmed": null
36 },
37 "output": 5,
38 "reverse_complemented": null,
39 "read1_with_adapter": 5,
40 "read2_with_adapter": null
41 },
42 "basepair_counts": {
43 "input": 97,
44 "input_read1": 97,
45 "input_read2": null,
46 "quality_trimmed": null,
47 "quality_trimmed_read1": null,
48 "quality_trimmed_read2": null,
49 "output": 35,
50 "output_read1": 35,
51 "output_read2": null
52 },
53 "adapters_read1": [
54 {
55 "name": "1",
56 "total_matches": 5,
57 "on_reverse_complement": null,
58 "linked": false,
59 "five_prime_end": null,
60 "three_prime_end": {
61 "type": "regular_three_prime",
62 "sequence": "AAAGATG",
63 "error_rate": 0.1,
64 "indels": true,
65 "error_lengths": [7],
66 "matches": 5,
67 "adjacent_bases": {
68 "A": 0,
69 "C": 0,
70 "G": 5,
71 "T": 0,
72 "": 0
73 },
74 "dominant_adjacent_base": null,
75 "trimmed_lengths": [
76 {"len": 7, "expect": 0.0, "counts": [1]},
77 {"len": 12, "expect": 0.0, "counts": [1]},
78 {"len": 14, "expect": 0.0, "counts": [2]},
79 {"len": 15, "expect": 0.0, "counts": [1]}
80 ]
81 }
82 }
83 ],
84 "adapters_read2": null
85 }