Mercurial > repos > lparsons > cutadapt

comparison test-data/cutadapt_rest.json @ 39:fe74900d6dc7 draft default tip

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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/cutadapt commit a5b6cb44f81abe57a4269bded1fa4d41f462f9d5
author iuc
date Fri, 17 May 2024 13:32:03 +0000
parents b1c926deaa2d
children
comparison
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38:b1c926deaa2d 39:fe74900d6dc7
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 "poly_a_trimmed": null,
50 "poly_a_trimmed_read1": null,
51 "poly_a_trimmed_read2": null,
52 "output": 35,
53 "output_read1": 35,
54 "output_read2": null
55 },
56 "adapters_read1": [
57 {
58 "name": "1",
59 "total_matches": 5,
60 "on_reverse_complement": null,
61 "linked": false,
62 "five_prime_end": null,
63 "three_prime_end": {
64 "type": "regular_three_prime",
65 "sequence": "AAAGATG",
66 "error_rate": 0.1,
67 "indels": true,
68 "error_lengths": [7],
69 "matches": 5,
70 "adjacent_bases": {
71 "A": 0,
72 "C": 0,
73 "G": 5,
74 "T": 0,
75 "": 0
76 },
77 "dominant_adjacent_base": null,
78 "trimmed_lengths": [
79 {"len": 7, "expect": 0.0, "counts": [1]},
80 {"len": 12, "expect": 0.0, "counts": [1]},
81 {"len": 14, "expect": 0.0, "counts": [2]},
82 {"len": 15, "expect": 0.0, "counts": [1]}
83 ]
84 }
85 }
86 ],
87 "adapters_read2": null,
88 "poly_a_trimmed_read1": null,
89 "poly_a_trimmed_read2": null
90 }