forked from biocompute-objects/galaxyMetagenomics_v1.2
-
Notifications
You must be signed in to change notification settings - Fork 0
/
galaxyMetagenomics_PipelineTypeDef.json
95 lines (95 loc) · 3.51 KB
/
galaxyMetagenomics_PipelineTypeDef.json
1
2
3
4
5
6
7
8
9
10
11
12
13
14
15
16
17
18
19
20
21
22
23
24
25
26
27
28
29
30
31
32
33
34
35
36
37
38
39
40
41
42
43
44
45
46
47
48
49
50
51
52
53
54
55
56
57
58
59
60
61
62
63
64
65
66
67
68
69
70
71
72
73
74
75
76
77
78
79
80
81
82
83
84
85
86
87
88
89
90
91
92
93
94
95
{
"Metagenomics_Galaxy" : {
"_inherit" : "biocompute_base_type",
"_fields" : {
"extension_domain":null,
"execution_domain": {
"env_parameters": {
"_type" : "json",
"_fields": {
"vCPU": {
"_type" : "integer"
},
"Memory": {
"_type" : "integer"
},
"SSD_Storage": {
"_type" : "integer"
}
}
}
},
"parametric_domain": {
"Bowtie2" : {
"_type" : "json",
"_comment" : ["visible parameters for Bowtie2"],
"_multi_value" : true,
"_fields":{
"seed": {
"_type" : "integer"
},
"minimum_match_len": {
"_type" : "integer"
},
"divergence_threshold_percent": {
"_type" : "real"
}
}
},
"CensuScope": {
"_type" : "json",
"_comment" : ["visible parameters for CensuScope"],
"_multi_value" : true,
"_fields":{
"iter": {
"_comment" : ["number of iterations for CensuScope"],
"_type" : "integer"
},
"sample": {
"_comment" : ["number of samples taken per iteration for CensuScope"],
"_type" : "integer"
},
"tax": {
"_comment" : ["taxonomic resolution for CensuScope results"],
"_type" : "string",
"_constraint" : {
"_choice" : ["kingdom", "phylum", "class", "order", "family", "genus", "species", "leaf"]
}
}
}
},
"io_domain" : {
"input_subdomain" : {
"query" :{
"_type" : "json",
"_comment" : [""],
"_multi_value" : true,
"_fields":{
"name":{
"_type" : "string"
},
"URI": {
"_type" : "string"
}
}
},
"subject": {
"_type" : "json",
"_comment" : [""],
"_multi_value" : true,
"_fields":{
"name":{
"_type" : "string"
},
"URI": {
"_type" : "string"
}
}
}
}
},
"error_domain": null
}
}
}
}