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planemo upload for repository https://forgemia.inra.fr/nathalie.rousse/erecord-deploy/-/tree/main/galaxy-tools/erecord_json commit 88beb443a737b4c4d42bb0011a26a0acf535c366
author siwaa
date Tue, 12 Dec 2023 17:37:35 +0000
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children d87b8a1073ad
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1 <tool id="erecord_json" name="erecord_json" version="1.0.0">
2
3 <description>erecord returning .json</description>
4
5 <requirements>
6
7 <!-- singularity -->
8 <container type="singularity">oras://registry.forgemia.inra.fr/nathalie.rousse/erecord-deploy/erecord_rep0_vle2:82d8fea607be20851e194828125785fb0f7e96d0</container>
9
10 </requirements>
11
12 <command detect_errors="aggressive">
13 <![CDATA[
14 /bin/bash -c "python3 $__tool_directory__/main_json.py -data ${input_json} -datafolder ${datafolder}";
15 cp WS/OUT/output.json ${output_json};
16 ]]>
17 </command>
18
19 <inputs>
20
21 <param name="input_json" optional="true" type="data" format="json"
22 label="Input json file"/>
23
24 <param name="datafolder" optional="true" type="data" format="zip"
25 label="Add a datafolder zip file (available and used only in 'post_vpz_output' or 'post_vpz_inout' cases)"
26 help="Precisions sur forme du dossier..."/>
27
28 </inputs>
29
30 <outputs>
31 <data format="json" name="output_json" label="jsonoutput"/>
32 </outputs>
33
34 <tests>
35 </tests>
36
37 <help><![CDATA[
38
39 erecord_json.xml
40
41 ================
42
43 Actions:
44
45 -------
46
47 - Available :
48 - 'get_vpz_input' 'post_vpz_input'
49 - 'get_vpz_output' 'post_vpz_output'
50 - 'get_vpz_inout' 'post_vpz_inout'
51 - 'get_pkg_list' 'get_pkg_vpz_list' 'get_pkg_data_list'
52 - 'help'
53
54 - Unavailable (actions with 2 output files) :
55 - 'get_vpz_experiment' 'post_vpz_experiment'
56 - 'get_vpz_report_conditions' 'post_vpz_report_conditions'
57 - 'get_vpz_report' 'post_vpz_report'
58
59 Code:
60
61 ----
62
63 - main_json.py
64
65 Inputs:
66
67 -------
68
69 - data json file (optional) (json file, param type="data")
70
71 This file contains the action value
72
73 - datafolder (optional) (only in 'post_vpz_output', 'post_vpz_inout' cases)
74
75 Outputs:
76
77 --------
78
79 - data json file (no other file returned)
80
81 Credits:
82
83 --------
84
85 - Author: Nathalie Rousse nathalie.rousse@inrae.fr
86 - Copyright: INRAE
87
88 ]]>
89 </help>
90
91 </tool>