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planemo upload for repository https://forgemia.inra.fr/nathalie.rousse/use/-/tree/dnn/DNN/galaxy-tools/wine_quality_train_eval commit e7c4e447552083db7eaecbdf139a7c359fe9becc-dirty
author siwaa
date Thu, 05 Dec 2024 11:45:31 +0000
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5:d30ad788a0ae 6:51f36952ccaa
1 <tool id="wine_quality_train_eval" name="wine_quality_train_eval"
2 version="1.0.0">
3
4 <description>wine_quality_train_eval</description>
5
6 <requirements>
7
8 <!-- singularity -->
9 <container type="singularity">oras://registry.forgemia.inra.fr/nathalie.rousse/use/dnn_fidlemore:6d159f79349e231deadb738f79bd293c1a8dadd3</container>
10
11 <!-- image locale
12 <container type="singularity">/home/nrousse/workspace_git/SIWAA_regroup/USE_branch_dnn/use/DNN/containers/fidlemore.simg</container -->
13
14 </requirements>
15
16 <environment_variables>
17 <environment_variable name="FIDLE_DATASETS_DIR">/fidle-tp/datasets-fidle</environment_variable>
18 </environment_variables>
19 <command detect_errors="aggressive">
20 <![CDATA[
21 bash -e -c "cp -fr /fidle-tp/fidle-env fidle-env &&
22 source fidle-env/bin/activate &&
23 mkdir cache_dir &&
24 mkdir mpl_dir &&
25 export TRANSFORMERS_CACHE=\$(realpath -s cache_dir) &&
26 export MPLCONFIGDIR=\$(realpath -s mpl_dir) &&
27 python3 /fidlemore/model_wine_lightning/wine_quality_train_eval.py -dataset_filepath ${dataset_csv} &&
28 cp OUTPUTS/model.ckpt ${model_ckpt} &&
29 cp OUTPUTS/norm_config.json ${norm_config_json} &&
30 cp OUTPUTS/report.json ${report_json}"
31 ]]>
32 </command>
33
34 <inputs>
35 <param name="dataset_csv" optional="true" type="data" format="csv"
36 label="File of dataset used to train and test the model (.csv)"/>
37 </inputs>
38
39 <outputs>
40 <data format="ckpt" name="model_ckpt"
41 label="model_ckpt model file (.ckpt)"/>
42 <data format="json" name="norm_config_json"
43 label="norm_config normalization configuration (.json)"/>
44 <data format="json" name="report_json" label="report (.json)"/>
45 </outputs>
46
47 <tests>
48 </tests>
49
50 <help><![CDATA[
51
52 wine_quality_train_eval.xml
53
54 ===========================
55
56 Code:
57
58 ----
59
60 - wine_quality_train_eval.py
61
62 Inputs:
63
64 -------
65
66 - dataset file (.csv) :
67
68 File containing dataset used to train and test the model.
69
70 The dataset will be splitted in 2 parts (training part, validation part).
71
72 If not given, an embedded default file used.
73
74 Outputs:
75
76 --------
77
78 - Model file (.ckpt)
79
80 - Normalization configuration file (.json)
81
82 - Report file (.json)
83
84 Credits:
85
86 --------
87
88 - Author: Nathalie Rousse nathalie.rousse@inrae.fr
89 - Copyright: INRAE
90
91 ]]>
92 </help>
93
94 </tool>