Mercurial > repos > siwaa > wine_quality_train_eval

annotate wine_quality_train_eval.xml @ 19:a9b2e3ba898b draft

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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 c595a7b4b556ab642ecf0396957f2959139dc4ab-dirty
author siwaa
date Mon, 09 Dec 2024 11:06:43 +0000
parents 8916f75916b6
children 083671dfbef9
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202391eebeb6 planemo upload for repository https://forgemia.inra.fr/nathalie.rousse/use/-/tree/dnn/DNN/galaxy-tools/wine_quality_train_eval commit e7c4e447552083db7eaecbdf139a7c359fe9becc
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1 <tool id="wine_quality_train_eval" name="wine_quality_train_eval"
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2 version="1.0.0">
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4 <description>wine_quality_train_eval</description>
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6 <requirements>
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7
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8 <!-- singularity -->
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9 <container type="singularity">oras://registry.forgemia.inra.fr/nathalie.rousse/use/dnn_fidlemore:c595a7b4b556ab642ecf0396957f2959139dc4ab</container>
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11 <!-- image locale
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12 <container type="singularity">/home/nrousse/workspace_git/SIWAA_regroup/USE_branch_dnn/use/DNN/containers/fidlemore.simg</container -->
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14 </requirements>
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16 <command detect_errors="aggressive">
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17 <![CDATA[
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51f36952ccaa planemo upload for repository https://forgemia.inra.fr/nathalie.rousse/use/-/tree/dnn/DNN/galaxy-tools/wine_quality_train_eval commit e7c4e447552083db7eaecbdf139a7c359fe9becc-dirty
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18 bash -e -c "source /fidle-tp/fidle-env/bin/activate &&
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19 mkdir datasets-fidle &&
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20 export FIDLE_DATASETS_DIR=\$(realpath -s datasets-fidle) &&
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21 mkdir datasets-fidle/WineQuality &&
a9b2e3ba898b planemo upload for repository https://forgemia.inra.fr/nathalie.rousse/use/-/tree/dnn/DNN/galaxy-tools/wine_quality_train_eval commit c595a7b4b556ab642ecf0396957f2959139dc4ab-dirty
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22 mkdir datasets-fidle/WineQuality/origine &&
a9b2e3ba898b planemo upload for repository https://forgemia.inra.fr/nathalie.rousse/use/-/tree/dnn/DNN/galaxy-tools/wine_quality_train_eval commit c595a7b4b556ab642ecf0396957f2959139dc4ab-dirty
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23 cp /fidle-tp/datasets-fidle/WineQuality/origine/winequality-red.csv datasets-fidle/WineQuality/origine/. &&
a9b2e3ba898b planemo upload for repository https://forgemia.inra.fr/nathalie.rousse/use/-/tree/dnn/DNN/galaxy-tools/wine_quality_train_eval commit c595a7b4b556ab642ecf0396957f2959139dc4ab-dirty
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24 python3 /fidlemore/model_wine_lightning/wine_quality_train_eval.py -dataset_filepath ${dataset_csv} &&
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25 cp OUTPUTS/model.ckpt ${model_ckpt} &&
ce2d614cac69 planemo upload for repository https://forgemia.inra.fr/nathalie.rousse/use/-/tree/dnn/DNN/galaxy-tools/wine_quality_train_eval commit e7c4e447552083db7eaecbdf139a7c359fe9becc-dirty
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26 cp OUTPUTS/norm_config.json ${norm_config_json} &&
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27 cp OUTPUTS/report.json ${report_json}"
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28 ]]>
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29 </command>
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31 <inputs>
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32 <param name="dataset_csv" optional="true" type="data" format="csv"
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33 label="File of dataset used to train and test the model (.csv)"/>
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34 </inputs>
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36 <outputs>
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37 <data format="ckpt" name="model_ckpt"
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38 label="model_ckpt model file (.ckpt)"/>
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39 <data format="json" name="norm_config_json"
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40 label="norm_config normalization configuration (.json)"/>
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41 <data format="json" name="report_json" label="report (.json)"/>
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42 </outputs>
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44 <tests>
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45 </tests>
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47 <help><![CDATA[
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49 wine_quality_train_eval.xml
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51 ===========================
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53 Code:
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55 ----
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57 - wine_quality_train_eval.py
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59 Inputs:
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61 -------
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63 - dataset file (.csv) :
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65 File containing dataset used to train and test the model.
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67 The dataset will be splitted in 2 parts (training part, validation part).
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69 If not given, an embedded default file used.
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71 Outputs:
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73 --------
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75 - Model file (.ckpt)
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77 - Normalization configuration file (.json)
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79 - Report file (.json)
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81 Credits:
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83 --------
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85 - Author: Nathalie Rousse nathalie.rousse@inrae.fr
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86 - Copyright: INRAE
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88 ]]>
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89 </help>
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91 </tool>