Mercurial > repos > siwaa > wine_quality

annotate wine_quality.xml @ 3:f542f29a920c draft default tip

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planemo upload for repository https://forgemia.inra.fr/nathalie.rousse/use/-/tree/dnn/DNN/galaxy-tools/wine_quality commit 293e7a2e4cc40479ce83dca0168d17b314f9b607
author siwaa
date Mon, 09 Dec 2024 11:26:35 +0000
parents c1b75945752a
children
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143b15001522 planemo upload for repository https://forgemia.inra.fr/nathalie.rousse/use/-/tree/dnn/DNN/galaxy-tools/wine_quality commit e7c4e447552083db7eaecbdf139a7c359fe9becc
siwaa
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1 <tool id="wine_quality" name="wine_quality" version="1.0.0">
143b15001522 planemo upload for repository https://forgemia.inra.fr/nathalie.rousse/use/-/tree/dnn/DNN/galaxy-tools/wine_quality commit e7c4e447552083db7eaecbdf139a7c359fe9becc
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143b15001522 planemo upload for repository https://forgemia.inra.fr/nathalie.rousse/use/-/tree/dnn/DNN/galaxy-tools/wine_quality commit e7c4e447552083db7eaecbdf139a7c359fe9becc
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3 <description>wine_quality</description>
143b15001522 planemo upload for repository https://forgemia.inra.fr/nathalie.rousse/use/-/tree/dnn/DNN/galaxy-tools/wine_quality commit e7c4e447552083db7eaecbdf139a7c359fe9becc
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143b15001522 planemo upload for repository https://forgemia.inra.fr/nathalie.rousse/use/-/tree/dnn/DNN/galaxy-tools/wine_quality commit e7c4e447552083db7eaecbdf139a7c359fe9becc
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5 <requirements>
143b15001522 planemo upload for repository https://forgemia.inra.fr/nathalie.rousse/use/-/tree/dnn/DNN/galaxy-tools/wine_quality commit e7c4e447552083db7eaecbdf139a7c359fe9becc
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143b15001522 planemo upload for repository https://forgemia.inra.fr/nathalie.rousse/use/-/tree/dnn/DNN/galaxy-tools/wine_quality commit e7c4e447552083db7eaecbdf139a7c359fe9becc
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7 <!-- singularity -->
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c1b75945752a planemo upload for repository https://forgemia.inra.fr/nathalie.rousse/use/-/tree/dnn/DNN/galaxy-tools/wine_quality commit c595a7b4b556ab642ecf0396957f2959139dc4ab-dirty
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8 <container type="singularity">oras://registry.forgemia.inra.fr/nathalie.rousse/use/dnn_fidlemore:c595a7b4b556ab642ecf0396957f2959139dc4ab</container>
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143b15001522 planemo upload for repository https://forgemia.inra.fr/nathalie.rousse/use/-/tree/dnn/DNN/galaxy-tools/wine_quality commit e7c4e447552083db7eaecbdf139a7c359fe9becc
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143b15001522 planemo upload for repository https://forgemia.inra.fr/nathalie.rousse/use/-/tree/dnn/DNN/galaxy-tools/wine_quality commit e7c4e447552083db7eaecbdf139a7c359fe9becc
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10 <!-- image locale
143b15001522 planemo upload for repository https://forgemia.inra.fr/nathalie.rousse/use/-/tree/dnn/DNN/galaxy-tools/wine_quality commit e7c4e447552083db7eaecbdf139a7c359fe9becc
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11 <container type="singularity">/home/nrousse/workspace_git/SIWAA_regroup/USE_branch_dnn/use/DNN/containers/fidlemore.simg</container -->
143b15001522 planemo upload for repository https://forgemia.inra.fr/nathalie.rousse/use/-/tree/dnn/DNN/galaxy-tools/wine_quality commit e7c4e447552083db7eaecbdf139a7c359fe9becc
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143b15001522 planemo upload for repository https://forgemia.inra.fr/nathalie.rousse/use/-/tree/dnn/DNN/galaxy-tools/wine_quality commit e7c4e447552083db7eaecbdf139a7c359fe9becc
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13 </requirements>
143b15001522 planemo upload for repository https://forgemia.inra.fr/nathalie.rousse/use/-/tree/dnn/DNN/galaxy-tools/wine_quality commit e7c4e447552083db7eaecbdf139a7c359fe9becc
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143b15001522 planemo upload for repository https://forgemia.inra.fr/nathalie.rousse/use/-/tree/dnn/DNN/galaxy-tools/wine_quality commit e7c4e447552083db7eaecbdf139a7c359fe9becc
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15 <command detect_errors="aggressive">
143b15001522 planemo upload for repository https://forgemia.inra.fr/nathalie.rousse/use/-/tree/dnn/DNN/galaxy-tools/wine_quality commit e7c4e447552083db7eaecbdf139a7c359fe9becc
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16 <![CDATA[
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c1b75945752a planemo upload for repository https://forgemia.inra.fr/nathalie.rousse/use/-/tree/dnn/DNN/galaxy-tools/wine_quality commit c595a7b4b556ab642ecf0396957f2959139dc4ab-dirty
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17 bash -e -c "source /fidle-tp/fidle-env/bin/activate &&
c1b75945752a planemo upload for repository https://forgemia.inra.fr/nathalie.rousse/use/-/tree/dnn/DNN/galaxy-tools/wine_quality commit c595a7b4b556ab642ecf0396957f2959139dc4ab-dirty
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18 mkdir datasets-fidle &&
c1b75945752a planemo upload for repository https://forgemia.inra.fr/nathalie.rousse/use/-/tree/dnn/DNN/galaxy-tools/wine_quality commit c595a7b4b556ab642ecf0396957f2959139dc4ab-dirty
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19 export FIDLE_DATASETS_DIR=\$(realpath -s datasets-fidle) &&
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f542f29a920c planemo upload for repository https://forgemia.inra.fr/nathalie.rousse/use/-/tree/dnn/DNN/galaxy-tools/wine_quality commit 293e7a2e4cc40479ce83dca0168d17b314f9b607
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20 mkdir cache_dir &&
f542f29a920c planemo upload for repository https://forgemia.inra.fr/nathalie.rousse/use/-/tree/dnn/DNN/galaxy-tools/wine_quality commit 293e7a2e4cc40479ce83dca0168d17b314f9b607
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21 export TRANSFORMERS_CACHE=\$(realpath -s cache_dir) &&
f542f29a920c planemo upload for repository https://forgemia.inra.fr/nathalie.rousse/use/-/tree/dnn/DNN/galaxy-tools/wine_quality commit 293e7a2e4cc40479ce83dca0168d17b314f9b607
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22 mkdir mpl_dir &&
f542f29a920c planemo upload for repository https://forgemia.inra.fr/nathalie.rousse/use/-/tree/dnn/DNN/galaxy-tools/wine_quality commit 293e7a2e4cc40479ce83dca0168d17b314f9b607
siwaa
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23 export MPLCONFIGDIR=\$(realpath -s mpl_dir) &&
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c1b75945752a planemo upload for repository https://forgemia.inra.fr/nathalie.rousse/use/-/tree/dnn/DNN/galaxy-tools/wine_quality commit c595a7b4b556ab642ecf0396957f2959139dc4ab-dirty
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24 python3 $__tool_directory__/wine_quality.py -model_ckpt_filepath ${model_ckpt} -norm_config_json_filepath ${norm_config_json} -data '${datajson_text}' &&
c1b75945752a planemo upload for repository https://forgemia.inra.fr/nathalie.rousse/use/-/tree/dnn/DNN/galaxy-tools/wine_quality commit c595a7b4b556ab642ecf0396957f2959139dc4ab-dirty
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25 cp OUTPUTS/quality.txt ${quality_txt}"
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143b15001522 planemo upload for repository https://forgemia.inra.fr/nathalie.rousse/use/-/tree/dnn/DNN/galaxy-tools/wine_quality commit e7c4e447552083db7eaecbdf139a7c359fe9becc
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26 ]]>
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27 </command>
143b15001522 planemo upload for repository https://forgemia.inra.fr/nathalie.rousse/use/-/tree/dnn/DNN/galaxy-tools/wine_quality commit e7c4e447552083db7eaecbdf139a7c359fe9becc
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143b15001522 planemo upload for repository https://forgemia.inra.fr/nathalie.rousse/use/-/tree/dnn/DNN/galaxy-tools/wine_quality commit e7c4e447552083db7eaecbdf139a7c359fe9becc
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29 <inputs>
143b15001522 planemo upload for repository https://forgemia.inra.fr/nathalie.rousse/use/-/tree/dnn/DNN/galaxy-tools/wine_quality commit e7c4e447552083db7eaecbdf139a7c359fe9becc
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30 <param name="datajson_text" optional="false" type="text" area="true"
143b15001522 planemo upload for repository https://forgemia.inra.fr/nathalie.rousse/use/-/tree/dnn/DNN/galaxy-tools/wine_quality commit e7c4e447552083db7eaecbdf139a7c359fe9becc
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31 label="Data of wine whose quality to be predicted (json as text)"/>
143b15001522 planemo upload for repository https://forgemia.inra.fr/nathalie.rousse/use/-/tree/dnn/DNN/galaxy-tools/wine_quality commit e7c4e447552083db7eaecbdf139a7c359fe9becc
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32 <param name="model_ckpt" optional="false" type="data" format="ckpt"
143b15001522 planemo upload for repository https://forgemia.inra.fr/nathalie.rousse/use/-/tree/dnn/DNN/galaxy-tools/wine_quality commit e7c4e447552083db7eaecbdf139a7c359fe9becc
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33 label="model_ckpt model file (.ckpt)"/>
143b15001522 planemo upload for repository https://forgemia.inra.fr/nathalie.rousse/use/-/tree/dnn/DNN/galaxy-tools/wine_quality commit e7c4e447552083db7eaecbdf139a7c359fe9becc
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34 <param name="norm_config_json" optional="false" type="data" format="json"
143b15001522 planemo upload for repository https://forgemia.inra.fr/nathalie.rousse/use/-/tree/dnn/DNN/galaxy-tools/wine_quality commit e7c4e447552083db7eaecbdf139a7c359fe9becc
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35 label="norm_config normalization configuration (.json)"/>
143b15001522 planemo upload for repository https://forgemia.inra.fr/nathalie.rousse/use/-/tree/dnn/DNN/galaxy-tools/wine_quality commit e7c4e447552083db7eaecbdf139a7c359fe9becc
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36 </inputs>
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143b15001522 planemo upload for repository https://forgemia.inra.fr/nathalie.rousse/use/-/tree/dnn/DNN/galaxy-tools/wine_quality commit e7c4e447552083db7eaecbdf139a7c359fe9becc
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38 <outputs>
143b15001522 planemo upload for repository https://forgemia.inra.fr/nathalie.rousse/use/-/tree/dnn/DNN/galaxy-tools/wine_quality commit e7c4e447552083db7eaecbdf139a7c359fe9becc
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39 <data format="txt" name="quality_txt" label="quality (.txt)"/>
143b15001522 planemo upload for repository https://forgemia.inra.fr/nathalie.rousse/use/-/tree/dnn/DNN/galaxy-tools/wine_quality commit e7c4e447552083db7eaecbdf139a7c359fe9becc
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40 </outputs>
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42 <tests>
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43 </tests>
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45 <help><![CDATA[
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143b15001522 planemo upload for repository https://forgemia.inra.fr/nathalie.rousse/use/-/tree/dnn/DNN/galaxy-tools/wine_quality commit e7c4e447552083db7eaecbdf139a7c359fe9becc
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47 wine_quality.xml
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49 ===========================
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51 Code:
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53 ----
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55 - wine_quality.py
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57 Inputs:
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59 -------
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143b15001522 planemo upload for repository https://forgemia.inra.fr/nathalie.rousse/use/-/tree/dnn/DNN/galaxy-tools/wine_quality commit e7c4e447552083db7eaecbdf139a7c359fe9becc
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61 - data json as text : data of wine for which quality is going to be predicted.
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63 - example :
143b15001522 planemo upload for repository https://forgemia.inra.fr/nathalie.rousse/use/-/tree/dnn/DNN/galaxy-tools/wine_quality commit e7c4e447552083db7eaecbdf139a7c359fe9becc
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65 - {"fixed acidity": 11.2, "volatile acidity": 0.28, "citric acid": 0.56, "residual sugar": 1.9, "chlorides": 0.075, "free sulfur dioxide": 17, "total sulfur dioxide": 60, "density": 0.998, "pH": 3.16, "sulphates": 0.58, "alcohol": 9.8}
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67 - Model file (.ckpt)
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69 - Normalization configuration file (.json)
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71 Outputs:
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73 --------
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75 - Quality file (.txt)
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77 Credits:
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79 --------
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81 - Author: Nathalie Rousse nathalie.rousse@inrae.fr
143b15001522 planemo upload for repository https://forgemia.inra.fr/nathalie.rousse/use/-/tree/dnn/DNN/galaxy-tools/wine_quality commit e7c4e447552083db7eaecbdf139a7c359fe9becc
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82 - Copyright: INRAE
143b15001522 planemo upload for repository https://forgemia.inra.fr/nathalie.rousse/use/-/tree/dnn/DNN/galaxy-tools/wine_quality commit e7c4e447552083db7eaecbdf139a7c359fe9becc
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83
143b15001522 planemo upload for repository https://forgemia.inra.fr/nathalie.rousse/use/-/tree/dnn/DNN/galaxy-tools/wine_quality commit e7c4e447552083db7eaecbdf139a7c359fe9becc
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84 ]]>
143b15001522 planemo upload for repository https://forgemia.inra.fr/nathalie.rousse/use/-/tree/dnn/DNN/galaxy-tools/wine_quality commit e7c4e447552083db7eaecbdf139a7c359fe9becc
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85 </help>
143b15001522 planemo upload for repository https://forgemia.inra.fr/nathalie.rousse/use/-/tree/dnn/DNN/galaxy-tools/wine_quality commit e7c4e447552083db7eaecbdf139a7c359fe9becc
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86
143b15001522 planemo upload for repository https://forgemia.inra.fr/nathalie.rousse/use/-/tree/dnn/DNN/galaxy-tools/wine_quality commit e7c4e447552083db7eaecbdf139a7c359fe9becc
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87 </tool>