Mercurial > repos > siwaa > wine_quality_train_eval
changeset 4:d490c7a4c63b draft
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 10:12:30 +0000 |
| parents | ce2d614cac69 |
| children | d30ad788a0ae |
| files | wine_quality_train_eval.xml wine_quality_train_eval.xml.essai wine_quality_train_eval.xml.essaiNOK |
| diffstat | 3 files changed, 95 insertions(+), 93 deletions(-) [+] |
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--- a/wine_quality_train_eval.xml Thu Dec 05 09:24:13 2024 +0000 +++ b/wine_quality_train_eval.xml Thu Dec 05 10:12:30 2024 +0000 @@ -18,8 +18,8 @@ </environment_variables> <command detect_errors="aggressive"> <![CDATA[ - . /fidle-tp/fidle-env/bin/activate; - bash -e -c "mkdir cache_dir && + bash -e -c "source /fidle-tp/fidle-env/bin/activate && + mkdir cache_dir && mkdir mpl_dir && export TRANSFORMERS_CACHE=\$(realpath -s cache_dir) && export MPLCONFIGDIR=\$(realpath -s mpl_dir) &&
--- a/wine_quality_train_eval.xml.essai Thu Dec 05 09:24:13 2024 +0000 +++ /dev/null Thu Jan 01 00:00:00 1970 +0000 @@ -1,91 +0,0 @@ -<tool id="wine_quality_train_eval" name="wine_quality_train_eval" - version="1.0.0"> - - <description>wine_quality_train_eval</description> - - <requirements> - - <!-- singularity --> - <container type="singularity">oras://registry.forgemia.inra.fr/nathalie.rousse/use/dnn_fidlemore:6d159f79349e231deadb738f79bd293c1a8dadd3</container> - - <!-- image locale - <container type="singularity">/home/nrousse/workspace_git/SIWAA_regroup/USE_branch_dnn/use/DNN/containers/fidlemore.simg</container --> - - </requirements> - - <environment_variables> - <environment_variable name="FIDLE_DATASETS_DIR">/fidle-tp/datasets-fidle</environment_variable> - </environment_variables> - <command detect_errors="aggressive"> - <![CDATA[ - . /fidle-tp/fidle-env/bin/activate; - /bin/bash -c "mkdir ./cache_dir; export TRANSFORMERS_CACHE=./cache_dir"; - /bin/bash -c "mkdir ./mpl_dir; export MPLCONFIGDIR=./mpl_dir"; - /bin/bash -c "python3 /fidlemore/model_wine_lightning/wine_quality_train_eval.py -dataset_filepath ${dataset_csv}"; - cp OUTPUTS/model.ckpt ${model_ckpt}; - cp OUTPUTS/norm_config.json ${norm_config_json}; - cp OUTPUTS/report.json ${report_json}; - ]]> - </command> - - <inputs> - <param name="dataset_csv" optional="true" type="data" format="csv" - label="File of dataset used to train and test the model (.csv)"/> - </inputs> - - <outputs> - <data format="ckpt" name="model_ckpt" - label="model_ckpt model file (.ckpt)"/> - <data format="json" name="norm_config_json" - label="norm_config normalization configuration (.json)"/> - <data format="json" name="report_json" label="report (.json)"/> - </outputs> - - <tests> - </tests> - - <help><![CDATA[ - -wine_quality_train_eval.xml - -=========================== - -Code: - ----- - -- wine_quality_train_eval.py - -Inputs: - -------- - -- dataset file (.csv) : - - File containing dataset used to train and test the model. - - The dataset will be splitted in 2 parts (training part, validation part). - - If not given, an embedded default file used. - -Outputs: - --------- - -- Model file (.ckpt) - -- Normalization configuration file (.json) - -- Report file (.json) - -Credits: - --------- - -- Author: Nathalie Rousse nathalie.rousse@inrae.fr -- Copyright: INRAE - - ]]> - </help> - -</tool>
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/wine_quality_train_eval.xml.essaiNOK Thu Dec 05 10:12:30 2024 +0000 @@ -0,0 +1,93 @@ +<tool id="wine_quality_train_eval" name="wine_quality_train_eval" + version="1.0.0"> + + <description>wine_quality_train_eval</description> + + <requirements> + + <!-- singularity --> + <container type="singularity">oras://registry.forgemia.inra.fr/nathalie.rousse/use/dnn_fidlemore:6d159f79349e231deadb738f79bd293c1a8dadd3</container> + + <!-- image locale + <container type="singularity">/home/nrousse/workspace_git/SIWAA_regroup/USE_branch_dnn/use/DNN/containers/fidlemore.simg</container --> + + </requirements> + + <environment_variables> + <environment_variable name="FIDLE_DATASETS_DIR">/fidle-tp/datasets-fidle</environment_variable> + </environment_variables> + <command detect_errors="aggressive"> + <![CDATA[ + . /fidle-tp/fidle-env/bin/activate; + bash -e -c "mkdir cache_dir && + mkdir mpl_dir && + export TRANSFORMERS_CACHE=\$(realpath -s cache_dir) && + export MPLCONFIGDIR=\$(realpath -s mpl_dir) && + python3 /fidlemore/model_wine_lightning/wine_quality_train_eval.py -dataset_filepath ${dataset_csv} && + cp OUTPUTS/model.ckpt ${model_ckpt} && + cp OUTPUTS/norm_config.json ${norm_config_json} && + cp OUTPUTS/report.json ${report_json}" + ]]> + </command> + + <inputs> + <param name="dataset_csv" optional="true" type="data" format="csv" + label="File of dataset used to train and test the model (.csv)"/> + </inputs> + + <outputs> + <data format="ckpt" name="model_ckpt" + label="model_ckpt model file (.ckpt)"/> + <data format="json" name="norm_config_json" + label="norm_config normalization configuration (.json)"/> + <data format="json" name="report_json" label="report (.json)"/> + </outputs> + + <tests> + </tests> + + <help><![CDATA[ + +wine_quality_train_eval.xml + +=========================== + +Code: + +---- + +- wine_quality_train_eval.py + +Inputs: + +------- + +- dataset file (.csv) : + + File containing dataset used to train and test the model. + + The dataset will be splitted in 2 parts (training part, validation part). + + If not given, an embedded default file used. + +Outputs: + +-------- + +- Model file (.ckpt) + +- Normalization configuration file (.json) + +- Report file (.json) + +Credits: + +-------- + +- Author: Nathalie Rousse nathalie.rousse@inrae.fr +- Copyright: INRAE + + ]]> + </help> + +</tool>