Mercurial > repos > bgruening > keras_model_builder
diff keras_model_builder.xml @ 8:449a757be9c9 draft
"planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit e2a5eade6d0e5ddf3a47630381a0ad90d80e8a04"
| author | bgruening |
|---|---|
| date | Tue, 13 Apr 2021 18:29:36 +0000 |
| parents | 818896cd2213 |
| children | 624e2afa1313 |
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--- a/keras_model_builder.xml Thu Oct 01 21:04:39 2020 +0000 +++ b/keras_model_builder.xml Tue Apr 13 18:29:36 2021 +0000 @@ -1,14 +1,13 @@ -<tool id="keras_model_builder" name="Create deep learning model" version="@KERAS_VERSION@"> +<tool id="keras_model_builder" name="Create deep learning model" version="@KERAS_VERSION@" profile="20.05"> <description>with an optimizer, loss function and fit parameters</description> <macros> <import>main_macros.xml</import> <import>keras_macros.xml</import> </macros> - <expand macro="python_requirements"/> - <expand macro="macro_stdio"/> + <expand macro="python_requirements" /> + <expand macro="macro_stdio" /> <version_command>echo "@KERAS_VERSION@"</version_command> - <command> - <![CDATA[ + <command><![CDATA[ python '$__tool_directory__/keras_deep_learning.py' --inputs '$inputs' --tool_id 'keras_model_builder' @@ -23,7 +22,7 @@ ]]> </command> <configfiles> - <inputs name="inputs"/> + <inputs name="inputs" /> </configfiles> <inputs> <conditional name="mode_selection"> @@ -32,24 +31,24 @@ <option value="prefitted">Load a pretrained model for prediction</option> </param> <when value="train_model"> - <param name="infile_json" type="data" format="json" label="Select the dataset containing model configurations (JSON)"/> + <param name="infile_json" type="data" format="json" label="Select the dataset containing model configurations (JSON)" /> <param name="learning_type" type="select" label="Do classification or regression?"> <option value="KerasGClassifier">KerasGClassifier</option> <option value="KerasGRegressor">KerasGRegressor</option> </param> - <expand macro="keras_compile_params_section"/> - <expand macro="keras_fit_params_section"/> - <param name="random_seed" type="integer" value="" optional="true" label="Random Seed" help="Integer or blank for None. Warning: when random seed is set to an integer, training will be running in single thread mode, which may cause slowness."/> - <param name="get_params" type="boolean" truevalue="booltrue" falsevalue="boolfalse" checked="false" label="Output parameters for searchCV?" help="Optional. Tunable parameters could be obtained through `estimator_attributes` tool."/> + <expand macro="keras_compile_params_section" /> + <expand macro="keras_fit_params_section" /> + <param name="random_seed" type="integer" value="" optional="true" label="Random Seed" help="Integer or blank for None. Warning: when random seed is set to an integer, training will be running in single thread mode, which may cause slowness." /> + <param name="get_params" type="boolean" truevalue="booltrue" falsevalue="boolfalse" checked="false" label="Output parameters for searchCV?" help="Optional. Tunable parameters could be obtained through `estimator_attributes` tool." /> </when> <when value="prefitted"> - <param name="infile_json" type="data" format="json" label="Select the dataset containing model configurations (JSON)"/> - <param name="infile_weights" type="data" format="h5" label="Select the dataset containing keras layers weights"/> + <param name="infile_json" type="data" format="json" label="Select the dataset containing model configurations (JSON)" /> + <param name="infile_weights" type="data" format="h5" label="Select the dataset containing keras layers weights" /> </when> </conditional> </inputs> <outputs> - <data format="zip" name="outfile" label="Keras Model Builder on ${on_string}"/> + <data format="zip" name="outfile" label="Keras Model Builder on ${on_string}" /> <data format="tabular" name="outfile_params" label="get_params for Keras Model Builder on ${on_string}"> <filter>mode_selection['mode_type'] == 'train_model' and mode_selection['get_params']</filter> </data> @@ -57,59 +56,59 @@ <tests> <test> <conditional name="mode_selection"> - <param name="infile_json" value="keras01.json" ftype="json"/> - <param name="learning_type" value="KerasGRegressor"/> + <param name="infile_json" value="keras01.json" ftype="json" /> + <param name="learning_type" value="KerasGRegressor" /> <section name="fit_params"> - <param name="epochs" value="100"/> + <param name="epochs" value="100" /> </section> </conditional> - <output name="outfile" file="keras_model01" compare="sim_size" delta="5"/> + <output name="outfile" file="keras_model01" compare="sim_size" delta="30" /> </test> <test> <conditional name="mode_selection"> - <param name="infile_json" value="keras02.json" ftype="json"/> + <param name="infile_json" value="keras02.json" ftype="json" /> <section name="compile_params"> <conditional name="optimizer_selection"> - <param name="optimizer_type" value="Adam"/> + <param name="optimizer_type" value="Adam" /> </conditional> </section> <section name="fit_params"> - <param name="epochs" value="100"/> + <param name="epochs" value="100" /> </section> </conditional> - <output name="outfile" file="keras_model02" compare="sim_size" delta="5"/> + <output name="outfile" file="keras_model02" compare="sim_size" delta="30" /> </test> <test> <conditional name="mode_selection"> - <param name="mode_type" value="prefitted"/> - <param name="infile_json" value="keras03.json" ftype="json"/> - <param name="infile_weights" value="keras_save_weights01.h5" ftype="h5"/> + <param name="mode_type" value="prefitted" /> + <param name="infile_json" value="keras03.json" ftype="json" /> + <param name="infile_weights" value="keras_save_weights01.h5" ftype="h5" /> </conditional> - <output name="outfile" file="keras_prefitted01.zip" compare="sim_size" delta="5"/> + <output name="outfile" file="keras_prefitted01.zip" compare="sim_size" delta="30" /> </test> <test> <conditional name="mode_selection"> - <param name="infile_json" value="keras04.json" ftype="json"/> - <param name="learning_type" value="KerasGRegressor"/> + <param name="infile_json" value="keras04.json" ftype="json" /> + <param name="learning_type" value="KerasGRegressor" /> <section name="compile_params"> <conditional name="optimizer_selection"> - <param name="optimizer_type" value="Adam"/> + <param name="optimizer_type" value="Adam" /> </conditional> - <param name="metrics" value="mse"/> - <param name="loss" value="mean_squared_error"/> + <param name="metrics" value="mse" /> + <param name="loss" value="mean_squared_error" /> </section> <section name="fit_params"> - <param name="epochs" value="100"/> + <param name="epochs" value="100" /> </section> - <param name="random_seed" value="42"/> - <param name="get_params" value="true"/> + <param name="random_seed" value="42" /> + <param name="get_params" value="true" /> </conditional> - <output name="outfile" file="keras_model04" compare="sim_size" delta="1"/> - <output name="outfile_params" file="keras_params04.tabular"/> + <output name="outfile" file="keras_model04" compare="sim_size" delta="30" /> + <output name="outfile_params" file="keras_params04.tabular" /> </test> </tests> <help> - <![CDATA[ + <![CDATA[ **Help** **What it does** @@ -132,7 +131,7 @@ ]]> </help> <citations> - <expand macro="keras_citation"/> - <expand macro="tensorflow_citation"/> + <expand macro="keras_citation" /> + <expand macro="tensorflow_citation" /> </citations> </tool>