Mercurial > repos > bgruening > keras_model_builder
diff keras_model_builder.xml @ 14:624e2afa1313 draft
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 9981e25b00de29ed881b2229a173a8c812ded9bb
| author | bgruening |
|---|---|
| date | Wed, 09 Aug 2023 13:26:02 +0000 |
| parents | 449a757be9c9 |
| children |
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--- a/keras_model_builder.xml Thu Aug 11 08:46:52 2022 +0000 +++ b/keras_model_builder.xml Wed Aug 09 13:26:02 2023 +0000 @@ -1,4 +1,4 @@ -<tool id="keras_model_builder" name="Create deep learning model" version="@KERAS_VERSION@" profile="20.05"> +<tool id="keras_model_builder" name="Create deep learning model" version="@VERSION@" profile="@PROFILE@"> <description>with an optimizer, loss function and fit parameters</description> <macros> <import>main_macros.xml</import> @@ -6,19 +6,14 @@ </macros> <expand macro="python_requirements" /> <expand macro="macro_stdio" /> - <version_command>echo "@KERAS_VERSION@"</version_command> - <command><![CDATA[ + <version_command>echo "@VERSION@"</version_command> + <command> + <![CDATA[ python '$__tool_directory__/keras_deep_learning.py' --inputs '$inputs' --tool_id 'keras_model_builder' --outfile '$outfile' --model_json '$mode_selection.infile_json' - #if $mode_selection.mode_type == 'prefitted' - --infile_weights '$mode_selection.infile_weights' - #end if - #if $mode_selection.mode_type == 'train_model' and $mode_selection.get_params - --outfile_params '$outfile_params' - #end if ]]> </command> <configfiles> @@ -28,7 +23,7 @@ <conditional name="mode_selection"> <param name="mode_type" type="select" label="Choose a building mode"> <option value="train_model" selected="true">Build a training model</option> - <option value="prefitted">Load a pretrained model for prediction</option> + <!--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)" /> @@ -37,21 +32,19 @@ <option value="KerasGRegressor">KerasGRegressor</option> </param> <expand macro="keras_compile_params_section" /> - <expand macro="keras_fit_params_section" /> + <expand macro="keras_fit_params_section"> + <param name="validation_split" type="float" value="0.1" optional="true" label="The proportion of training data to set aside as validation set." help="Will be ignored if `validation_data` is set explicitly, such as in `Deep learning training and evaluation` tool." /> + </expand> <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"> + <!--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" /> - </when> + </when>--> </conditional> </inputs> <outputs> - <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> + <data format="h5mlm" name="outfile" label="Keras Model Builder on ${on_string}" /> </outputs> <tests> <test> @@ -62,7 +55,7 @@ <param name="epochs" value="100" /> </section> </conditional> - <output name="outfile" file="keras_model01" compare="sim_size" delta="30" /> + <output name="outfile" file="keras_model01" compare="sim_size" delta="20" /> </test> <test> <conditional name="mode_selection"> @@ -76,16 +69,16 @@ <param name="epochs" value="100" /> </section> </conditional> - <output name="outfile" file="keras_model02" compare="sim_size" delta="30" /> + <output name="outfile" file="keras_model02" compare="sim_size" delta="20" /> </test> - <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" /> </conditional> - <output name="outfile" file="keras_prefitted01.zip" compare="sim_size" delta="30" /> - </test> + <output name="outfile" file="keras_prefitted01.zip" compare="sim_size" delta="5" /> + </test>--> <test> <conditional name="mode_selection"> <param name="infile_json" value="keras04.json" ftype="json" /> @@ -101,14 +94,12 @@ <param name="epochs" value="100" /> </section> <param name="random_seed" value="42" /> - <param name="get_params" value="true" /> </conditional> - <output name="outfile" file="keras_model04" compare="sim_size" delta="30" /> - <output name="outfile_params" file="keras_params04.tabular" /> + <output name="outfile" file="keras_model04" compare="sim_size" delta="20" /> </test> </tests> <help> - <![CDATA[ + <![CDATA[ **Help** **What it does**