bootstrapping_validation and W-PLSClassifier

Answers

• MariusHelf RapidMiner Certified Expert, Member Posts: 1,869 Unicorn

  September 2012

  Hi,
  
  please post the complete process xml using the steps described in the post which is linked in my signature.
  
  Best,
  Marius

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• sinae Member Posts: 3 Contributor I

  September 2012

  Marius wrote:
  Hi, please post the complete process xml using the steps described in the post which is linked in my signature. Best, Marius

  <?xml version="1.0" encoding="UTF-8" standalone="no"?>
  <process version="5.2.008">
    <context>
      <input/>
      <output/>
      <macros/>
    </context>
    <operator activated="true" class="process" compatibility="5.2.008" expanded="true" name="Process">
      <process expanded="true" height="650" width="1090">
        <operator activated="true" class="retrieve" compatibility="5.2.008" expanded="true" height="60" name="Retrieve (3)" width="90" x="45" y="30">
          <parameter key="repository_entry" value="MSN2AR/filter_BasicTSAR_MSN2AR_descriptor"/>
        </operator>
        <operator activated="true" class="parallel:optimize_selection_parallel" compatibility="5.1.000" expanded="true" height="94" name="Optimize Selection (2)" width="90" x="246" y="30">
          <parameter key="generations_without_improval" value="2"/>
          <parameter key="limit_number_of_generations" value="true"/>
          <parameter key="keep_best" value="2"/>
          <parameter key="maximum_number_of_generations" value="5"/>
          <parameter key="user_result_individual_selection" value="true"/>
          <parameter key="number_of_threads" value="8"/>
          <process expanded="true" height="650" width="858">
            <operator activated="true" class="bootstrapping_validation" compatibility="5.2.008" expanded="true" height="112" name="Validation (2)" width="90" x="313" y="165">
              <parameter key="use_local_random_seed" value="true"/>
              <process expanded="true" height="668" width="404">
                <operator activated="true" class="weka:W-PLSClassifier" compatibility="5.1.001" expanded="true" height="76" name="W-PLSClassifier (2)" width="90" x="179" y="30">
                  <parameter key="filter" value="weka.filters.supervised.attribute.PLSFilter  -C 8  -A PLS1 -P standardize"/>
                  <parameter key="D" value="true"/>
                </operator>
                <connect from_port="training" to_op="W-PLSClassifier (2)" to_port="training set"/>
                <connect from_op="W-PLSClassifier (2)" from_port="model" to_port="model"/>
                <connect from_op="W-PLSClassifier (2)" from_port="exampleSet" to_port="through 1"/>
                <portSpacing port="source_training" spacing="0"/>
                <portSpacing port="sink_model" spacing="0"/>
                <portSpacing port="sink_through 1" spacing="0"/>
                <portSpacing port="sink_through 2" spacing="0"/>
              </process>
              <process expanded="true" height="668" width="404">
                <operator activated="true" class="apply_model" compatibility="5.2.008" expanded="true" height="76" name="Apply Model (2)" width="90" x="45" y="30">
                  <list key="application_parameters"/>
                </operator>
                <operator activated="true" class="performance_regression" compatibility="5.2.008" expanded="true" height="76" name="Performance (2)" width="90" x="224" y="30">
                  <parameter key="main_criterion" value="root_mean_squared_error"/>
                  <parameter key="absolute_error" value="true"/>
                  <parameter key="squared_correlation" value="true"/>
                </operator>
                <connect from_port="model" to_op="Apply Model (2)" to_port="model"/>
                <connect from_port="test set" to_op="Apply Model (2)" to_port="unlabelled data"/>
                <connect from_op="Apply Model (2)" from_port="labelled data" to_op="Performance (2)" to_port="labelled data"/>
                <connect from_op="Performance (2)" from_port="performance" to_port="averagable 1"/>
                <portSpacing port="source_model" spacing="0"/>
                <portSpacing port="source_test set" spacing="0"/>
                <portSpacing port="source_through 1" spacing="0"/>
                <portSpacing port="source_through 2" spacing="0"/>
                <portSpacing port="sink_averagable 1" spacing="0"/>
                <portSpacing port="sink_averagable 2" spacing="0"/>
              </process>
            </operator>
            <connect from_port="example set" to_op="Validation (2)" to_port="training"/>
            <connect from_op="Validation (2)" from_port="averagable 1" to_port="performance"/>
            <portSpacing port="source_example set" spacing="0"/>
            <portSpacing port="source_through 1" spacing="0"/>
            <portSpacing port="sink_performance" spacing="0"/>
          </process>
        </operator>
        <operator activated="true" class="weka:W-PLSClassifier" compatibility="5.1.001" expanded="true" height="76" name="W-PLSClassifier" width="90" x="447" y="30">
          <parameter key="filter" value="weka.filters.supervised.attribute.PLSFilter  -C 8  -A PLS 1 -P standardize"/>
          <parameter key="D" value="true"/>
        </operator>
        <operator activated="true" class="apply_model" compatibility="5.2.008" expanded="true" height="76" name="Apply Model" width="90" x="581" y="30">
          <list key="application_parameters"/>
        </operator>
        <operator activated="true" class="performance_regression" compatibility="5.2.008" expanded="true" height="76" name="Performance" width="90" x="715" y="30">
          <parameter key="main_criterion" value="root_mean_squared_error"/>
          <parameter key="absolute_error" value="true"/>
          <parameter key="squared_correlation" value="true"/>
        </operator>
        <connect from_op="Retrieve (3)" from_port="output" to_op="Optimize Selection (2)" to_port="example set in"/>
        <connect from_op="Optimize Selection (2)" from_port="example set out" to_op="W-PLSClassifier" to_port="training set"/>
        <connect from_op="W-PLSClassifier" from_port="model" to_op="Apply Model" to_port="model"/>
        <connect from_op="W-PLSClassifier" from_port="exampleSet" to_op="Apply Model" to_port="unlabelled data"/>
        <connect from_op="Apply Model" from_port="labelled data" to_op="Performance" to_port="labelled data"/>
        <connect from_op="Performance" from_port="performance" to_port="result 1"/>
        <portSpacing port="source_input 1" spacing="0"/>
        <portSpacing port="sink_result 1" spacing="0"/>
        <portSpacing port="sink_result 2" spacing="0"/>
      </process>
    </operator>
  </process>
  
  thank you.

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• MariusHelf RapidMiner Certified Expert, Member Posts: 1,869 Unicorn

  September 2012

  Hm, the process setup looks fine. Does the error occur every time you run the process? Where exactly does it occur? Do you have a longer error message? If you get a message dialog which allows you to send a bug report, please do it - it will help us greatly to find the cause of the problem.
  
  One remark on your process: after the feature selection, you create the model on the training data, but you also apply it and evaluate the performance on the training data - instead you should use a X-Validation here.
  
  Best,
  Marius

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