BUG REPORT: Process failed. degrees of freedom (-2)

anms

Hi, 

I encounter this problem when trying to use fwd selection operator, sub-process is using split validation, applying on SVM model. Due to this, failed to obtain results. Can someone help me to solve this?

Thank you.

MartinLiebig

Hi,

I wouldn't call this a bug. Your ANOVA-Test fails with an error message. Hard to say why exactly without seeing the whole process.

Best,

Martin

anms

Hi Martin,

May I have your email address so that I can write email to you? Thank you.

anms

Hi Martin,

Below is the XML process for your attention. Attached together is the process. I have tried several times to repeat the same process flow, however, the error message still appear. I didn't conduct any ANOVA test but not sure why the error message comes out. Hope you could help me. Many thanks.

<?xml version="1.0" encoding="UTF-8"?><process version="9.10.000">

  <context>

    <input/>

    <output/>

    <macros/>

  </context>

  <operator activated="true" class="process" compatibility="9.10.000" expanded="true" name="Process">

    <parameter key="logverbosity" value="init"/>

    <parameter key="random_seed" value="2001"/>

    <parameter key="send_mail" value="never"/>

    <parameter key="notification_email" value=""/>

    <parameter key="process_duration_for_mail" value="30"/>

    <parameter key="encoding" value="SYSTEM"/>

    <process expanded="true">

      <operator activated="false" class="retrieve" compatibility="9.10.000" expanded="true" height="68" name="Retrieve 4. Dataset AKPK_SMOTE" width="90" x="45" y="187">

        <parameter key="repository_entry" value="//Aqilah Nadiah/Data/4. Dataset AKPK_SMOTE"/>

      </operator>

      <operator activated="true" class="retrieve" compatibility="9.10.000" expanded="true" height="68" name="Retrieve 7. SMOTED Dataset Transformed" width="90" x="45" y="34">

        <parameter key="repository_entry" value="../Data/7. SMOTED Dataset Transformed"/>

      </operator>

      <operator activated="true" class="select_attributes" compatibility="9.10.000" expanded="true" height="82" name="Select Attributes" width="90" x="179" y="34">

        <parameter key="attribute_filter_type" value="subset"/>

        <parameter key="attribute" value=""/>

        <parameter key="attributes" value="Age Category|Education|Employment Sector|Expenses Category|Gender|Homeownership Status|Instalment Category|Locality of Residence|Marital Status|No. of Dependent Category|Race|sum(HL)|sum(HP)|sum(LAS)|sum(MICRO)|sum(PL)|sum(Study Loan)|Tenure Category|TOB Category|DMP Client|DMP Status|No. of Credit Category |sum(CC)|sum(OTH)|Adverse Event"/>

        <parameter key="use_except_expression" value="false"/>

        <parameter key="value_type" value="attribute_value"/>

        <parameter key="use_value_type_exception" value="false"/>

        <parameter key="except_value_type" value="time"/>

        <parameter key="block_type" value="attribute_block"/>

        <parameter key="use_block_type_exception" value="false"/>

        <parameter key="except_block_type" value="value_matrix_row_start"/>

        <parameter key="invert_selection" value="false"/>

        <parameter key="include_special_attributes" value="false"/>

      </operator>

      <operator activated="true" class="set_role" compatibility="9.10.000" expanded="true" height="82" name="Set Role" width="90" x="313" y="34">

        <parameter key="attribute_name" value="DMP Status"/>

        <parameter key="target_role" value="label"/>

        <list key="set_additional_roles">

          <parameter key="DMP Client" value="id"/>

        </list>

      </operator>

      <operator activated="true" class="optimize_selection_forward" compatibility="9.10.000" expanded="true" height="103" name="Forward Selection" width="90" x="447" y="34">

        <parameter key="maximal_number_of_attributes" value="10"/>

        <parameter key="speculative_rounds" value="3"/>

        <parameter key="stopping_behavior" value="without significant increase"/>

        <parameter key="use_relative_increase" value="true"/>

        <parameter key="minimal_relative_increase" value="1.0"/>

        <parameter key="alpha" value="0.05"/>

        <process expanded="true">

          <operator activated="true" class="split_validation" compatibility="9.10.000" expanded="true" height="166" name="Split Validation" width="90" x="246" y="34">

            <parameter key="create_complete_model" value="false"/>

            <parameter key="split" value="relative"/>

            <parameter key="split_ratio" value="0.7"/>

            <parameter key="training_set_size" value="100"/>

            <parameter key="test_set_size" value="-1"/>

            <parameter key="sampling_type" value="automatic"/>

            <parameter key="use_local_random_seed" value="true"/>

            <parameter key="local_random_seed" value="1992"/>

            <process expanded="true">

              <operator activated="false" class="h2o:logistic_regression" compatibility="9.9.000" expanded="true" height="124" name="Logistic Regression" width="90" x="45" y="340">

                <parameter key="solver" value="AUTO"/>

                <parameter key="reproducible" value="false"/>

                <parameter key="maximum_number_of_threads" value="4"/>

                <parameter key="use_regularization" value="false"/>

                <parameter key="lambda_search" value="false"/>

                <parameter key="number_of_lambdas" value="0"/>

                <parameter key="lambda_min_ratio" value="0.0"/>

                <parameter key="early_stopping" value="true"/>

                <parameter key="stopping_rounds" value="3"/>

                <parameter key="stopping_tolerance" value="0.001"/>

                <parameter key="standardize" value="true"/>

                <parameter key="non-negative_coefficients" value="false"/>

                <parameter key="add_intercept" value="true"/>

                <parameter key="compute_p-values" value="true"/>

                <parameter key="remove_collinear_columns" value="true"/>

                <parameter key="missing_values_handling" value="Skip"/>

                <parameter key="max_iterations" value="0"/>

                <parameter key="max_runtime_seconds" value="0"/>

              </operator>

              <operator activated="false" class="apply_model" compatibility="9.10.000" expanded="true" height="82" name="Apply Model (Training)" width="90" x="179" y="340">

                <list key="application_parameters"/>

                <parameter key="create_view" value="false"/>

              </operator>

              <operator activated="false" class="performance_binominal_classification" compatibility="9.10.000" expanded="true" height="82" name="Performance (Training)" width="90" x="313" y="340">

                <parameter key="manually_set_positive_class" value="false"/>

                <parameter key="main_criterion" value="accuracy"/>

                <parameter key="accuracy" value="true"/>

                <parameter key="classification_error" value="true"/>

                <parameter key="kappa" value="false"/>

                <parameter key="AUC (optimistic)" value="false"/>

                <parameter key="AUC" value="true"/>

                <parameter key="AUC (pessimistic)" value="false"/>

                <parameter key="precision" value="true"/>

                <parameter key="recall" value="true"/>

                <parameter key="lift" value="false"/>

                <parameter key="fallout" value="false"/>

                <parameter key="f_measure" value="false"/>

                <parameter key="false_positive" value="false"/>

                <parameter key="false_negative" value="false"/>

                <parameter key="true_positive" value="false"/>

                <parameter key="true_negative" value="false"/>

                <parameter key="sensitivity" value="true"/>

                <parameter key="specificity" value="true"/>

                <parameter key="youden" value="false"/>

                <parameter key="positive_predictive_value" value="false"/>

                <parameter key="negative_predictive_value" value="false"/>

                <parameter key="psep" value="false"/>

                <parameter key="skip_undefined_labels" value="true"/>

                <parameter key="use_example_weights" value="true"/>

              </operator>

              <operator activated="true" class="nominal_to_numerical" compatibility="9.10.000" expanded="true" height="103" name="Nominal to Numerical" width="90" x="45" y="34">

                <parameter key="return_preprocessing_model" value="false"/>

                <parameter key="create_view" value="false"/>

                <parameter key="attribute_filter_type" value="all"/>

                <parameter key="attribute" value=""/>

                <parameter key="attributes" value=""/>

                <parameter key="use_except_expression" value="false"/>

                <parameter key="value_type" value="nominal"/>

                <parameter key="use_value_type_exception" value="false"/>

                <parameter key="except_value_type" value="file_path"/>

                <parameter key="block_type" value="single_value"/>

                <parameter key="use_block_type_exception" value="false"/>

                <parameter key="except_block_type" value="single_value"/>

                <parameter key="invert_selection" value="false"/>

                <parameter key="include_special_attributes" value="false"/>

                <parameter key="coding_type" value="dummy coding"/>

                <parameter key="use_comparison_groups" value="false"/>

                <list key="comparison_groups"/>

                <parameter key="unexpected_value_handling" value="all 0 and warning"/>

                <parameter key="use_underscore_in_name" value="false"/>

              </operator>

              <operator activated="true" class="support_vector_machine" compatibility="9.10.000" expanded="true" height="124" name="SVM" width="90" x="179" y="136">

                <parameter key="kernel_type" value="dot"/>

                <parameter key="kernel_gamma" value="1.0"/>

                <parameter key="kernel_sigma1" value="1.0"/>

                <parameter key="kernel_sigma2" value="0.0"/>

                <parameter key="kernel_sigma3" value="2.0"/>

                <parameter key="kernel_shift" value="1.0"/>

                <parameter key="kernel_degree" value="2.0"/>

                <parameter key="kernel_a" value="1.0"/>

                <parameter key="kernel_b" value="0.0"/>

                <parameter key="kernel_cache" value="200"/>

                <parameter key="C" value="0.0"/>

                <parameter key="convergence_epsilon" value="0.001"/>

                <parameter key="max_iterations" value="100000"/>

                <parameter key="scale" value="true"/>

                <parameter key="calculate_weights" value="true"/>

                <parameter key="return_optimization_performance" value="true"/>

                <parameter key="L_pos" value="1.0"/>

                <parameter key="L_neg" value="1.0"/>

                <parameter key="epsilon" value="0.0"/>

                <parameter key="epsilon_plus" value="0.0"/>

                <parameter key="epsilon_minus" value="0.0"/>

                <parameter key="balance_cost" value="false"/>

                <parameter key="quadratic_loss_pos" value="false"/>

                <parameter key="quadratic_loss_neg" value="false"/>

                <parameter key="estimate_performance" value="false"/>

              </operator>

              <operator activated="true" class="group_models" compatibility="9.10.000" expanded="true" height="103" name="Group Models" width="90" x="313" y="34"/>

              <connect from_port="training" to_op="Nominal to Numerical" to_port="example set input"/>

              <connect from_op="Nominal to Numerical" from_port="example set output" to_op="SVM" to_port="training set"/>

              <connect from_op="Nominal to Numerical" from_port="preprocessing model" to_op="Group Models" to_port="models in 1"/>

              <connect from_op="SVM" from_port="model" to_op="Group Models" to_port="models in 2"/>

              <connect from_op="SVM" from_port="weights" to_port="through 2"/>

              <connect from_op="Group Models" from_port="model out" to_port="model"/>

              <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"/>

              <portSpacing port="sink_through 3" spacing="0"/>

            </process>

            <process expanded="true">

              <operator activated="true" class="apply_model" compatibility="9.10.000" expanded="true" height="82" name="Apply Model (Testing)" width="90" x="45" y="34">

                <list key="application_parameters"/>

                <parameter key="create_view" value="false"/>

              </operator>

              <operator activated="true" class="performance_binominal_classification" compatibility="9.10.000" expanded="true" height="82" name="Performance (Testing)" width="90" x="179" y="34">

                <parameter key="manually_set_positive_class" value="false"/>

                <parameter key="main_criterion" value="accuracy"/>

                <parameter key="accuracy" value="true"/>

                <parameter key="classification_error" value="true"/>

                <parameter key="kappa" value="false"/>

                <parameter key="AUC (optimistic)" value="false"/>

                <parameter key="AUC" value="true"/>

                <parameter key="AUC (pessimistic)" value="false"/>

                <parameter key="precision" value="true"/>

                <parameter key="recall" value="true"/>

                <parameter key="lift" value="false"/>

                <parameter key="fallout" value="false"/>

                <parameter key="f_measure" value="true"/>

                <parameter key="false_positive" value="false"/>

                <parameter key="false_negative" value="false"/>

                <parameter key="true_positive" value="false"/>

                <parameter key="true_negative" value="false"/>

                <parameter key="sensitivity" value="true"/>

                <parameter key="specificity" value="true"/>

                <parameter key="youden" value="false"/>

                <parameter key="positive_predictive_value" value="false"/>

                <parameter key="negative_predictive_value" value="false"/>

                <parameter key="psep" value="false"/>

                <parameter key="skip_undefined_labels" value="true"/>

                <parameter key="use_example_weights" value="true"/>

              </operator>

              <connect from_port="model" to_op="Apply Model (Testing)" to_port="model"/>

              <connect from_port="test set" to_op="Apply Model (Testing)" to_port="unlabelled data"/>

              <connect from_port="through 1" to_port="averagable 2"/>

              <connect from_port="through 2" to_port="averagable 3"/>

              <connect from_op="Apply Model (Testing)" from_port="labelled data" to_op="Performance (Testing)" to_port="labelled data"/>

              <connect from_op="Performance (Testing)" 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="source_through 3" spacing="0"/>

              <portSpacing port="sink_averagable 1" spacing="0"/>

              <portSpacing port="sink_averagable 2" spacing="0"/>

              <portSpacing port="sink_averagable 3" spacing="0"/>

              <portSpacing port="sink_averagable 4" spacing="0"/>

            </process>

          </operator>

          <operator activated="false" class="concurrency:cross_validation" compatibility="9.10.000" expanded="true" height="145" name="Cross Validation" width="90" x="246" y="238">

            <parameter key="split_on_batch_attribute" value="false"/>

            <parameter key="leave_one_out" value="false"/>

            <parameter key="number_of_folds" value="3"/>

            <parameter key="sampling_type" value="automatic"/>

            <parameter key="use_local_random_seed" value="true"/>

            <parameter key="local_random_seed" value="1992"/>

            <parameter key="enable_parallel_execution" value="true"/>

            <process expanded="true">

              <operator activated="true" class="nominal_to_numerical" compatibility="9.10.000" expanded="true" height="103" name="Nominal to Numerical (2)" width="90" x="45" y="34">

                <parameter key="return_preprocessing_model" value="false"/>

                <parameter key="create_view" value="false"/>

                <parameter key="attribute_filter_type" value="all"/>

                <parameter key="attribute" value=""/>

                <parameter key="attributes" value=""/>

                <parameter key="use_except_expression" value="false"/>

                <parameter key="value_type" value="nominal"/>

                <parameter key="use_value_type_exception" value="false"/>

                <parameter key="except_value_type" value="file_path"/>

                <parameter key="block_type" value="single_value"/>

                <parameter key="use_block_type_exception" value="false"/>

                <parameter key="except_block_type" value="single_value"/>

                <parameter key="invert_selection" value="false"/>

                <parameter key="include_special_attributes" value="false"/>

                <parameter key="coding_type" value="dummy coding"/>

                <parameter key="use_comparison_groups" value="false"/>

                <list key="comparison_groups"/>

                <parameter key="unexpected_value_handling" value="all 0 and warning"/>

                <parameter key="use_underscore_in_name" value="false"/>

              </operator>

              <operator activated="true" class="support_vector_machine" compatibility="9.10.000" expanded="true" height="124" name="SVM (2)" width="90" x="179" y="136">

                <parameter key="kernel_type" value="radial"/>

                <parameter key="kernel_gamma" value="1.0"/>

                <parameter key="kernel_sigma1" value="1.0"/>

                <parameter key="kernel_sigma2" value="0.0"/>

                <parameter key="kernel_sigma3" value="2.0"/>

                <parameter key="kernel_shift" value="1.0"/>

                <parameter key="kernel_degree" value="2.0"/>

                <parameter key="kernel_a" value="1.0"/>

                <parameter key="kernel_b" value="0.0"/>

                <parameter key="kernel_cache" value="200"/>

                <parameter key="C" value="1000.0"/>

                <parameter key="convergence_epsilon" value="0.001"/>

                <parameter key="max_iterations" value="100000"/>

                <parameter key="scale" value="true"/>

                <parameter key="calculate_weights" value="true"/>

                <parameter key="return_optimization_performance" value="true"/>

                <parameter key="L_pos" value="1.0"/>

                <parameter key="L_neg" value="1.0"/>

                <parameter key="epsilon" value="0.0"/>

                <parameter key="epsilon_plus" value="0.0"/>

                <parameter key="epsilon_minus" value="0.0"/>

                <parameter key="balance_cost" value="false"/>

                <parameter key="quadratic_loss_pos" value="false"/>

                <parameter key="quadratic_loss_neg" value="false"/>

                <parameter key="estimate_performance" value="false"/>

              </operator>

              <operator activated="true" class="group_models" compatibility="9.10.000" expanded="true" height="103" name="Group Models (2)" width="90" x="313" y="34"/>

              <connect from_port="training set" to_op="Nominal to Numerical (2)" to_port="example set input"/>

              <connect from_op="Nominal to Numerical (2)" from_port="example set output" to_op="SVM (2)" to_port="training set"/>

              <connect from_op="Nominal to Numerical (2)" from_port="preprocessing model" to_op="Group Models (2)" to_port="models in 1"/>

              <connect from_op="SVM (2)" from_port="model" to_op="Group Models (2)" to_port="models in 2"/>

              <connect from_op="Group Models (2)" from_port="model out" to_port="model"/>

              <portSpacing port="source_training set" spacing="0"/>

              <portSpacing port="sink_model" spacing="0"/>

              <portSpacing port="sink_through 1" spacing="0"/>

            </process>

            <process expanded="true">

              <operator activated="true" class="apply_model" compatibility="9.10.000" expanded="true" height="82" name="Apply Model" width="90" x="45" y="34">

                <list key="application_parameters"/>

                <parameter key="create_view" value="false"/>

              </operator>

              <operator activated="true" class="performance_binominal_classification" compatibility="9.10.000" expanded="true" height="82" name="Performance" width="90" x="179" y="34">

                <parameter key="manually_set_positive_class" value="false"/>

                <parameter key="main_criterion" value="accuracy"/>

                <parameter key="accuracy" value="true"/>

                <parameter key="classification_error" value="true"/>

                <parameter key="kappa" value="false"/>

                <parameter key="AUC (optimistic)" value="false"/>

                <parameter key="AUC" value="true"/>

                <parameter key="AUC (pessimistic)" value="false"/>

                <parameter key="precision" value="true"/>

                <parameter key="recall" value="true"/>

                <parameter key="lift" value="false"/>

                <parameter key="fallout" value="false"/>

                <parameter key="f_measure" value="true"/>

                <parameter key="false_positive" value="false"/>

                <parameter key="false_negative" value="false"/>

                <parameter key="true_positive" value="false"/>

                <parameter key="true_negative" value="false"/>

                <parameter key="sensitivity" value="true"/>

                <parameter key="specificity" value="true"/>

                <parameter key="youden" value="false"/>

                <parameter key="positive_predictive_value" value="false"/>

                <parameter key="negative_predictive_value" value="false"/>

                <parameter key="psep" value="false"/>

                <parameter key="skip_undefined_labels" value="true"/>

                <parameter key="use_example_weights" value="true"/>

              </operator>

              <connect from_port="model" to_op="Apply Model" to_port="model"/>

              <connect from_port="test set" 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="performance 1"/>

              <portSpacing port="source_model" spacing="0"/>

              <portSpacing port="source_test set" spacing="0"/>

              <portSpacing port="source_through 1" spacing="0"/>

              <portSpacing port="sink_test set results" spacing="0"/>

              <portSpacing port="sink_performance 1" spacing="0"/>

              <portSpacing port="sink_performance 2" spacing="0"/>

            </process>

          </operator>

          <connect from_port="example set" to_op="Split Validation" to_port="training"/>

          <connect from_op="Split Validation" from_port="averagable 1" to_port="performance"/>

          <portSpacing port="source_example set" spacing="0"/>

          <portSpacing port="sink_performance" spacing="0"/>

        </process>

      </operator>

      <connect from_op="Retrieve 7. SMOTED Dataset Transformed" from_port="output" to_op="Select Attributes" to_port="example set input"/>

      <connect from_op="Select Attributes" from_port="example set output" to_op="Set Role" to_port="example set input"/>

      <connect from_op="Set Role" from_port="example set output" to_op="Forward Selection" to_port="example set"/>

      <connect from_op="Forward Selection" from_port="example set" to_port="result 1"/>

      <connect from_op="Forward Selection" from_port="attribute weights" to_port="result 2"/>

      <connect from_op="Forward Selection" from_port="performance" to_port="result 3"/>

      <portSpacing port="source_input 1" spacing="0"/>

      <portSpacing port="sink_result 1" spacing="0"/>

      <portSpacing port="sink_result 2" spacing="0"/>

      <portSpacing port="sink_result 3" spacing="0"/>

      <portSpacing port="sink_result 4" spacing="0"/>

      <description align="center" color="yellow" colored="false" height="805" resized="false" width="180" x="402" y="154"></description>

    </process>

  </operator>

</process>