gov.nih.nci.caintegrator.web.action.query.form.SegmentCriterionWrapper.java Source code

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Here is the source code for gov.nih.nci.caintegrator.web.action.query.form.SegmentCriterionWrapper.java

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/**
 * Copyright 5AM Solutions Inc, ESAC, ScenPro & SAIC
 *
 * Distributed under the OSI-approved BSD 3-Clause License.
 * See http://ncip.github.com/caintegrator/LICENSE.txt for details.
 */
package gov.nih.nci.caintegrator.web.action.query.form;

import gov.nih.nci.caintegrator.domain.application.CopyNumberAlterationCriterion;

import org.apache.commons.lang3.StringUtils;
import org.apache.commons.lang3.math.NumberUtils;

import com.opensymphony.xwork2.ValidationAware;

/**
 * Wraps access to a single <code>CopyNumberAlterationCriterion</code>.
 */
public class SegmentCriterionWrapper extends AbstractCopyNumberCoordinateWrapper {

    /**
     * The gene name label.
     */
    public static final String FIELD_NAME = "Segmentation";

    SegmentCriterionWrapper(AbstractCriterionRow row) {
        this(new CopyNumberAlterationCriterion(), row);
    }

    @SuppressWarnings("PMD.ConstructorCallsOverridableMethod") // bogus error
    SegmentCriterionWrapper(CopyNumberAlterationCriterion criterion, AbstractCriterionRow row) {
        super(row, criterion);
        setMinNumberParameters(2);
        if (isStudyHasMultipleCopyNumberPlatforms()) {
            getParameters().add(createPlatformNameParameter(getCopyNumberPlatformNames()));
            setMinNumberParameters(3);
        }
        getParameters().add(createUpperLimitParameter());
        getParameters().add(createLowerLimitParameter());
        getParameters().add(createIntervalTypeParameter());
        setIntervalParameters();
    }

    /**
     * {@inheritDoc}
     */
    @Override
    String getFieldName() {
        return FIELD_NAME;
    }

    /**
     * {@inheritDoc}
     */
    @Override
    CriterionTypeEnum getCriterionType() {
        return CriterionTypeEnum.SEGMENTATION;
    }

    /**
     * {@inheritDoc}
     */
    @Override
    protected void updateControlParameters() {
        // no-op, no control parameters for segmentation criterion.
    }

    /**
     * {@inheritDoc}
     */
    @Override
    protected boolean platformParameterUpdateOnChange() {
        return false;
    }

    private TextFieldParameter createUpperLimitParameter() {
        final String label = "Segment Mean Value <=";
        TextFieldParameter textParameter = new TextFieldParameter(getParameters().size(), getRow().getRowIndex(),
                getCopyNumberAlterationCriterion().getDisplayUpperLimit());
        textParameter.setLabel(label);
        ValueHandler valueChangeHandler = new ValueHandlerAdapter() {

            @Override
            public boolean isValid(String value) {
                return StringUtils.isBlank(value) || NumberUtils.isNumber(value);
            }

            @Override
            public void validate(String formFieldName, String value, ValidationAware action) {
                if (!isValid(value)) {
                    action.addActionError("Numeric value required or blank for " + label);
                }
            }

            @Override
            public void valueChanged(String value) {
                if (StringUtils.isBlank(value)) {
                    getCopyNumberAlterationCriterion().setUpperLimit(null);
                } else {
                    getCopyNumberAlterationCriterion().setUpperLimit(Float.valueOf(value));
                }
            }
        };
        textParameter.setValueHandler(valueChangeHandler);
        return textParameter;
    }

    private TextFieldParameter createLowerLimitParameter() {
        final String label = "Segment Mean Value >=";
        TextFieldParameter textParameter = new TextFieldParameter(getParameters().size(), getRow().getRowIndex(),
                getCopyNumberAlterationCriterion().getDisplayLowerLimit());
        textParameter.setLabel(label);
        ValueHandler valueChangeHandler = new ValueHandlerAdapter() {

            @Override
            public boolean isValid(String value) {
                return StringUtils.isBlank(value) || NumberUtils.isNumber(value);
            }

            @Override
            public void validate(String formFieldName, String value, ValidationAware action) {
                if (!isValid(value)) {
                    action.addActionError("Numeric value required or blank for " + label);
                }
            }

            @Override
            public void valueChanged(String value) {
                if (StringUtils.isBlank(value)) {
                    getCopyNumberAlterationCriterion().setLowerLimit(null);
                } else {
                    getCopyNumberAlterationCriterion().setLowerLimit(Float.valueOf(value));
                }
            }
        };
        textParameter.setValueHandler(valueChangeHandler);
        return textParameter;
    }

}