- protected Annotation.ThresholdLine thresholdLine;
-
- protected List<MatrixType> contactmatrix;
-
- protected List<Property> property;
-
- @XmlAttribute(name = "graph", required = true)
- protected boolean graph;
-
- @XmlAttribute(name = "graphType")
- protected Integer graphType;
-
- @XmlAttribute(name = "sequenceRef")
- protected String sequenceRef;
-
- @XmlAttribute(name = "groupRef")
- protected String groupRef;
-
- @XmlAttribute(name = "graphColour")
- protected Integer graphColour;
-
- @XmlAttribute(name = "graphGroup")
- protected Integer graphGroup;
-
- @XmlAttribute(name = "graphHeight")
- protected Integer graphHeight;
-
- @XmlAttribute(name = "id")
- protected String id;
-
- @XmlAttribute(name = "scoreOnly")
- protected Boolean scoreOnly;
-
- @XmlAttribute(name = "score")
- protected Double score;
-
- @XmlAttribute(name = "visible")
- protected Boolean visible;
-
- @XmlAttribute(name = "centreColLabels")
- protected Boolean centreColLabels;
-
- @XmlAttribute(name = "scaleColLabels")
- protected Boolean scaleColLabels;
-
- @XmlAttribute(name = "showAllColLabels")
- protected Boolean showAllColLabels;
-
- @XmlAttribute(name = "autoCalculated")
- protected Boolean autoCalculated;
-
- @XmlAttribute(name = "belowAlignment")
- protected Boolean belowAlignment;
-
- @XmlAttribute(name = "calcId")
- protected String calcId;
-
- /**
- * Gets the value of the annotationElement property.
- *
- * <p>
- * This accessor method returns a reference to the live list, not a snapshot.
- * Therefore any modification you make to the returned list will be present
- * inside the JAXB object. This is why there is not a <CODE>set</CODE> method
- * for the annotationElement property.
- *
- * <p>
- * For example, to add a new item, do as follows:
- *
- * <pre>
- * getAnnotationElement().add(newItem);
- * </pre>
- *
- *
- * <p>
- * Objects of the following type(s) are allowed in the list
- * {@link AnnotationElement }
- *
- *
- */
- public List<AnnotationElement> getAnnotationElement()
- {
- if (annotationElement == null)
- {
- annotationElement = new ArrayList<AnnotationElement>();
- }
- return this.annotationElement;
- }
-
- /**
- * Gets the value of the label property.
- *
- * @return possible object is {@link String }
- *
- */
- public String getLabel()
- {
- return label;
- }
-
- /**
- * Sets the value of the label property.
- *
- * @param value
- * allowed object is {@link String }
- *
- */
- public void setLabel(String value)
- {
- this.label = value;
- }
-
- /**
- * Gets the value of the description property.
- *
- * @return possible object is {@link String }
- *
- */
- public String getDescription()
- {
- return description;
- }
-
- /**
- * Sets the value of the description property.
- *
- * @param value
- * allowed object is {@link String }
- *
- */
- public void setDescription(String value)
- {
- this.description = value;
- }
-
- /**
- * Gets the value of the thresholdLine property.
- *
- * @return possible object is {@link Annotation.ThresholdLine }
- *
- */
- public Annotation.ThresholdLine getThresholdLine()
- {
- return thresholdLine;
- }
-
- /**
- * Sets the value of the thresholdLine property.
- *
- * @param value
- * allowed object is {@link Annotation.ThresholdLine }
- *
- */
- public void setThresholdLine(Annotation.ThresholdLine value)
- {
- this.thresholdLine = value;
- }
-
- /**
- * Gets the value of the contactmatrix property.
- *
- * <p>
- * This accessor method returns a reference to the live list, not a snapshot.
- * Therefore any modification you make to the returned list will be present
- * inside the JAXB object. This is why there is not a <CODE>set</CODE> method
- * for the contactmatrix property.
- *
- * <p>
- * For example, to add a new item, do as follows:
- *
- * <pre>
- * getContactmatrix().add(newItem);
- * </pre>
- *
- *
- * <p>
- * Objects of the following type(s) are allowed in the list {@link MatrixType
- * }
- *
- *
- */
- public List<MatrixType> getContactmatrix()
- {
- if (contactmatrix == null)
- {
- contactmatrix = new ArrayList<MatrixType>();
- }
- return this.contactmatrix;
- }
-
- /**
- * Gets the value of the property property.
- *
- * <p>
- * This accessor method returns a reference to the live list, not a snapshot.
- * Therefore any modification you make to the returned list will be present
- * inside the JAXB object. This is why there is not a <CODE>set</CODE> method
- * for the property property.
- *
- * <p>
- * For example, to add a new item, do as follows:
- *
- * <pre>
- * getProperty().add(newItem);
- * </pre>
- *
- *
- * <p>
- * Objects of the following type(s) are allowed in the list {@link Property }
- *
- *
- */
- public List<Property> getProperty()
- {
- if (property == null)
- {
- property = new ArrayList<Property>();
- }
- return this.property;
- }
-
- /**
- * Gets the value of the graph property.
- *
- */
- public boolean isGraph()
- {
- return graph;
- }
-
- /**
- * Sets the value of the graph property.
- *
- */
- public void setGraph(boolean value)
- {
- this.graph = value;
- }
-
- /**
- * Gets the value of the graphType property.
- *
- * @return possible object is {@link Integer }
- *
- */
- public Integer getGraphType()
- {
- return graphType;
- }
-
- /**
- * Sets the value of the graphType property.
- *
- * @param value
- * allowed object is {@link Integer }
- *
- */
- public void setGraphType(Integer value)
- {
- this.graphType = value;
- }
-
- /**
- * Gets the value of the sequenceRef property.
- *
- * @return possible object is {@link String }
- *
- */
- public String getSequenceRef()
- {
- return sequenceRef;
- }
-
- /**
- * Sets the value of the sequenceRef property.
- *
- * @param value
- * allowed object is {@link String }
- *
- */
- public void setSequenceRef(String value)
- {
- this.sequenceRef = value;
- }
-
- /**
- * Gets the value of the groupRef property.
- *
- * @return possible object is {@link String }
- *
- */
- public String getGroupRef()
- {
- return groupRef;
- }
-
- /**
- * Sets the value of the groupRef property.
- *
- * @param value
- * allowed object is {@link String }
- *
- */
- public void setGroupRef(String value)
- {
- this.groupRef = value;
- }
-
- /**
- * Gets the value of the graphColour property.
- *
- * @return possible object is {@link Integer }
- *
- */
- public Integer getGraphColour()
- {
- return graphColour;
- }
-
- /**
- * Sets the value of the graphColour property.
- *
- * @param value
- * allowed object is {@link Integer }
- *
- */
- public void setGraphColour(Integer value)
- {
- this.graphColour = value;
- }
-
- /**
- * Gets the value of the graphGroup property.
- *
- * @return possible object is {@link Integer }
- *
- */
- public Integer getGraphGroup()
- {
- return graphGroup;
- }
-
- /**
- * Sets the value of the graphGroup property.
- *
- * @param value
- * allowed object is {@link Integer }
- *
- */
- public void setGraphGroup(Integer value)
- {
- this.graphGroup = value;
- }
-
- /**
- * Gets the value of the graphHeight property.
- *
- * @return possible object is {@link Integer }
- *
- */
- public Integer getGraphHeight()
- {
- return graphHeight;
- }
-
- /**
- * Sets the value of the graphHeight property.
- *
- * @param value
- * allowed object is {@link Integer }
- *
- */
- public void setGraphHeight(Integer value)
- {
- this.graphHeight = value;
- }
-
- /**
- * Gets the value of the id property.
- *
- * @return possible object is {@link String }
- *
- */
- public String getId()
- {
- return id;
- }
-
- /**
- * Sets the value of the id property.
- *
- * @param value
- * allowed object is {@link String }
- *
- */
- public void setId(String value)
- {
- this.id = value;
- }
-
- /**
- * Gets the value of the scoreOnly property.
- *
- * @return possible object is {@link Boolean }
- *
- */
- public boolean isScoreOnly()
- {
- if (scoreOnly == null)
- {
- return false;
- }
- else
- {
- return scoreOnly;
- }
- }
-
- /**
- * Sets the value of the scoreOnly property.
- *
- * @param value
- * allowed object is {@link Boolean }
- *
- */
- public void setScoreOnly(Boolean value)
- {
- this.scoreOnly = value;
- }
-
- /**
- * Gets the value of the score property.
- *
- * @return possible object is {@link Double }
- *
- */
- public Double getScore()
- {
- return score;
- }
-
- /**
- * Sets the value of the score property.
- *
- * @param value
- * allowed object is {@link Double }
- *
- */
- public void setScore(Double value)
- {
- this.score = value;
- }
-
- /**
- * Gets the value of the visible property.
- *
- * @return possible object is {@link Boolean }
- *
- */
- public Boolean isVisible()
- {
- return visible;
- }
-
- /**
- * Sets the value of the visible property.
- *
- * @param value
- * allowed object is {@link Boolean }
- *
- */
- public void setVisible(Boolean value)
- {
- this.visible = value;
- }
-
- /**
- * Gets the value of the centreColLabels property.
- *
- * @return possible object is {@link Boolean }
- *
- */
- public Boolean isCentreColLabels()
- {
- return centreColLabels;
- }
-
- /**
- * Sets the value of the centreColLabels property.
- *
- * @param value
- * allowed object is {@link Boolean }
- *
- */
- public void setCentreColLabels(Boolean value)
- {
- this.centreColLabels = value;
- }
-
- /**
- * Gets the value of the scaleColLabels property.
- *
- * @return possible object is {@link Boolean }
- *
- */
- public Boolean isScaleColLabels()
- {
- return scaleColLabels;
- }
-
- /**
- * Sets the value of the scaleColLabels property.
- *
- * @param value
- * allowed object is {@link Boolean }
- *
- */
- public void setScaleColLabels(Boolean value)
- {
- this.scaleColLabels = value;
- }
-
- /**
- * Gets the value of the showAllColLabels property.
- *
- * @return possible object is {@link Boolean }
- *
- */
- public Boolean isShowAllColLabels()
- {
- return showAllColLabels;
- }
-
- /**
- * Sets the value of the showAllColLabels property.
- *
- * @param value
- * allowed object is {@link Boolean }
- *
- */
- public void setShowAllColLabels(Boolean value)
- {
- this.showAllColLabels = value;
- }
-
- /**
- * Gets the value of the autoCalculated property.
- *
- * @return possible object is {@link Boolean }
- *
- */
- public boolean isAutoCalculated()
- {
- if (autoCalculated == null)
- {
- return false;
- }
- else
- {
- return autoCalculated;
- }
- }
-
- /**
- * Sets the value of the autoCalculated property.
- *
- * @param value
- * allowed object is {@link Boolean }
- *
- */
- public void setAutoCalculated(Boolean value)
- {
- this.autoCalculated = value;
- }
-
- /**
- * Gets the value of the belowAlignment property.
- *
- * @return possible object is {@link Boolean }
- *
- */
- public boolean isBelowAlignment()
- {
- if (belowAlignment == null)
- {
- return true;
- }
- else
- {
- return belowAlignment;
- }
- }
-
- /**
- * Sets the value of the belowAlignment property.
- *
- * @param value
- * allowed object is {@link Boolean }
- *
- */
- public void setBelowAlignment(Boolean value)
- {
- this.belowAlignment = value;
- }
-
- /**
- * Gets the value of the calcId property.
- *
- * @return possible object is {@link String }
- *
- */
- public String getCalcId()
- {
- return calcId;
- }
-
- /**
- * Sets the value of the calcId property.
- *
- * @param value
- * allowed object is {@link String }
- *
- */
- public void setCalcId(String value)
- {
- this.calcId = value;
- }
-
- /**
- * <p>
- * Java class for anonymous complex type.
- *
- * <p>
- * The following schema fragment specifies the expected content contained
- * within this class.
- *
- * <pre>
- * <complexType>
- * <complexContent>
- * <restriction base="{http://www.w3.org/2001/XMLSchema}anyType">
- * <attribute name="label" type="{http://www.w3.org/2001/XMLSchema}string" />
- * <attribute name="value" type="{http://www.w3.org/2001/XMLSchema}float" />
- * <attribute name="colour" type="{http://www.w3.org/2001/XMLSchema}int" />
- * </restriction>
- * </complexContent>
- * </complexType>
- * </pre>
- *
- *
- */
- @XmlAccessorType(XmlAccessType.FIELD)
- @XmlType(name = "")
- public static class ThresholdLine
- {
-
- @XmlAttribute(name = "label")
- protected String label;