Package ome.model.roi

Class Shape

    • Field Detail

      • id

        protected java.lang.Long id

      • version

        protected java.lang.Integer version

      • theZ

        protected java.lang.Integer theZ

      • theT

        protected java.lang.Integer theT

      • theC

        protected java.lang.Integer theC

      • roi

        protected Roi roi

      • locked

        protected java.lang.Boolean locked

      • fillColor

        protected java.lang.Integer fillColor

      • fillRule

        protected java.lang.String fillRule

      • strokeColor

        protected java.lang.Integer strokeColor

      • strokeDashArray

        protected java.lang.String strokeDashArray

      • strokeWidth

        protected Length strokeWidth

      • fontFamily

        protected java.lang.String fontFamily

      • fontSize

        protected Length fontSize

      • fontStyle

        protected java.lang.String fontStyle

      • OWNER_FILTER_ANNOTATIONLINKS

        public static final java.lang.String OWNER_FILTER_ANNOTATIONLINKS
        See Also:
        Constant Field Values

      • GROUP_FILTER_ANNOTATIONLINKS

        public static final java.lang.String GROUP_FILTER_ANNOTATIONLINKS
        See Also:
        Constant Field Values

      • EVENT_FILTER_ANNOTATIONLINKS

        public static final java.lang.String EVENT_FILTER_ANNOTATIONLINKS
        See Also:
        Constant Field Values

      • PERMS_FILTER_ANNOTATIONLINKS

        public static final java.lang.String PERMS_FILTER_ANNOTATIONLINKS
        See Also:
        Constant Field Values

      • details

        protected Details details

      • ANNOTATIONLINKSCOUNTPEROWNER

        public static final java.lang.String ANNOTATIONLINKSCOUNTPEROWNER
        See Also:
        Constant Field Values

      • FIELDS

        public static final java.util.Set<java.lang.String> FIELDS

      • _dynamicFields

        protected java.util.Map<java.lang.String,​java.lang.Object> _dynamicFields

      • _loaded

        protected boolean _loaded

    • Constructor Detail

      • Shape

        public Shape()

      • Shape

        protected Shape​(java.lang.Long id)

      • Shape

        public Shape​(java.lang.Long id,
             boolean loaded)
        Main constructor.

      • Shape

        public Shape​(Roi _roi)

    • Method Detail

      • getId

        @DocumentId
public java.lang.Long getId()
        The DB unique identifier for this object. You are not responsible for setting the id; however, it can be useful for creating "unloaded" versions of your objects. Each top-level entity contains an id field of type long. For all objects returned from the server, this value will be non-null, which doesn't necessarily hold for the other fields.
        Specified by:
        getId in interface IObject
        Returns:
        Long primary key. May be null.

      • setId

        public void setId​(java.lang.Long id)
        Description copied from interface: IObject
        usually unneeded. Ids are managed by the backend.
        Specified by:
        setId in interface IObject
        Parameters:
        id - Long value for this id.

      • getVersion

        public java.lang.Integer getVersion()
        This version number is controlled by the database for optimisitic locking.
        Specified by:
        getVersion in interface IMutable

      • setVersion

        public void setVersion​(java.lang.Integer version)
        Description copied from interface: IMutable
        use with caution. In general, the version should only be altered by the backend. In the best case, an exception will be thrown for a version not equal to the current DB value. In the worst (though rare) case, the new version could match the database, and override optimistic lock checks that are supposed to prevent data loss.
        Specified by:
        setVersion in interface IMutable
        Parameters:
        version - Value for this objects version.

      • getTheZ

        @Field(index=UN_TOKENIZED) @Field(index=TOKENIZED,analyzer=@Analyzer(impl=ConfiguredAnalyzer.class),name="combined_fields")
public java.lang.Integer getTheZ()
        Simple field ome.model.roi.Shape.theZ (java.lang.Integer)

      • setTheZ

        public void setTheZ​(java.lang.Integer theZ)

      • getTheT

        @Field(index=UN_TOKENIZED) @Field(index=TOKENIZED,analyzer=@Analyzer(impl=ConfiguredAnalyzer.class),name="combined_fields")
public java.lang.Integer getTheT()
        Simple field ome.model.roi.Shape.theT (java.lang.Integer)

      • setTheT

        public void setTheT​(java.lang.Integer theT)

      • getTheC

        @Field(index=UN_TOKENIZED) @Field(index=TOKENIZED,analyzer=@Analyzer(impl=ConfiguredAnalyzer.class),name="combined_fields")
public java.lang.Integer getTheC()
        Simple field ome.model.roi.Shape.theC (java.lang.Integer)

      • setTheC

        public void setTheC​(java.lang.Integer theC)

      • getRoi

        public Roi getRoi()
        Many-to-one field ome.model.roi.Shape.roi (ome.model.roi.Roi)

      • setRoi

        public void setRoi​(Roi roi)

      • getLocked

        public java.lang.Boolean getLocked()
        Simple field ome.model.roi.Shape.locked (java.lang.Boolean)

      • setLocked

        public void setLocked​(java.lang.Boolean locked)

      • getTransform

        public AffineTransform getTransform()
        Many-to-one field ome.model.roi.Shape.transform (ome.model.roi.AffineTransform)

      • getFillColor

        @Field(index=UN_TOKENIZED) @Field(index=TOKENIZED,analyzer=@Analyzer(impl=ConfiguredAnalyzer.class),name="combined_fields")
public java.lang.Integer getFillColor()
        Simple field ome.model.roi.Shape.fillColor (java.lang.Integer)

      • setFillColor

        public void setFillColor​(java.lang.Integer fillColor)

      • getFillRule

        @Field(index=TOKENIZED) @Field(index=TOKENIZED,analyzer=@Analyzer(impl=ConfiguredAnalyzer.class),name="combined_fields")
public java.lang.String getFillRule()
        Simple field ome.model.roi.Shape.fillRule (java.lang.String)

      • setFillRule

        public void setFillRule​(java.lang.String fillRule)

      • getStrokeColor

        @Field(index=UN_TOKENIZED) @Field(index=TOKENIZED,analyzer=@Analyzer(impl=ConfiguredAnalyzer.class),name="combined_fields")
public java.lang.Integer getStrokeColor()
        Simple field ome.model.roi.Shape.strokeColor (java.lang.Integer)

      • setStrokeColor

        public void setStrokeColor​(java.lang.Integer strokeColor)

      • getStrokeDashArray

        @Field(index=TOKENIZED) @Field(index=TOKENIZED,analyzer=@Analyzer(impl=ConfiguredAnalyzer.class),name="combined_fields")
public java.lang.String getStrokeDashArray()
        Simple field ome.model.roi.Shape.strokeDashArray (java.lang.String)

      • setStrokeDashArray

        public void setStrokeDashArray​(java.lang.String strokeDashArray)

      • getStrokeWidth

        public Length getStrokeWidth()
        Enum-mapped unit-based field ome.model.roi.Shape.strokeWidth (ome.model.units.Length)

      • setStrokeWidth

        public void setStrokeWidth​(Length strokeWidth)

      • getFontFamily

        @Field(index=TOKENIZED) @Field(index=TOKENIZED,analyzer=@Analyzer(impl=ConfiguredAnalyzer.class),name="combined_fields")
public java.lang.String getFontFamily()
        Simple field ome.model.roi.Shape.fontFamily (java.lang.String)

      • setFontFamily

        public void setFontFamily​(java.lang.String fontFamily)

      • getFontSize

        public Length getFontSize()
        Enum-mapped unit-based field ome.model.roi.Shape.fontSize (ome.model.units.Length)

      • setFontSize

        public void setFontSize​(Length fontSize)

      • getFontStyle

        @Field(index=TOKENIZED) @Field(index=TOKENIZED,analyzer=@Analyzer(impl=ConfiguredAnalyzer.class),name="combined_fields")
public java.lang.String getFontStyle()
        Simple field ome.model.roi.Shape.fontStyle (java.lang.String)

      • setFontStyle

        public void setFontStyle​(java.lang.String fontStyle)

      • getAnnotationLinks

        protected java.util.Set<ShapeAnnotationLink> getAnnotationLinks()
        returns annotationLinks . You should not modify this collection unless you know what you are doing. Use the iterate method instead. one-to-many Set ome.model.roi.Shape.annotationLinks (ome.model.annotations.ShapeAnnotationLink)

      • setAnnotationLinks

        protected void setAnnotationLinks​(java.util.Set<ShapeAnnotationLink> annotationLinks)
        setter for annotationLinks should be avoided. Does not fulfill normal semantics.

      • sizeOfAnnotationLinks

        public int sizeOfAnnotationLinks()
        returns the size of annotationLinks. If less than zero, the Set was null.
        Specified by:
        sizeOfAnnotationLinks in interface IAnnotated

      • collectAnnotationLinks

        public <E> java.util.List<E> collectAnnotationLinks​(CBlock<E> block)
        takes a CBlock and calls the block once for each ome.model.annotations.ShapeAnnotationLink while collecting the results. If block == null, then the iterator values themselves are collected. This method uses iterateAnnotationLinks() internally and so will return a value even if the underlying collection is null.
        Specified by:
        collectAnnotationLinks in interface IAnnotated

      • addShapeAnnotationLink

        public void addShapeAnnotationLink​(ShapeAnnotationLink target)
        use instead of setAnnotationLinks . Makes the necessary call on ome.model.annotations.ShapeAnnotationLink as well.

      • addShapeAnnotationLinkSet

        public void addShapeAnnotationLinkSet​(java.util.Collection<ShapeAnnotationLink> targets)
        use like addShapeAnnotationLink.

      • removeShapeAnnotationLink

        public void removeShapeAnnotationLink​(ShapeAnnotationLink target)
        removes a single element from this set and makes the inverse call on ome.model.annotations.ShapeAnnotationLink

      • removeShapeAnnotationLinkSet

        public void removeShapeAnnotationLinkSet​(java.util.Collection<ShapeAnnotationLink> targets)
        use like removeShapeAnnotationLink

      • linkAnnotation

        public ShapeAnnotationLink linkAnnotation​(Annotation addition)
        Adds a ome.model.annotations.ShapeAnnotationLink to annotationLinks . This entails changing our annotationLinks Set, creating a new ome.model.annotations.ShapeAnnotationLink and calling linkAnnotation on the ome.model.annotations.Annotation.
        Specified by:
        linkAnnotation in interface IAnnotated

      • addShapeAnnotationLink

        public void addShapeAnnotationLink​(ShapeAnnotationLink link,
                                   boolean bothSides)
        Adds a ome.model.annotations.ShapeAnnotationLink to annotationLinks, allowing for recursion -- whether or not addShapeAnnotationLink will be called on the addition if it is loaded

      • linkedAnnotationIterator

        public java.util.Iterator<Annotation> linkedAnnotationIterator()
        provides an iterator over the parent values of the annotationLinks. Like with most Collection iterators, modifications to the underlying collection while iterating will result in an ConcurrentModificationException. Use linkedAnnotationList() instead.
        Specified by:
        linkedAnnotationIterator in interface IAnnotated

      • findShapeAnnotationLink

        public java.util.Set<ShapeAnnotationLink> findShapeAnnotationLink​(Annotation target)
        find all ome.model.annotations.ShapeAnnotationLink which have the argument as their child.

      • linkedAnnotationList

        public java.util.List<Annotation> linkedAnnotationList()
        produces a List-copy of the underlying collection. Unlike, linkedAnnotationIterator(), while using the returned List, modifications can be made to the underlying collection without throwing ConcurrentModificationException.
        Specified by:
        linkedAnnotationList in interface IAnnotated

      • eachLinkedAnnotation

        public <E> java.util.List<E> eachLinkedAnnotation​(CBlock<E> block)
        takes a CBlock and calls the block once for each ome.model.annotations.Annotation while collecting the results. If block == null, then the iterator values themselves are collected.
        Specified by:
        eachLinkedAnnotation in interface IAnnotated

      • unlinkAnnotation

        public void unlinkAnnotation​(Annotation removal)
        unlinks all ome.model.annotations.Annotation instances from this instance.
        Specified by:
        unlinkAnnotation in interface IAnnotated

      • removeShapeAnnotationLink

        public void removeShapeAnnotationLink​(ShapeAnnotationLink link,
                                      boolean bothSides)
        removes the given ShapeAnnotationLink from annotationLinks, allowing for recursion -- whether or not the removal will call unlinkShape again if loaded.

      • setAnnotationLinksCountPerOwner

        protected void setAnnotationLinksCountPerOwner​(java.util.Map<java.lang.Long,​java.lang.Long> map)

      • getAnnotationLinksCountPerOwner

        public java.util.Map<java.lang.Long,​java.lang.Long> getAnnotationLinksCountPerOwner()
        If fetched, returns the count(*) of ome.model.annotations.ShapeAnnotationLink that a user has. If unfetched, returns null. No entries in the collection should be null.

      • getDetails

        public Details getDetails()
        The details of this object correspond to low-level system information. Owner, permissions, Details is always guaranteed to be non-null, unless the user actively nulls it. Every entity also contains a Detail reference, which doesn't refer to a separate table but rather to a collection of fields collected into a Hibernate "component" which is embedded in the object. HQL queries which refer to the Details component cannot directly fetch the entity like this: select o from Object join fetch o.details but rather each field of the Details instance must be explicitly joined: select o from Object join fetch o.details.owner It should also be noted that not all types have all the fields which are present on Details. For example, select e from Experimenter e join fetch e.details.owner will fail. Experimenter has no owner, for obvious reasons. Note: subclasses of this class will return a subclass of the Details type.
        Specified by:
        getDetails in interface IObject

      • setDetails

        protected void setDetails​(Details details)

      • isValid

        public boolean isValid()
        Description copied from interface: IObject
        calls the class-specific validator for this instance and returns the value from Validation.isValid()
        Specified by:
        isValid in interface IObject

      • validate

        public Validation validate()
        Description copied from interface: IObject
        calls the class-specific validator for this instance and returns the Validation object.
        Specified by:
        validate in interface IObject
        Returns:
        Validation collecting parameter.

      • toString

        public java.lang.String toString()
        Overrides:
        toString in class java.lang.Object

      • fields

        public java.util.Set<java.lang.String> fields()
        Description copied from interface: IObject
        returns a Set of field names that belong to this class
        Specified by:
        fields in interface IObject

      • retrieve

        public java.lang.Object retrieve​(java.lang.String field)
        Description copied from interface: IObject
        retrieves a value from this instance. Values for field which match a field of this instance will be delegated to the accessors. Otherwise, values will be retrieved from a lazy-loaded map filled by calls to IObject.putAt(String, Object)
        Specified by:
        retrieve in interface IObject

      • putAt

        public void putAt​(java.lang.String field,
                  java.lang.Object value)
        Description copied from interface: IObject
        stores a value in this instance. Values for field which match a field of this instance will be delegated to the accessors. Otherwise, values will be stored in a lazy-loaded map.
        Specified by:
        putAt in interface IObject
        Parameters:
        field - Field name
        value - Any object to be stored.

      • isLoaded

        public boolean isLoaded()
        Description copied from interface: IObject
        transient field (not stored in the DB) which specifies whether this object has been loaded from the DB or is only a wrapper around the ID.
        Specified by:
        isLoaded in interface IObject

      • errorIfUnloaded

        protected void errorIfUnloaded()

      • unload

        public void unload()
        Description copied from interface: IObject
        set the loaded field to false, and set all non-ID fields to null. Subsequent calls to all accessors other than getId/setId will throw an ApiUsageException
        Specified by:
        unload in interface IObject

      • getGraphHolder

        public final GraphHolder getGraphHolder()
        Description copied from interface: IObject
        retrieves the GraphHolder for this entity. If the GraphHolder has not been actively set, a new one will be instatiated.
        Specified by:
        getGraphHolder in interface IObject
        Returns:
        Non-null GraphHolder

      • throwNullCollectionException

        protected void throwNullCollectionException​(java.lang.String propertyName)