Examples of BioPAXElement


Examples of org.biopax.paxtools.model.BioPAXElement

            ListIterator nodeIterator = node.getChildren().listIterator();

            while( nodeIterator.hasNext() ) {
                ChsNodeEditPart oneObj = (ChsNodeEditPart) nodeIterator.next();
                Object oneModel = oneObj.getModel();
                BioPAXElement be = null;

                if( oneModel instanceof Actor)
                {
                    be = ((Actor) oneModel).getEntity();
                } else if( oneModel instanceof Complex)
                {
                    be = ((Complex) oneModel).getComplex();
                } else if( oneModel instanceof Conversion)
                {
                    be = ((Conversion) oneModel).getConversion();
                } else if( oneModel instanceof org.gvt.model.biopaxl2.Control)
                {
                    be = ((org.gvt.model.biopaxl2.Control) oneModel).getControl();
                }

                // We have the element and its type
                // Let's check whether it's rdf has a match
                // If so, simply higlight the node.
                if( be != null && rdfs.contains(be.getRDFId()) )
                {
                    ((GraphObject) oneModel).setHighlightColor(higlightColor);
                    ((GraphObject) oneModel).setHighlight(true);
                }
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Examples of org.biopax.paxtools.model.BioPAXElement

            ListIterator nodeIterator = node.getChildren().listIterator();

            while( nodeIterator.hasNext() ) {
                ChsNodeEditPart oneObj = (ChsNodeEditPart) nodeIterator.next();
                Object oneModel = oneObj.getModel();
                BioPAXElement be = null;

                if( oneModel instanceof Actor)
                {
                    be = ((Actor) oneModel).getEntity();
                } else if( oneModel instanceof Complex)
                {
                    be = ((Complex) oneModel).getComplex();
                } else if( oneModel instanceof Conversion)
                {
                    be = ((Conversion) oneModel).getConversion();
                } else if( oneModel instanceof org.gvt.model.biopaxl2.Control)
                {
                    be = ((org.gvt.model.biopaxl2.Control) oneModel).getControl();
                }

                // We have the element and its type
                // Let's check whether it's rdf has a match
                // If so, simply higlight the node.
                if( be != null && rdfs.contains(be.getRDFId()) )
                {
                    ((GraphObject) oneModel).setHighlightColor(higlightColor);
                    ((GraphObject) oneModel).setHighlight(true);
                }
View Full Code Here

Examples of org.biopax.paxtools.model.BioPAXElement

            ListIterator nodeIterator = node.getChildren().listIterator();

            while( nodeIterator.hasNext() ) {
                ChsNodeEditPart oneObj = (ChsNodeEditPart) nodeIterator.next();
                Object oneModel = oneObj.getModel();
                BioPAXElement be = null;

                if( oneModel instanceof Actor)
                {
                    be = ((Actor) oneModel).getEntity().l2pe;
                } else if( oneModel instanceof Complex)
                {
                    be = ((Complex) oneModel).getComplex();
                } else if( oneModel instanceof Conversion)
                {
                    be = ((Conversion) oneModel).getConversion();
                } else if( oneModel instanceof org.gvt.model.biopaxl2.Control)
                {
                    be = ((org.gvt.model.biopaxl2.Control) oneModel).getControl();
                }

                // We have the element and its type
                // Let's check whether it's rdf has a match
                // If so, simply higlight the node.
                if( be != null && rdfs.contains(be.getRDFId()) )
                {
                    ((GraphObject) oneModel).setHighlightColor(higlightColor);
                    ((GraphObject) oneModel).setHighlight(true);
                }
View Full Code Here
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