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JAL-1990 suggested revision to separate references to UI components from datamodel...
[jalview.git]
/
src
/
jalview
/
gui
/
StructureViewerBase.java
diff --git
a/src/jalview/gui/StructureViewerBase.java
b/src/jalview/gui/StructureViewerBase.java
index
7df42fd
..
41390b1
100644
(file)
--- a/
src/jalview/gui/StructureViewerBase.java
+++ b/
src/jalview/gui/StructureViewerBase.java
@@
-152,6
+152,7
@@
public abstract class StructureViewerBase extends GStructureViewer
this.ap = alp;
}
this.ap = alp;
}
+ @Override
public AlignmentPanel[] getAllAlignmentPanels()
{
AlignmentPanel[] t, list = new AlignmentPanel[0];
public AlignmentPanel[] getAllAlignmentPanels()
{
AlignmentPanel[] t, list = new AlignmentPanel[0];
@@
-267,6
+268,8
@@
public abstract class StructureViewerBase extends GStructureViewer
protected abstract AAStructureBindingModel getBindingModel();
protected abstract AAStructureBindingModel getBindingModel();
+ protected abstract IProgressIndicator getIProgressIndicator();
+
/**
* add a new structure (with associated sequences and chains) to this viewer,
* retrieving it if necessary first.
/**
* add a new structure (with associated sequences and chains) to this viewer,
* retrieving it if necessary first.
@@
-291,6
+294,7
@@
public abstract class StructureViewerBase extends GStructureViewer
// queue.
new Thread(new Runnable()
{
// queue.
new Thread(new Runnable()
{
+ @Override
public void run()
{
while (worker != null && worker.isAlive() && _started)
public void run()
{
while (worker != null && worker.isAlive() && _started)
@@
-411,7
+415,7
@@
public abstract class StructureViewerBase extends GStructureViewer
* create the mappings
*/
apanel.getStructureSelectionManager().setMapping(seq, chains,
* create the mappings
*/
apanel.getStructureSelectionManager().setMapping(seq, chains,
- pdbFilename, AppletFormatAdapter.FILE);
+ pdbFilename, AppletFormatAdapter.FILE, getIProgressIndicator());
/*
* alert the FeatureRenderer to show new (PDB RESNUM) features
/*
* alert the FeatureRenderer to show new (PDB RESNUM) features