public static MyDesktopPane getDesktopPane()
{
- return Desktop.getInstance().desktopPane;
+ Desktop desktop = Desktop.getInstance();
+ return desktop == null ? null : desktop.desktopPane;
}
- public StructureSelectionManager getStructureSelectionManager()
+ public static StructureSelectionManager getStructureSelectionManager()
{
return StructureSelectionManager
- .getStructureSelectionManager(this);
+ .getStructureSelectionManager(getInstance());
}
static int openFrameCount = 0;
private static int fileLoadingCount = 0;
- public JInternalFrame conservationSlider, PIDSlider;
+ public JInternalFrame conservationSlider;
+
+ public JInternalFrame PIDSlider;
/**
* just an instance (for testng, probably); no actual frames
*/
public static Desktop getInstance()
{
- return (Desktop) ApplicationSingletonProvider
- .getInstance(Desktop.class);
+ return Jalview.isHeadlessMode() ? null
+ : (Desktop) ApplicationSingletonProvider
+ .getInstance(Desktop.class);
}
/**
*/
public Desktop(boolean forInstance)
{
+
+ Cache.initLogger();
instanceOnly = true;
}
@SuppressWarnings("unused")
private Desktop()
{
+ Cache.initLogger();
+ try
+ {
/**
* A note to implementors. It is ESSENTIAL that any activities that might
* block are spawned off as threads rather than waited for during this
}
});
desktopPane.addMouseListener(ma);
+ } catch (Throwable t)
+ {
+ t.printStackTrace();
+ }
}
/**
public void doConfigureStructurePrefs()
{
// configure services
- StructureSelectionManager ssm = getStructureSelectionManager();
+ StructureSelectionManager ssm = StructureSelectionManager
+ .getStructureSelectionManager(this);
if (jalview.bin.Cache.getDefault(Preferences.ADD_SS_ANN, true))
{
ssm.setAddTempFacAnnot(jalview.bin.Cache
FileFormatI format = new IdentifyFile().identify(file,
DataSourceType.PASTE);
- new FileLoader().LoadFile(file, DataSourceType.PASTE, format);
+ new FileLoader().loadFile(file, DataSourceType.PASTE, format);
}
} catch (Exception ex)
int w, int h, boolean resizable, boolean ignoreMinSize)
{
+
// TODO: allow callers to determine X and Y position of frame (eg. via
// bounds object).
// TODO: consider fixing method to update entries in the window submenu with
// the current window title
frame.setTitle(title);
- if (frame.getWidth() < 1 || frame.getHeight() < 1)
+ if (w > 0 && (frame.getWidth() < 1 || frame.getHeight() < 1))
{
frame.setSize(w, h);
}
// A HEADLESS STATE WHEN NO DESKTOP EXISTS. MUST RETURN
// IF JALVIEW IS RUNNING HEADLESS
// ///////////////////////////////////////////////
- if (Desktop.getInstance().instanceOnly || Jalview.isHeadlessMode())
+ if (Jalview.isHeadlessMode() || Desktop.getInstance().instanceOnly)
{
return;
}
{
Platform.cacheFileData((File) file);
}
- new FileLoader().LoadFile(null, file, protocol, format);
+ new FileLoader().loadFile(null, file, protocol, format);
}
} catch (Exception ex)
}
}
- new FileLoader().LoadFile(viewport, selectedFile,
+ new FileLoader().loadFile(viewport, selectedFile,
DataSourceType.FILE, format);
}
});
{
if (viewport != null)
{
- new FileLoader().LoadFile(viewport, url, DataSourceType.URL,
+ new FileLoader().loadFile(viewport, url, DataSourceType.URL,
FileFormat.Jalview);
}
else
{
- new FileLoader().LoadFile(url, DataSourceType.URL,
+ new FileLoader().loadFile(url, DataSourceType.URL,
FileFormat.Jalview);
}
}
if (viewport != null)
{
- new FileLoader().LoadFile(viewport, url, DataSourceType.URL,
+ new FileLoader().loadFile(viewport, url, DataSourceType.URL,
format);
}
else
{
- new FileLoader().LoadFile(url, DataSourceType.URL, format);
+ new FileLoader().loadFile(url, DataSourceType.URL, format);
}
}
}
public static groovy.ui.Console getGroovyConsole()
{
- return Desktop.getInstance().groovyConsole;
+ Desktop desktop = Desktop.getInstance();
+ return desktop == null ? null : desktop.groovyConsole;
}
/**