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JAL-1953 named various threads
author
kjvdheide
<kjvanderheide@dundee.ac.uk>
Wed, 10 Jan 2018 17:01:58 +0000
(17:01 +0000)
committer
kjvdheide
<kjvanderheide@dundee.ac.uk>
Wed, 10 Jan 2018 17:01:58 +0000
(17:01 +0000)
31 files changed:
src/jalview/appletgui/OverviewPanel.java
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src/jalview/appletgui/PCAPanel.java
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src/jalview/appletgui/RedundancyPanel.java
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src/jalview/bin/Jalview.java
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src/jalview/ext/rbvi/chimera/JalviewChimeraBinding.java
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src/jalview/fts/core/GFTSPanel.java
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src/jalview/fts/service/pdb/PDBFTSPanel.java
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src/jalview/gui/AlignFrame.java
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src/jalview/gui/AppJmol.java
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src/jalview/gui/ChimeraViewFrame.java
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src/jalview/gui/Console.java
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src/jalview/gui/DasSourceBrowser.java
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src/jalview/gui/Desktop.java
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src/jalview/gui/JalviewDialog.java
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src/jalview/gui/OverviewPanel.java
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src/jalview/gui/PopupMenu.java
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src/jalview/gui/RedundancyPanel.java
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src/jalview/gui/SplashScreen.java
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src/jalview/gui/StructureViewerBase.java
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src/jalview/gui/TreeCanvas.java
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src/jalview/gui/VamsasApplication.java
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src/jalview/gui/WebserviceInfo.java
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src/jalview/gui/WsPreferences.java
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src/jalview/io/BioJsHTMLOutput.java
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src/jalview/io/FileLoader.java
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src/jalview/io/HtmlSvgOutput.java
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src/jalview/javascript/JSFunctionExec.java
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src/jalview/util/AWTConsole.java
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src/jalview/ws/DBRefFetcher.java
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src/jalview/ws/DasSequenceFeatureFetcher.java
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src/jalview/ws/jws2/Jws2Discoverer.java
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diff --git
a/src/jalview/appletgui/OverviewPanel.java
b/src/jalview/appletgui/OverviewPanel.java
index
1855c3d
..
7f9f670
100755
(executable)
--- a/
src/jalview/appletgui/OverviewPanel.java
+++ b/
src/jalview/appletgui/OverviewPanel.java
@@
-235,7
+235,7
@@
public class OverviewPanel extends Panel implements Runnable,
updateRunning = true;
}
updateRunning = true;
}
- Thread thread = new Thread(this, "OverviewUpdateThread");
+ Thread thread = new Thread(this, "OverviewUpdate");
thread.start();
repaint();
updateRunning = false;
thread.start();
repaint();
updateRunning = false;
diff --git
a/src/jalview/appletgui/PCAPanel.java
b/src/jalview/appletgui/PCAPanel.java
index
ea6eda6
..
6c0ed73
100644
(file)
--- a/
src/jalview/appletgui/PCAPanel.java
+++ b/
src/jalview/appletgui/PCAPanel.java
@@
-117,7
+117,7
@@
public class PCAPanel extends EmbmenuFrame
MessageManager.getString("label.principal_component_analysis"),
475, 400);
MessageManager.getString("label.principal_component_analysis"),
475, 400);
- Thread worker = new Thread(this, "PCACalcThread");
+ Thread worker = new Thread(this, "PCACalc");
worker.start();
}
worker.start();
}
@@
-220,7
+220,7
@@
public class PCAPanel extends EmbmenuFrame
ScoreModelI scoreModel = ScoreModels.getInstance()
.getDefaultModel(false);
pcaModel.setScoreModel(scoreModel);
ScoreModelI scoreModel = ScoreModels.getInstance()
.getDefaultModel(false);
pcaModel.setScoreModel(scoreModel);
- new Thread(this, "PCARecalcThread").start();
+ new Thread(this, "PCARecalc").start();
}
}
else if (evt.getSource() == protSetting)
}
}
else if (evt.getSource() == protSetting)
@@
-231,7
+231,7
@@
public class PCAPanel extends EmbmenuFrame
ScoreModelI scoreModel = ScoreModels.getInstance()
.getDefaultModel(true);
pcaModel.setScoreModel(scoreModel);
ScoreModelI scoreModel = ScoreModels.getInstance()
.getDefaultModel(true);
pcaModel.setScoreModel(scoreModel);
- new Thread(this, "PCARecalcThread").start();
+ new Thread(this, "PCARecalc").start();
}
}
}
}
}
}
diff --git
a/src/jalview/appletgui/RedundancyPanel.java
b/src/jalview/appletgui/RedundancyPanel.java
index
c7d8157
..
41bba33
100644
(file)
--- a/
src/jalview/appletgui/RedundancyPanel.java
+++ b/
src/jalview/appletgui/RedundancyPanel.java
@@
-89,7
+89,7
@@
public class RedundancyPanel extends SliderPanel
frame.addWindowListener(this);
frame.addWindowListener(this);
- Thread worker = new Thread(this, "RedundancyCalcThread");
+ Thread worker = new Thread(this, "RedundancyCalc");
worker.start();
}
worker.start();
}
diff --git
a/src/jalview/bin/Jalview.java
b/src/jalview/bin/Jalview.java
index
245a63c
..
80b03ce
100755
(executable)
--- a/
src/jalview/bin/Jalview.java
+++ b/
src/jalview/bin/Jalview.java
@@
-155,7
+155,7
@@
public class Jalview
running--;
}
}
running--;
}
}
- }, "FeatureFetcherThread").start();
+ }, "FeatureFetcher").start();
}
public synchronized boolean allFinished()
}
public synchronized boolean allFinished()
diff --git
a/src/jalview/ext/rbvi/chimera/JalviewChimeraBinding.java
b/src/jalview/ext/rbvi/chimera/JalviewChimeraBinding.java
index
82cba86
..
fd772ef
100644
(file)
--- a/
src/jalview/ext/rbvi/chimera/JalviewChimeraBinding.java
+++ b/
src/jalview/ext/rbvi/chimera/JalviewChimeraBinding.java
@@
-226,7
+226,7
@@
public abstract class JalviewChimeraBinding extends AAStructureBindingModel
// exit thread if Chimera Viewer is closed in Jalview
}
}
// exit thread if Chimera Viewer is closed in Jalview
}
}
- }, "ChimeraMonitorThread");
+ }, "ChimeraMonitor");
chimeraMonitor.start();
}
chimeraMonitor.start();
}
diff --git
a/src/jalview/fts/core/GFTSPanel.java
b/src/jalview/fts/core/GFTSPanel.java
index
da65ddf
..
fbeeee8
100644
(file)
--- a/
src/jalview/fts/core/GFTSPanel.java
+++ b/
src/jalview/fts/core/GFTSPanel.java
@@
-900,7
+900,7
@@
public abstract class GFTSPanel extends JPanel implements GFTSPanelI
public void transferToSequenceFetcher(String ids)
{
seqFetcher.getTextArea().setText(ids);
public void transferToSequenceFetcher(String ids)
{
seqFetcher.getTextArea().setText(ids);
- Thread worker = new Thread(seqFetcher, "GFTSSeqFetcherThread");
+ Thread worker = new Thread(seqFetcher, "GFTSSeqFetcher");
worker.start();
}
worker.start();
}
diff --git
a/src/jalview/fts/service/pdb/PDBFTSPanel.java
b/src/jalview/fts/service/pdb/PDBFTSPanel.java
index
f25b98b
..
adb910b
100644
(file)
--- a/
src/jalview/fts/service/pdb/PDBFTSPanel.java
+++ b/
src/jalview/fts/service/pdb/PDBFTSPanel.java
@@
-222,7
+222,7
@@
public class PDBFTSPanel extends GFTSPanel
String ids = selectedIds.toString();
// System.out.println(">>>>>>>>>>>>>>>> selected Ids: " + ids);
seqFetcher.getTextArea().setText(ids);
String ids = selectedIds.toString();
// System.out.println(">>>>>>>>>>>>>>>> selected Ids: " + ids);
seqFetcher.getTextArea().setText(ids);
- Thread worker = new Thread(seqFetcher, "PDBFTSSeqFetcherThread");
+ Thread worker = new Thread(seqFetcher, "PDBFTSSeqFetcher");
worker.start();
delayAndEnableActionButtons();
}
worker.start();
delayAndEnableActionButtons();
}
diff --git
a/src/jalview/gui/AlignFrame.java
b/src/jalview/gui/AlignFrame.java
index
0ebf8e8
..
7029289
100644
(file)
--- a/
src/jalview/gui/AlignFrame.java
+++ b/
src/jalview/gui/AlignFrame.java
@@
-4374,7
+4374,7
@@
public class AlignFrame extends GAlignFrame implements DropTargetListener,
}
buildingMenu = false;
}
}
buildingMenu = false;
}
- }, "BuildWebServiceThread").start();
+ }, "BuildWebService").start();
}
}
@@
-4483,7
+4483,7
@@
public class AlignFrame extends GAlignFrame implements DropTargetListener,
final String source)
{
new Thread(CrossRefAction.showProductsFor(sel, _odna, source, this),
final String source)
{
new Thread(CrossRefAction.showProductsFor(sel, _odna, source, this),
- "CrossReferencesThread")
+ "CrossReferences")
.start();
}
.start();
}
@@
-4762,7
+4762,7
@@
public class AlignFrame extends GAlignFrame implements DropTargetListener,
ex.printStackTrace();
}
}
ex.printStackTrace();
}
}
- }, "DropFileThread").start();
+ }, "DropFile").start();
}
}
}
}
@@
-5133,7
+5133,7
@@
public class AlignFrame extends GAlignFrame implements DropTargetListener,
});
dbRefFetcher.fetchDBRefs(false);
}
});
dbRefFetcher.fetchDBRefs(false);
}
- }, "BuildFetchDBMenuThread").start();
+ }, "BuildFetchDBMenu").start();
}
}
diff --git
a/src/jalview/gui/AppJmol.java
b/src/jalview/gui/AppJmol.java
index
d5eb2ae
..
3dd9571
100644
(file)
--- a/
src/jalview/gui/AppJmol.java
+++ b/
src/jalview/gui/AppJmol.java
@@
-218,7
+218,7
@@
public class AppJmol extends StructureViewerBase
setSize(400, 400); // probably should be a configurable/dynamic default here
initMenus();
addingStructures = false;
setSize(400, 400); // probably should be a configurable/dynamic default here
initMenus();
addingStructures = false;
- worker = new Thread(this, "OpenJmolThread");
+ worker = new Thread(this, "OpenJmol");
worker.start();
this.addInternalFrameListener(new InternalFrameAdapter()
worker.start();
this.addInternalFrameListener(new InternalFrameAdapter()
diff --git
a/src/jalview/gui/ChimeraViewFrame.java
b/src/jalview/gui/ChimeraViewFrame.java
index
48565eb
..
4b45459
100644
(file)
--- a/
src/jalview/gui/ChimeraViewFrame.java
+++ b/
src/jalview/gui/ChimeraViewFrame.java
@@
-272,7
+272,7
@@
public class ChimeraViewFrame extends StructureViewerBase
initMenus();
addingStructures = false;
initMenus();
addingStructures = false;
- worker = new Thread(this, "OpenChimeraThread");
+ worker = new Thread(this, "OpenChimera");
worker.start();
this.addInternalFrameListener(new InternalFrameAdapter()
worker.start();
this.addInternalFrameListener(new InternalFrameAdapter()
diff --git
a/src/jalview/gui/Console.java
b/src/jalview/gui/Console.java
index
5fee61f
..
9d847a8
100644
(file)
--- a/
src/jalview/gui/Console.java
+++ b/
src/jalview/gui/Console.java
@@
-138,15
+138,15
@@
public class Console extends WindowAdapter
// Starting two seperate threads to read from the PipedInputStreams
//
// Starting two seperate threads to read from the PipedInputStreams
//
- reader = new Thread(this, "ConsoleReader1Thread");
+ reader = new Thread(this, "ConsoleReader1");
reader.setDaemon(true);
reader.start();
//
reader.setDaemon(true);
reader.start();
//
- reader2 = new Thread(this, "ConsoleReader2Thread");
+ reader2 = new Thread(this, "ConsoleReader2");
reader2.setDaemon(true);
reader2.start();
// and a thread to append text to the textarea
reader2.setDaemon(true);
reader2.start();
// and a thread to append text to the textarea
- textAppender = new Thread(this, "ConsoleTextAppendThread");
+ textAppender = new Thread(this, "ConsoleTextAppend");
textAppender.setDaemon(true);
textAppender.start();
}
textAppender.setDaemon(true);
textAppender.start();
}
@@
-255,7
+255,7
@@
public class Console extends WindowAdapter
// We do it with a seperate Thread becasue we don't wan't to break a Thread
// used by the Console.
System.out.println("\nLets throw an error on this console");
// We do it with a seperate Thread becasue we don't wan't to break a Thread
// used by the Console.
System.out.println("\nLets throw an error on this console");
- errorThrower = new Thread(this, "ConsoleErrorLogThread");
+ errorThrower = new Thread(this, "ConsoleErrorLog");
errorThrower.setDaemon(true);
errorThrower.start();
}
errorThrower.setDaemon(true);
errorThrower.start();
}
diff --git
a/src/jalview/gui/DasSourceBrowser.java
b/src/jalview/gui/DasSourceBrowser.java
index
a1b67e7
..
53204d4
100644
(file)
--- a/
src/jalview/gui/DasSourceBrowser.java
+++ b/
src/jalview/gui/DasSourceBrowser.java
@@
-124,7
+124,7
@@
public class DasSourceBrowser extends GDasSourceBrowser
{
if (sourceRegistry == null)
{
{
if (sourceRegistry == null)
{
- Thread worker = new Thread(this, "PaintDasThread");
+ Thread worker = new Thread(this, "PaintDas");
worker.start();
}
}
worker.start();
}
}
@@
-368,7
+368,7
@@
public class DasSourceBrowser extends GDasSourceBrowser
{
saveProperties(jalview.bin.Cache.applicationProperties);
{
saveProperties(jalview.bin.Cache.applicationProperties);
- Thread worker = new Thread(this, "RepaintDasThread");
+ Thread worker = new Thread(this, "RepaintDas");
worker.start();
}
worker.start();
}
diff --git
a/src/jalview/gui/Desktop.java
b/src/jalview/gui/Desktop.java
index
75ea88f
..
6eea78d
100644
(file)
--- a/
src/jalview/gui/Desktop.java
+++ b/
src/jalview/gui/Desktop.java
@@
-456,7
+456,7
@@
public class Desktop extends jalview.jbgui.GDesktop
fileFormat);
Cache.log.debug("Filechooser init thread finished.");
}
fileFormat);
Cache.log.debug("Filechooser init thread finished.");
}
- }, "InitFileChooserThread").start();
+ }, "InitFileChooser").start();
// Add the service change listener
changeSupport.addJalviewPropertyChangeListener("services",
new PropertyChangeListener()
// Add the service change listener
changeSupport.addJalviewPropertyChangeListener("services",
new PropertyChangeListener()
@@
-575,7
+575,7
@@
public class Desktop extends jalview.jbgui.GDesktop
Desktop.instance.setProgressBar(null, now);
jvnews.showNews();
}
Desktop.instance.setProgressBar(null, now);
jvnews.showNews();
}
- }, "ShowNewsWindowThread").start();
+ }, "ShowNewsWindow").start();
}
}
}
}
}
}
@@
-1272,7
+1272,7
@@
public class Desktop extends jalview.jbgui.GDesktop
{
new SplashScreen(true);
}
{
new SplashScreen(true);
}
- }, "ShowAboutMenuThread").start();
+ }, "ShowAboutMenu").start();
}
public StringBuffer getAboutMessage(boolean shortv)
}
public StringBuffer getAboutMessage(boolean shortv)
@@
-1614,7
+1614,7
@@
public class Desktop extends jalview.jbgui.GDesktop
}
setProgressBar(null, choice.hashCode());
}
}
setProgressBar(null, choice.hashCode());
}
- }, "SaveJalviewProjectThread").start();
+ }, "SaveJalviewProject").start();
}
}
}
}
@@
-1682,7
+1682,7
@@
public class Desktop extends jalview.jbgui.GDesktop
}
setProgressBar(null, choice.hashCode());
}
}
setProgressBar(null, choice.hashCode());
}
- }, "LoadJalviewProjectThread").start();
+ }, "LoadJalviewProject").start();
}
}
}
}
@@
-2192,7
+2192,7
@@
public class Desktop extends jalview.jbgui.GDesktop
dsktp.v_client.initial_update();
}
dsktp.v_client.initial_update();
}
- }, "VamsasSessionThread");
+ }, "VamsasSession");
rthr.start();
}
};
rthr.start();
}
};
@@
-2312,7
+2312,7
@@
public class Desktop extends jalview.jbgui.GDesktop
{
UserQuestionnaireCheck jvq = new UserQuestionnaireCheck(url);
// javax.swing.SwingUtilities.invokeLater(jvq);
{
UserQuestionnaireCheck jvq = new UserQuestionnaireCheck(url);
// javax.swing.SwingUtilities.invokeLater(jvq);
- new Thread(jvq, "CheckQuestionnaireThread").start();
+ new Thread(jvq, "CheckQuestionnaire").start();
}
public void checkURLLinks()
}
public void checkURLLinks()
@@
-2425,7
+2425,7
@@
public class Desktop extends jalview.jbgui.GDesktop
this.showMemoryUsage = showMemory;
if (showMemory)
{
this.showMemoryUsage = showMemory;
if (showMemory)
{
- Thread worker = new Thread(this, "ShowMemoryUsageThread");
+ Thread worker = new Thread(this, "ShowMemoryUsage");
worker.start();
}
repaint();
worker.start();
}
repaint();
@@
-2850,7
+2850,7
@@
public class Desktop extends jalview.jbgui.GDesktop
}
// JAL-940 - disabled JWS1 service configuration - always start discoverer
// until we phase out completely
}
// JAL-940 - disabled JWS1 service configuration - always start discoverer
// until we phase out completely
- (t0 = new Thread(discoverer, "DiscovererThread")).start();
+ (t0 = new Thread(discoverer, "Discoverer")).start();
}
if (Cache.getDefault("SHOW_JWS2_SERVICES", true))
}
if (Cache.getDefault("SHOW_JWS2_SERVICES", true))
@@
-3006,7
+3006,7
@@
public class Desktop extends jalview.jbgui.GDesktop
progress.setProgressBar(null, this.hashCode());
}
}
progress.setProgressBar(null, this.hashCode());
}
}
- }, "OpenURLThread").start();
+ }, "OpenURL").start();
}
public static WsParamSetManager wsparamManager = null;
}
public static WsParamSetManager wsparamManager = null;
diff --git
a/src/jalview/gui/JalviewDialog.java
b/src/jalview/gui/JalviewDialog.java
index
a6f2d2a
..
ccbe1ee
100644
(file)
--- a/
src/jalview/gui/JalviewDialog.java
+++ b/
src/jalview/gui/JalviewDialog.java
@@
-66,7
+66,7
@@
public abstract class JalviewDialog extends JPanel
frame.setVisible(true);
}
frame.setVisible(true);
}
- }, "UnblockedDialogThread").start();
+ }, "UnblockedDialog").start();
}
else
{
}
else
{
diff --git
a/src/jalview/gui/OverviewPanel.java
b/src/jalview/gui/OverviewPanel.java
index
46a4751
..
0fbc04a
100755
(executable)
--- a/
src/jalview/gui/OverviewPanel.java
+++ b/
src/jalview/gui/OverviewPanel.java
@@
-304,7
+304,7
@@
public class OverviewPanel extends JPanel
return;
}
return;
}
- Thread thread = new Thread(this, "UpdateOverviewThread");
+ Thread thread = new Thread(this, "UpdateOverview");
thread.start();
repaint();
thread.start();
repaint();
diff --git
a/src/jalview/gui/PopupMenu.java
b/src/jalview/gui/PopupMenu.java
index
18dd8da
..
21cc075
100644
(file)
--- a/
src/jalview/gui/PopupMenu.java
+++ b/
src/jalview/gui/PopupMenu.java
@@
-885,7
+885,7
@@
public class PopupMenu extends JPopupMenu implements ColourChangeListener
showLink(url);
}
showLink(url);
}
- }, "ShowURLMenuThread").start();
+ }, "ShowURLMenu").start();
}
});
}
});
@@
-931,7
+931,7
@@
public class PopupMenu extends JPopupMenu implements ColourChangeListener
}
}
}
}
- }, "ShowGroupURLMenuThread").start();
+ }, "ShowGroupURLMenu").start();
}
});
}
});
diff --git
a/src/jalview/gui/RedundancyPanel.java
b/src/jalview/gui/RedundancyPanel.java
index
95862e7
..
aa3d5b1
100755
(executable)
--- a/
src/jalview/gui/RedundancyPanel.java
+++ b/
src/jalview/gui/RedundancyPanel.java
@@
-96,7
+96,7
@@
public class RedundancyPanel extends GSliderPanel implements Runnable
slider.setMaximum(100);
slider.setValue(100);
slider.setMaximum(100);
slider.setValue(100);
- Thread worker = new Thread(this, "CreateRedundancyPanelThread");
+ Thread worker = new Thread(this, "CreateRedundancyPanel");
worker.start();
frame = new JInternalFrame();
worker.start();
frame = new JInternalFrame();
diff --git
a/src/jalview/gui/SplashScreen.java
b/src/jalview/gui/SplashScreen.java
index
e46c5e7
..
d74309b
100755
(executable)
--- a/
src/jalview/gui/SplashScreen.java
+++ b/
src/jalview/gui/SplashScreen.java
@@
-80,7
+80,7
@@
public class SplashScreen extends JPanel
{
this.interactiveDialog = interactive;
// show a splashscreen that will disapper
{
this.interactiveDialog = interactive;
// show a splashscreen that will disapper
- Thread t = new Thread(this, "ShowSplashScreenThread");
+ Thread t = new Thread(this, "ShowSplashScreen");
t.start();
}
t.start();
}
diff --git
a/src/jalview/gui/StructureViewerBase.java
b/src/jalview/gui/StructureViewerBase.java
index
aa07b7c
..
c0769a0
100644
(file)
--- a/
src/jalview/gui/StructureViewerBase.java
+++ b/
src/jalview/gui/StructureViewerBase.java
@@
-352,7
+352,7
@@
public abstract class StructureViewerBase extends GStructureViewer
// and call ourselves again.
addStructure(pdbentry, seqs, chains, align, alignFrame);
}
// and call ourselves again.
addStructure(pdbentry, seqs, chains, align, alignFrame);
}
- }, "Adding3DStructureQueueThread").start();
+ }, "Adding3DStructureQueue").start();
return;
}
}
return;
}
}
@@
-363,7
+363,7
@@
public abstract class StructureViewerBase extends GStructureViewer
addingStructures = true;
_started = false;
alignAddedStructures = align;
addingStructures = true;
_started = false;
alignAddedStructures = align;
- worker = new Thread(this, "Adding3DStructureThread");
+ worker = new Thread(this, "Adding3DStructure");
worker.start();
return;
}
worker.start();
return;
}
diff --git
a/src/jalview/gui/TreeCanvas.java
b/src/jalview/gui/TreeCanvas.java
index
6780921
..
ec5d28f
100755
(executable)
--- a/
src/jalview/gui/TreeCanvas.java
+++ b/
src/jalview/gui/TreeCanvas.java
@@
-542,7
+542,7
@@
public class TreeCanvas extends JPanel implements MouseListener, Runnable,
*/
void startPrinting()
{
*/
void startPrinting()
{
- Thread thread = new Thread(this, "PrintTreeCanvasThread");
+ Thread thread = new Thread(this, "PrintTreeCanvas");
thread.start();
}
thread.start();
}
diff --git
a/src/jalview/gui/VamsasApplication.java
b/src/jalview/gui/VamsasApplication.java
index
f855474
..
6003416
100644
(file)
--- a/
src/jalview/gui/VamsasApplication.java
+++ b/
src/jalview/gui/VamsasApplication.java
@@
-326,7
+326,7
@@
public class VamsasApplication implements SelectionSource, VamsasSource
Cache.log.info("Jalview finished updating to the Vamsas Session.");
}
Cache.log.info("Jalview finished updating to the Vamsas Session.");
}
- }, "UpdateVamsasThread");
+ }, "UpdateVamsas");
udthread.start();
}
udthread.start();
}
diff --git
a/src/jalview/gui/WebserviceInfo.java
b/src/jalview/gui/WebserviceInfo.java
index
be812b5
..
a0191a5
100644
(file)
--- a/
src/jalview/gui/WebserviceInfo.java
+++ b/
src/jalview/gui/WebserviceInfo.java
@@
-344,7
+344,7
@@
public class WebserviceInfo extends GWebserviceInfo
AnimatedPanel ap = new AnimatedPanel();
titlePanel.add(ap, BorderLayout.CENTER);
AnimatedPanel ap = new AnimatedPanel();
titlePanel.add(ap, BorderLayout.CENTER);
- Thread thread = new Thread(ap, "AnimatedPanelThread");
+ Thread thread = new Thread(ap, "AnimatedPanel");
thread.start();
final WebserviceInfo thisinfo = this;
frame.addInternalFrameListener(
thread.start();
final WebserviceInfo thisinfo = this;
frame.addInternalFrameListener(
diff --git
a/src/jalview/gui/WsPreferences.java
b/src/jalview/gui/WsPreferences.java
index
dc3cadd
..
2053091
100644
(file)
--- a/
src/jalview/gui/WsPreferences.java
+++ b/
src/jalview/gui/WsPreferences.java
@@
-567,7
+567,7
@@
public class WsPreferences extends GWsPreferences
updateWsMenuConfig(false);
refreshWsMenu(true);
}
updateWsMenuConfig(false);
refreshWsMenu(true);
}
- }, "RefreshWebServicesThread").start();
+ }, "RefreshWebServices").start();
}
}
@@
-603,7
+603,7
@@
public class WsPreferences extends GWsPreferences
progressBar.setVisible(false);
validate();
}
progressBar.setVisible(false);
validate();
}
- }, "RefreshWebServicesMenuProgressBarThread").start();
+ }, "RefreshWebServicesMenuProgressBar").start();
}
else
}
else
@@
-626,7
+626,7
@@
public class WsPreferences extends GWsPreferences
Desktop.instance.setProgressBar(null, ct);
}
Desktop.instance.setProgressBar(null, ct);
}
- }, "RefreshWebServicesMenuThread").start();
+ }, "RefreshWebServicesMenu").start();
}
}
}
}
@@
-675,7
+675,7
@@
public class WsPreferences extends GWsPreferences
updateWsMenuConfig(false);
refreshWsMenu(showProgressInDialog);
}
updateWsMenuConfig(false);
refreshWsMenu(showProgressInDialog);
}
- }, "UpdateAndRefreshWebServicesMenuThread").start();
+ }, "UpdateAndRefreshWebServicesMenu").start();
}
}
}
}
diff --git
a/src/jalview/io/BioJsHTMLOutput.java
b/src/jalview/io/BioJsHTMLOutput.java
index
045fc7e
..
5374bb5
100644
(file)
--- a/
src/jalview/io/BioJsHTMLOutput.java
+++ b/
src/jalview/io/BioJsHTMLOutput.java
@@
-84,7
+84,7
@@
public class BioJsHTMLOutput extends HTMLOutput
e.printStackTrace();
return;
}
e.printStackTrace();
return;
}
- new Thread(this, "ExportBioJsHTMLThread").start();
+ new Thread(this, "ExportBioJsHTML").start();
}
}
diff --git
a/src/jalview/io/FileLoader.java
b/src/jalview/io/FileLoader.java
index
71d0e4a
..
6735a80
100755
(executable)
--- a/
src/jalview/io/FileLoader.java
+++ b/
src/jalview/io/FileLoader.java
@@
-104,7
+104,7
@@
public class FileLoader implements Runnable
this.protocol = protocol;
this.format = format;
this.protocol = protocol;
this.format = format;
- final Thread loader = new Thread(this, "LoadFileThread");
+ final Thread loader = new Thread(this, "LoadFile");
SwingUtilities.invokeLater(new Runnable()
{
SwingUtilities.invokeLater(new Runnable()
{
@@
-183,7
+183,7
@@
public class FileLoader implements Runnable
*/
protected AlignFrame _LoadFileWaitTillLoaded()
{
*/
protected AlignFrame _LoadFileWaitTillLoaded()
{
- Thread loader = new Thread(this, "LoadFileWithWaitingThread");
+ Thread loader = new Thread(this, "LoadFileWithWaiting");
loader.start();
while (loader.isAlive())
loader.start();
while (loader.isAlive())
diff --git
a/src/jalview/io/HtmlSvgOutput.java
b/src/jalview/io/HtmlSvgOutput.java
index
87be23e
..
7d6ae4e
100644
(file)
--- a/
src/jalview/io/HtmlSvgOutput.java
+++ b/
src/jalview/io/HtmlSvgOutput.java
@@
-67,7
+67,7
@@
public class HtmlSvgOutput extends HTMLOutput
e.printStackTrace();
return;
}
e.printStackTrace();
return;
}
- new Thread(this, "ExportSvgHTMLThread").start();
+ new Thread(this, "ExportSvgHTML").start();
}
public int printUnwrapped(int pwidth, int pheight, int pi,
}
public int printUnwrapped(int pwidth, int pheight, int pi,
diff --git
a/src/jalview/javascript/JSFunctionExec.java
b/src/jalview/javascript/JSFunctionExec.java
index
33da111
..
cfde4ae
100644
(file)
--- a/
src/jalview/javascript/JSFunctionExec.java
+++ b/
src/jalview/javascript/JSFunctionExec.java
@@
-249,7
+249,7
@@
public class JSFunctionExec implements Runnable
if (executor == null)
{
executor = new Thread(new JSFunctionExec(jvlite),
if (executor == null)
{
executor = new Thread(new JSFunctionExec(jvlite),
- "JavaScriptThread");
+ "JavaScript");
executor.start();
}
synchronized (jsExecQueue)
executor.start();
}
synchronized (jsExecQueue)
diff --git
a/src/jalview/util/AWTConsole.java
b/src/jalview/util/AWTConsole.java
index
be03591
..
8f45eaa
100644
(file)
--- a/
src/jalview/util/AWTConsole.java
+++ b/
src/jalview/util/AWTConsole.java
@@
-125,11
+125,11
@@
public class AWTConsole extends WindowAdapter
// Starting two seperate threads to read from the PipedInputStreams
//
// Starting two seperate threads to read from the PipedInputStreams
//
- reader = new Thread(this, "AWTConsoleReader1Thread");
+ reader = new Thread(this, "AWTConsoleReader1");
reader.setDaemon(true);
reader.start();
//
reader.setDaemon(true);
reader.start();
//
- reader2 = new Thread(this, "AWTConsoleReader2Thread");
+ reader2 = new Thread(this, "AWTConsoleReader2");
reader2.setDaemon(true);
reader2.start();
reader2.setDaemon(true);
reader2.start();
@@
-150,7
+150,7
@@
public class AWTConsole extends WindowAdapter
// We do it with a seperate Thread becasue we don't wan't to break a Thread
// used by the Console.
System.out.println("\nLets throw an error on this console");
// We do it with a seperate Thread becasue we don't wan't to break a Thread
// used by the Console.
System.out.println("\nLets throw an error on this console");
- errorThrower = new Thread(this, "AWTConsoleErrorLogThread");
+ errorThrower = new Thread(this, "AWTConsoleErrorLog");
errorThrower.setDaemon(true);
errorThrower.start();
}
errorThrower.setDaemon(true);
errorThrower.start();
}
diff --git
a/src/jalview/ws/DBRefFetcher.java
b/src/jalview/ws/DBRefFetcher.java
index
2b7c6df
..
c01b99c
100644
(file)
--- a/
src/jalview/ws/DBRefFetcher.java
+++ b/
src/jalview/ws/DBRefFetcher.java
@@
-267,7
+267,7
@@
public class DBRefFetcher implements Runnable
// TODO can we not simply write
// if (waitTillFinished) { run(); } else { new Thread(this).start(); }
// TODO can we not simply write
// if (waitTillFinished) { run(); } else { new Thread(this).start(); }
- Thread thread = new Thread(this, "FetchDBRefThread");
+ Thread thread = new Thread(this, "FetchDBRef");
thread.start();
running = true;
thread.start();
running = true;
diff --git
a/src/jalview/ws/DasSequenceFeatureFetcher.java
b/src/jalview/ws/DasSequenceFeatureFetcher.java
index
06d176e
..
21af021
100644
(file)
--- a/
src/jalview/ws/DasSequenceFeatureFetcher.java
+++ b/
src/jalview/ws/DasSequenceFeatureFetcher.java
@@
-213,7
+213,7
@@
public class DasSequenceFeatureFetcher
if (reply == JvOptionPane.YES_OPTION)
{
Thread thread = new Thread(new FetchDBRefs(),
if (reply == JvOptionPane.YES_OPTION)
{
Thread thread = new Thread(new FetchDBRefs(),
- "FetchDBReferenceManagerThread");
+ "FetchDBReferenceManager");
thread.start();
}
else
thread.start();
}
else
@@
-231,7
+231,7
@@
public class DasSequenceFeatureFetcher
private void _startFetching()
{
running = true;
private void _startFetching()
{
running = true;
- new Thread(new FetchSeqFeatures(), "FetchSeqFeaturesThread").start();
+ new Thread(new FetchSeqFeatures(), "FetchSeqFeatures").start();
}
class FetchSeqFeatures implements Runnable
}
class FetchSeqFeatures implements Runnable
diff --git
a/src/jalview/ws/jws2/Jws2Discoverer.java
b/src/jalview/ws/jws2/Jws2Discoverer.java
index
fe303f8
..
9bc8713
100644
(file)
--- a/
src/jalview/ws/jws2/Jws2Discoverer.java
+++ b/
src/jalview/ws/jws2/Jws2Discoverer.java
@@
-237,7
+237,7
@@
public class Jws2Discoverer implements Runnable, WSMenuEntryProviderI
}
qrys.add(squery);
}
qrys.add(squery);
- new Thread(squery, "JabaQueryThread").start();
+ new Thread(squery, "JabaQuery").start();
}
boolean finished = true;
do
}
boolean finished = true;
do
@@
-458,7
+458,7
@@
public class Jws2Discoverer implements Runnable, WSMenuEntryProviderI
changeSupport.firePropertyChange("services",
new Vector<Jws2Instance>(), services);
};
changeSupport.firePropertyChange("services",
new Vector<Jws2Instance>(), services);
};
- }, "LoadPreferredServiceThread").start();
+ }, "LoadPreferredService").start();
}
});
}
});