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JAL-3949 - refactor logging from jalview.bin.Cache to jalview.bin.Console
[jalview.git]
/
src
/
jalview
/
gui
/
StructureViewerBase.java
diff --git
a/src/jalview/gui/StructureViewerBase.java
b/src/jalview/gui/StructureViewerBase.java
index
30ecc80
..
8290dd9
100644
(file)
--- a/
src/jalview/gui/StructureViewerBase.java
+++ b/
src/jalview/gui/StructureViewerBase.java
@@
-47,6
+47,7
@@
import javax.swing.event.MenuListener;
import jalview.api.AlignmentViewPanel;
import jalview.bin.Cache;
import jalview.api.AlignmentViewPanel;
import jalview.bin.Cache;
+import jalview.bin.Console;
import jalview.datamodel.AlignmentI;
import jalview.datamodel.PDBEntry;
import jalview.datamodel.SequenceI;
import jalview.datamodel.AlignmentI;
import jalview.datamodel.PDBEntry;
import jalview.datamodel.SequenceI;
@@
-814,7
+815,7
@@
public abstract class StructureViewerBase extends GStructureViewer
{
sp.append("'" + alignPanel.getViewName() + "' ");
}
{
sp.append("'" + alignPanel.getViewName() + "' ");
}
- Cache.log.info("Couldn't align structures with the " + sp.toString()
+ Console.info("Couldn't align structures with the " + sp.toString()
+ "associated alignment panels.", e);
}
return reply;
+ "associated alignment panels.", e);
}
return reply;
@@
-1156,7
+1157,7
@@
public abstract class StructureViewerBase extends GStructureViewer
{
if (afclient.isValidReference(pdbid))
{
{
if (afclient.isValidReference(pdbid))
{
- pdbseq = afclient.getSequenceRecords(pdbid);
+ pdbseq = afclient.getSequenceRecords(pdbid,processingEntry.getRetrievalUrl());
} else {
if (processingEntry.hasRetrievalUrl())
{
} else {
if (processingEntry.hasRetrievalUrl())
{