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JAL-4407 don't transfer 'local' settings - leave as default 3d-structure annotation...
[jalview.git]
/
src
/
jalview
/
gui
/
structurechooser
/
ThreeDBStructureChooserQuerySource.java
diff --git
a/src/jalview/gui/structurechooser/ThreeDBStructureChooserQuerySource.java
b/src/jalview/gui/structurechooser/ThreeDBStructureChooserQuerySource.java
index
8b4258f
..
76ef85f
100644
(file)
--- a/
src/jalview/gui/structurechooser/ThreeDBStructureChooserQuerySource.java
+++ b/
src/jalview/gui/structurechooser/ThreeDBStructureChooserQuerySource.java
@@
-310,7
+310,7
@@
public class ThreeDBStructureChooserQuerySource
&& tdBeaconsFilters.contains(fieldToFilterBy);
}
&& tdBeaconsFilters.contains(fieldToFilterBy);
}
- private String remove_prefix(String fieldToFilterBy)
+ protected String remove_prefix(String fieldToFilterBy)
{
if (tdBeaconsFilters != null
&& tdBeaconsFilters.contains(fieldToFilterBy)
{
if (tdBeaconsFilters != null
&& tdBeaconsFilters.contains(fieldToFilterBy)
@@
-453,7
+453,10
@@
public class ThreeDBStructureChooserQuerySource
pdbEntry.setRetrievalUrl(urlStr);
}
pdbEntry.setProvider(typeColumn);
pdbEntry.setRetrievalUrl(urlStr);
}
pdbEntry.setProvider(typeColumn);
- pdbEntry.setProviderPage(modelPage);
+ if (modelPage != null)
+ {
+ pdbEntry.setProviderPage(modelPage);
+ }
selectedSeq.getDatasetSequence().addPDBId(pdbEntry);
}
pdbEntriesToView[count++] = pdbEntry;
selectedSeq.getDatasetSequence().addPDBId(pdbEntry);
}
pdbEntriesToView[count++] = pdbEntry;
@@
-546,6
+549,11
@@
public class ThreeDBStructureChooserQuerySource
try
{
resultList = pdbquery.executePDBFTSRestRequest(pdbRequest);
try
{
resultList = pdbquery.executePDBFTSRestRequest(pdbRequest);
+ if (resultList.getNumberOfItemsFound() == 0)
+ {
+ Console.info("Unexpectedly returned no results for pdbe query: "
+ + pdb_Query);
+ }
results.add(resultList);
lastPdbRequest = pdbRequest;
} catch (Exception ex)
results.add(resultList);
lastPdbRequest = pdbRequest;
} catch (Exception ex)
@@
-579,7
+587,7
@@
public class ThreeDBStructureChooserQuerySource
{
if (!hasPdbResp)
{
{
if (!hasPdbResp)
{
- System.out.println(
+ jalview.bin.Console.outPrintln(
"Warning: seems like we couldn't get to the PDBe search interface.");
}
else
"Warning: seems like we couldn't get to the PDBe search interface.");
}
else