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JAL-4366 compute coverage on each side of the pairwise alignment
[jalview.git]
/
src
/
jalview
/
appletgui
/
APopupMenu.java
diff --git
a/src/jalview/appletgui/APopupMenu.java
b/src/jalview/appletgui/APopupMenu.java
index
80db11d
..
300167f
100644
(file)
--- a/
src/jalview/appletgui/APopupMenu.java
+++ b/
src/jalview/appletgui/APopupMenu.java
@@
-393,14
+393,14
@@
public class APopupMenu extends java.awt.PopupMenu
urlLink = new UrlLink(link);
} catch (Exception foo)
{
urlLink = new UrlLink(link);
} catch (Exception foo)
{
- System.err.println("Exception for URLLink '" + link + "': "
- + foo.getMessage());
+ jalview.bin.Console.errPrintln("Exception for URLLink '" + link
+ + "': " + foo.getMessage());
continue;
}
if (!urlLink.isValid())
{
continue;
}
if (!urlLink.isValid())
{
- System.err.println(urlLink.getInvalidMessage());
+ jalview.bin.Console.errPrintln(urlLink.getInvalidMessage());
continue;
}
continue;
}
@@
-835,8
+835,8
@@
public class APopupMenu extends java.awt.PopupMenu
if (start <= end)
{
seqs.add(sg.getSequenceAt(i));
if (start <= end)
{
seqs.add(sg.getSequenceAt(i));
- features.add(new SequenceFeature(null, null, start, end,
- "Jalview"));
+ features.add(
+ new SequenceFeature(null, null, start, end, "Jalview"));
}
}
}
}
@@
-945,8
+945,8
@@
public class APopupMenu extends java.awt.PopupMenu
}
else
{
}
else
{
- new mc_view.AppletPDBViewer(entry, new SequenceI[] { seq }, null, ap,
- DataSourceType.URL);
+ new mc_view.AppletPDBViewer(entry, new SequenceI[] { seq }, null,
+ ap, DataSourceType.URL);
}
}
}
}
@@
-1072,8
+1072,8
@@
public class APopupMenu extends java.awt.PopupMenu
hydrophobicityColour
.setName(JalviewColourScheme.Hydrophobic.toString());
hydrophobicityColour.addItemListener(this);
hydrophobicityColour
.setName(JalviewColourScheme.Hydrophobic.toString());
hydrophobicityColour.addItemListener(this);
- helixColour.setLabel(MessageManager
- .getString("label.colourScheme_helixpropensity"));
+ helixColour.setLabel(
+ MessageManager.getString("label.colourScheme_helixpropensity"));
helixColour.setName(JalviewColourScheme.Helix.toString());
helixColour.addItemListener(this);
strandColour.setLabel(MessageManager
helixColour.setName(JalviewColourScheme.Helix.toString());
helixColour.addItemListener(this);
strandColour.setLabel(MessageManager