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3253-omnibus save
[jalview.git]
/
src
/
jalview
/
bin
/
JalviewAppLoader.java
diff --git
a/src/jalview/bin/JalviewAppLoader.java
b/src/jalview/bin/JalviewAppLoader.java
index
8fe2cdc
..
834a30f
100644
(file)
--- a/
src/jalview/bin/JalviewAppLoader.java
+++ b/
src/jalview/bin/JalviewAppLoader.java
@@
-1370,7
+1370,8
@@
public class JalviewAppLoader
return true;
}
return true;
}
- public String getFeaturesFrom(AlignFrameI alf, String format)
+ public String getFeaturesFrom(AlignFrameI alf, String format,
+ boolean includeNonpositionsFeatures, boolean includeComplement)
{
AlignFrame f = ((AlignFrame) alf);
{
AlignFrame f = ((AlignFrame) alf);
@@
-1380,13
+1381,15
@@
public class JalviewAppLoader
{
features = formatter.printJalviewFormat(
f.getViewport().getAlignment().getSequencesArray(),
{
features = formatter.printJalviewFormat(
f.getViewport().getAlignment().getSequencesArray(),
- f.alignPanel.getFeatureRenderer(), true);
+ f.alignPanel.getFeatureRenderer(),
+ includeNonpositionsFeatures, includeComplement);
}
else
{
features = formatter.printGffFormat(
f.getViewport().getAlignment().getSequencesArray(),
}
else
{
features = formatter.printGffFormat(
f.getViewport().getAlignment().getSequencesArray(),
- f.alignPanel.getFeatureRenderer(), true);
+ f.alignPanel.getFeatureRenderer(),
+ includeNonpositionsFeatures, includeComplement);
}
if (features == null)
}
if (features == null)