default with first channel selected

Author: gletort

src/main/java/fiji/plugin/appose/cellpose/cp3/CellposeAppose.java

@@ -166,6 +166,8 @@ public void initialize()
 		final MutableModuleItem< String > cytoItem =
 				getInfo().getMutableInput( "cyto_channel", String.class );
 		cytoItem.setChoices( channelChoices );
+		cytoItem.setDefaultValue( "1" ); // Default, cyto channel selected only
+		 setInput( "cyto_channel", channelChoices.get(0)) ;
 
 		final MutableModuleItem< String > nucItem =
 				getInfo().getMutableInput( "nuclei_channel", String.class );

src/main/java/fiji/plugin/appose/cellpose/cp4/CellposeSAMAppose.java

@@ -158,6 +158,8 @@ public void initialize()
 		final MutableModuleItem< String > c0Item =
 				getInfo().getMutableInput( "chan0", String.class );
 		c0Item.setChoices( channelChoices );
+		c0Item.setDefaultValue( "1" ); // By default, only first channel selected
+		setInput( "chan0", "1") ;
 
 		final MutableModuleItem< String > c1Item =
 				getInfo().getMutableInput( "chan1", String.class );

src/test/java/fiji/plugin/appose/cellpose/TestCellPoseAppose.java

@@ -106,6 +106,31 @@ public void defaultRunCP3() throws Exception
 		}
 	}
 
+	@Test
+	public void runCP3ModelNuclei() throws Exception
+	{
+		try 
+		{
+			final ImagePlus imp = IJ.openImage( "http://imagej.net/images/blobs.gif" );
+			// Get all default parameters
+			final Cellpose3Parameters paramsCP3 = Cellpose3Parameters.builder()
+					.model( Cellpose3BuiltinModels.NUCLEI )
+			.build();
+			// Run it
+			final ImagePlus[] outputCP3 = Cellpose.cellpose3( imp, paramsCP3 );
+			// Get the label image results
+			final ImagePlus labelsCP3 = outputCP3[ 0 ];
+			// Check the image statistics if it looks like a successfull run
+			ImageStatistics stats = labelsCP3.getStatistics();
+			assertFalse( stats.max <= 0, "CP3: No labels were found in blob image, with nuclei model" );
+			assertTrue( stats.max > 50, "CP3: Not enough labels were found in blob image, with nuclei model" );
+		}
+		catch (Exception e)
+		{
+			throw e;
+		}
+	}
+	
 	@Test
 	public void runCP3_Image3DMultiChannels() throws Exception
 	{
@@ -156,7 +181,7 @@ public void runCP3_ImageTimeMultiChannels() throws Exception
 						stack,
 						1, stack.getNChannels(),   
 						3, 3,      
-						1, stack.getNFrames()     
+						1, 6     
 			);
 			// Get all default parameters
 			final Cellpose3Parameters paramsCP3 = Cellpose3Parameters.builder()