From f077b4e473e826741eecda57a31a534aadd64651 Mon Sep 17 00:00:00 2001
From: ctrebeau <ctrebeau@pasteur.fr>
Date: Wed, 14 Oct 2020 11:35:12 +0200
Subject: [PATCH] Addition of slight dilation in z dimension to the amplitude
mask
---
...udeBackgroundForeGroundClassification.java | 32 ++++++++++---------
1 file changed, 17 insertions(+), 15 deletions(-)
diff --git a/src/main/java/fr/pasteur/ida/zellige/utils/AmplitudeBackgroundForeGroundClassification.java b/src/main/java/fr/pasteur/ida/zellige/utils/AmplitudeBackgroundForeGroundClassification.java
index 42d92821..f5662990 100644
--- a/src/main/java/fr/pasteur/ida/zellige/utils/AmplitudeBackgroundForeGroundClassification.java
+++ b/src/main/java/fr/pasteur/ida/zellige/utils/AmplitudeBackgroundForeGroundClassification.java
@@ -164,6 +164,21 @@ public class AmplitudeBackgroundForeGroundClassification
run();
}
+ public static < T extends RealType< T > & NativeType< T > > boolean isForeground( IntervalView< T > intervalView, double sizePercent )
+ {
+ double sum = 0;
+ Cursor< T > cursor = intervalView.cursor();
+ while ( cursor.hasNext() )
+ {
+ cursor.fwd();
+ if ( cursor.get().getRealDouble() != 0 )
+ {
+ sum++;
+ }
+ }
+ return ( sum ) > ( intervalView.dimension( 0 ) * intervalView.dimension( 1 ) * sizePercent );
+ }
+
public void run()
{
long X = source.dimension( 0 );
@@ -179,22 +194,9 @@ public class AmplitudeBackgroundForeGroundClassification
int foreground = isForeground( viewSource, sizePercent ) ? 1 : 0;
viewOutput.forEach( pixel -> pixel.setReal( foreground ) );
}
+ // Slight dilatation in z dimension
+ Utils.gaussConvolution( output.copy(), output, new double[]{ 0, 0, 1 } );
}
- public static < T extends RealType< T > & NativeType< T > > boolean isForeground( IntervalView< T > intervalView, double sizePercent )
- {
- double sum = 0;
- Cursor< T > cursor = intervalView.cursor();
- while ( cursor.hasNext() )
- {
- cursor.fwd();
- if ( cursor.get().getRealDouble() != 0 )
- {
- sum++;
- }
- }
- return ( sum ) > ( intervalView.dimension( 0 ) * intervalView.dimension( 1 ) * sizePercent );
- }
-
public Img< FloatType > getOutput()
{
--
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