Re:Exception Error on 'MorphologicalSegmentation' Plugin Execution from Macro

Posted by GP on Jun 27, 2017; 10:43pm
URL: http://imagej.273.s1.nabble.com/Re-Exception-Error-on-MorphologicalSegmentation-Plugin-Execution-from-Macro-tp5018975.html

Hie!

On normal execution of 'Morphological Segmentation' plugin from 'MorphoLibJ' works fine but on execution via macro with exact same settings leads to the following two exception error windows:

1) Exception Error Window:
(Fiji Is Just) ImageJ 2.0.0-rc-61/1.51p; Java 1.8.0_66 [64-bit]; Mac OS X 10.12.5; 62MB of 2854MB (2%)
 
java.lang.reflect.InvocationTargetException
        at sun.reflect.NativeMethodAccessorImpl.invoke0(Native Method)
        at sun.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:62)
        at sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:43)
        at java.lang.reflect.Method.invoke(Method.java:497)
        at ij.macro.Functions.call(Functions.java:4131)
        at ij.macro.Functions.getStringFunction(Functions.java:272)
        at ij.macro.Interpreter.getStringTerm(Interpreter.java:1307)
        at ij.macro.Interpreter.getString(Interpreter.java:1286)
        at ij.macro.Interpreter.doStatement(Interpreter.java:294)
        at ij.macro.Interpreter.doStatements(Interpreter.java:231)
        at ij.macro.Interpreter.run(Interpreter.java:115)
        at ij.macro.Interpreter.run(Interpreter.java:86)
        at ij.macro.Interpreter.run(Interpreter.java:97)
        at ij.plugin.Macro_Runner.runMacro(Macro_Runner.java:155)
        at ij.IJ.runMacro(IJ.java:134)
        at ij.IJ.runMacro(IJ.java:123)
        at net.imagej.legacy.IJ1Helper$3.call(IJ1Helper.java:1052)
        at net.imagej.legacy.IJ1Helper$3.call(IJ1Helper.java:1048)
        at net.imagej.legacy.IJ1Helper.runMacroFriendly(IJ1Helper.java:999)
        at net.imagej.legacy.IJ1Helper.runMacro(IJ1Helper.java:1048)
        at net.imagej.legacy.plugin.IJ1MacroEngine.eval(IJ1MacroEngine.java:136)
        at org.scijava.script.ScriptModule.run(ScriptModule.java:159)
        at org.scijava.module.ModuleRunner.run(ModuleRunner.java:167)
        at org.scijava.module.ModuleRunner.call(ModuleRunner.java:126)
        at org.scijava.module.ModuleRunner.call(ModuleRunner.java:65)
        at org.scijava.thread.DefaultThreadService$3.call(DefaultThreadService.java:237)
        at java.util.concurrent.FutureTask.run(FutureTask.java:266)
        at java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1142)
        at java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:617)
        at java.lang.Thread.run(Thread.java:745)
Caused by: java.lang.NullPointerException
        at inra.ijpb.plugins.MorphologicalSegmentation$CustomWindow.getResultDisplayOption(MorphologicalSegmentation.java:1450)
        at inra.ijpb.plugins.MorphologicalSegmentation.createResultImage(MorphologicalSegmentation.java:1763)
        ... 30 more


2) Exception Error Window:
(Fiji Is Just) ImageJ 2.0.0-rc-61/1.51p; Java 1.8.0_66 [64-bit]; Mac OS X 10.12.5; 61MB of 2854MB (2%)
 
java.lang.reflect.InvocationTargetException
        at sun.reflect.NativeMethodAccessorImpl.invoke0(Native Method)
        at sun.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:62)
        at sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:43)
        at java.lang.reflect.Method.invoke(Method.java:497)
        at ij.macro.Functions.call(Functions.java:4131)
        at ij.macro.Functions.getStringFunction(Functions.java:272)
        at ij.macro.Interpreter.getStringTerm(Interpreter.java:1307)
        at ij.macro.Interpreter.getString(Interpreter.java:1286)
        at ij.macro.Interpreter.doStatement(Interpreter.java:294)
        at ij.macro.Interpreter.doStatements(Interpreter.java:231)
        at ij.macro.Interpreter.run(Interpreter.java:115)
        at ij.macro.Interpreter.run(Interpreter.java:86)
        at ij.macro.Interpreter.run(Interpreter.java:97)
        at ij.plugin.Macro_Runner.runMacro(Macro_Runner.java:155)
        at ij.IJ.runMacro(IJ.java:134)
        at ij.IJ.runMacro(IJ.java:123)
        at net.imagej.legacy.IJ1Helper$3.call(IJ1Helper.java:1052)
        at net.imagej.legacy.IJ1Helper$3.call(IJ1Helper.java:1048)
        at net.imagej.legacy.IJ1Helper.runMacroFriendly(IJ1Helper.java:999)
        at net.imagej.legacy.IJ1Helper.runMacro(IJ1Helper.java:1048)
        at net.imagej.legacy.plugin.IJ1MacroEngine.eval(IJ1MacroEngine.java:136)
        at org.scijava.script.ScriptModule.run(ScriptModule.java:159)
        at org.scijava.module.ModuleRunner.run(ModuleRunner.java:167)
        at org.scijava.module.ModuleRunner.call(ModuleRunner.java:126)
        at org.scijava.module.ModuleRunner.call(ModuleRunner.java:65)
        at org.scijava.thread.DefaultThreadService$3.call(DefaultThreadService.java:237)
        at java.util.concurrent.FutureTask.run(FutureTask.java:266)
        at java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1142)
        at java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:617)
        at java.lang.Thread.run(Thread.java:745)
Caused by: java.lang.NullPointerException
        at inra.ijpb.plugins.MorphologicalSegmentation$CustomWindow.setResultDisplayOption(MorphologicalSegmentation.java:1441)
        at inra.ijpb.plugins.MorphologicalSegmentation.setDisplayFormat(MorphologicalSegmentation.java:1829)
        ... 30 more


And following message is displayed in the log window:
Error: Morphological Segmentation GUI not detected

Macro code used is as follows:

run("Morphological Segmentation");
call("inra.ijpb.plugins.MorphologicalSegmentation.setInputImageType", "object");
call("inra.ijpb.plugins.MorphologicalSegmentation.setGradientRadius", "1");
call("inra.ijpb.plugins.MorphologicalSegmentation.segment", "tolerance=10", "calculateDams=true", "connectivity=4");
call("inra.ijpb.plugins.MorphologicalSegmentation.setDisplayFormat", "Catchment basins");
call("inra.ijpb.plugins.MorphologicalSegmentation.createResultImage");

Thank you so much for your help.
Best Regards,