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Bugzilla – Bug 958 |
Gray Morphology throws exception in Batch Mode |
Last modified: 2014-11-12 08:12:01 CST |
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NOTICE! This is a static HTML version of a legacy Fiji BugZilla bug. The Fiji project now uses GitHub Issues for issue tracking. Please file all new issues there. |
| Gray Morphology throws exception in Batch Mode | |
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The following example macro script throws an exception on my Mac. The exception is copied below. myImage = File.openDialog("Choose Image"); setBatchMode(true); open(myImage); run("Gray Morphology", "radius=1 type=circle operator=erode"); setBatchMode(false); Here is the exception: (Fiji Is Just) ImageJ 2.0.0-rc-15/1.49k; Java 1.6.0_65 [64-bit]; Mac OS X 10.9.5; 30MB of 4283MB (<1%) java.lang.NullPointerException at GrayMorphology_.setup(GrayMorphology_.java:89) at ij.plugin.filter.PlugInFilterRunner.<init>(PlugInFilterRunner.java:47) at ij.IJ.runUserPlugIn(IJ.java:204) at ij.IJ.runPlugIn(IJ.java:166) at ij.Executer.runCommand(Executer.java:131) at ij.Executer.run(Executer.java:64) at ij.IJ.run(IJ.java:272) at ij.macro.Functions.doRun(Functions.java:591) at ij.macro.Functions.doFunction(Functions.java:89) at ij.macro.Interpreter.doStatement(Interpreter.java:226) at ij.macro.Interpreter.doStatements(Interpreter.java:214) at ij.macro.Interpreter.run(Interpreter.java:111) at ij.macro.Interpreter.run(Interpreter.java:81) at ij.macro.Interpreter.run(Interpreter.java:92) at ij.plugin.Macro_Runner.runMacro(Macro_Runner.java:153) at ij.IJ.runMacro(IJ.java:119) at ij.IJ.runMacro(IJ.java:108) at net.imagej.legacy.IJ1Helper.runMacro(IJ1Helper.java:782) at net.imagej.legacy.plugin.IJ1MacroEngine.eval(IJ1MacroEngine.java:116) at net.imagej.legacy.plugin.IJ1MacroEngine.eval(IJ1MacroEngine.java:156) at org.scijava.script.ScriptModule.run(ScriptModule.java:175) 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$2.call(DefaultThreadService.java:164) at java.util.concurrent.FutureTask$Sync.innerRun(FutureTask.java:303) at java.util.concurrent.FutureTask.run(FutureTask.java:138) at java.util.concurrent.ThreadPoolExecutor$Worker.runTask(ThreadPoolExecutor.java:895) at java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:918) at java.lang.Thread.run(Thread.java:695) Information about your version of Java: os.arch => x86_64 os.name => Mac OS X os.version => 10.9.5 java.version => 1.6.0_65 java.vendor => Apple Inc. java.runtime.name => Java(TM) SE Runtime Environment java.runtime.version => 1.6.0_65-b14-462-11M4609 java.vm.name => Java HotSpot(TM) 64-Bit Server VM java.vm.version => 20.65-b04-462 java.vm.vendor => Apple Inc. java.vm.info => mixed mode java.awt.graphicsenv => apple.awt.CGraphicsEnvironment java.specification.name => Java Platform API Specification java.specification.version => 1.6 sun.cpu.endian => little sun.desktop => null file.separator => / The up-to-date check says: REMIND_LATER Information relevant to JAVA_HOME related problems: JAVA_HOME is set to: null imagej.dir => /Users/jameskrom/Applications/Fiji/Fiji.app Information about the version of each plugin: Activated update sites: ImageJ: http://update.imagej.net/ (last check:20141110001443) Fiji: http://fiji.sc/update/ (last check:20141110105222)