http://imagej.273.s1.nabble.com/FW-Directionality-plugin-getting-Directionality-analysis-output-values-tp5011976p5012016.html
not automatically import any classes. Consequently, scripts written for ImageJ
> without adding the proper imports. "
> Thanks Jean-Yves,
>
> I tried running the first macro directly and got the errors listed below -
> something to do with defining the WindowManager..? Is there something else
> I need to install for this to work?
>
> Traceback (most recent call last):
> File
> "C:\Users\jros013\Desktop\Fiji.app\macros\Directionality_standard_.py",
> line 7, in <module>
> dir.setImagePlus(WindowManager.getCurrentImage())
> NameError: name 'WindowManager' is not defined
>
> at
> org.python.core.PyException.fillInStackTrace(PyException.java:70)
> at java.lang.Throwable.<init>(Throwable.java:181)
> at java.lang.Exception.<init>(Exception.java:29)
> at java.lang.RuntimeException.<init>(RuntimeException.java:32)
> at org.python.core.PyException.<init>(PyException.java:46)
> at org.python.core.PyException.<init>(PyException.java:43)
> at org.python.core.PyException.<init>(PyException.java:61)
> at org.python.core.Py.NameError(Py.java:260)
> at org.python.core.PyFrame.getname(PyFrame.java:257)
> at
> org.python.pycode._pyx10.f$0(C:\Users\jros013\Desktop\Fiji.app\macros\Directionality_standard_.py:35)
> at
> org.python.pycode._pyx10.call_function(C:\Users\jros013\Desktop\Fiji.app\macros\Directionality_standard_.py)
> at org.python.core.PyTableCode.call(PyTableCode.java:165)
> at org.python.core.PyCode.call(PyCode.java:18)
> at org.python.core.Py.runCode(Py.java:1275)
> at
> org.scijava.plugins.scripting.jython.JythonScriptEngine.eval(JythonScriptEngine.java:76)
> 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$Worker.runTask(ThreadPoolExecutor.java:886)
> at
> java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:908)
> at java.lang.Thread.run(Thread.java:662)
>
> If you have any further suggestions, I'd be very grateful. I've downloaded
> your example images to use to test the macros.
>
> Thanks to Herbie also for sending me the links to some interesting papers.
>
> Kind regards,
>
> Jacqui
>
> Jacqueline Ross
> Biomedical Imaging Microscopist
> Biomedical Imaging Research Unit
> School of Medical Sciences
> Faculty of Medical & Health Sciences
> The University of Auckland
> Private Bag 92019
> Auckland 1142, NEW ZEALAND
>
> Tel: 64 9 923 7438
> Fax: 64 9 373 7484
>
>
http://www.fmhs.auckland.ac.nz/sms/biru/>
> -----Original Message-----
> From: ImageJ Interest Group [mailto:
[hidden email]] On Behalf Of
> Jean-Yves Tinevez
> Sent: Monday, 16 March 2015 9:29 p.m.
> To:
[hidden email]
> Subject: Re: FW: Directionality plugin - getting Directionality analysis
> output values
>
> Hi Jaqui,The Python script you point to should do the work. But you don't
> have to run it after running the plugin. The python script itself runs the
> plugin. It would be the base on which you could build something that would
> allow you to process the 2000 images in batch. The 2nd plugin on the wiki
> page will show you how to get the analysis results.You mention that you get
> errors. Would you care to copy/paste them here, with a description on how
> they occur? But first, try to run it as mention above.Bestjy
>
>
>
> --
> View this message in context:
>
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