Executing macro from commandline (Windows XP)

[Andy]

Dear all, having recorded, edited, tested a macro under LINUX I was happy, because it works fine. Also the GUI-less mode (starting imagej -b macro.ijm from terminal and falling back to command line) works as is wished. PROBLEM now: Same procedure under WINDOWS XP doesn't fall back to the command line, but remain hanging in ImageJ's GUI. There are no error messages. Thanks for reaching a helpfull hand. Andy

[dscho]

Hi Andy,

On Tue, 19 Feb 2013, Andy wrote:

> Dear all,having recorded, edited, tested a macro under LINUX I was
> happy, because it works fine. Also the GUI-less mode (starting imagej -b
> macro.ijm from terminal *and falling back to command line*) works as is
> wished.PROBLEM now:Same procedure under WINDOWS XP doesn't fall back to
> the command line, but remain hanging in ImageJ's GUI.There are no error
> messages.Thanks for reaching a helpfull hand.Andy

You could investigate by installing the JDK and inspecting the thread dump
using jvisualvm.

Or simply tell ImageJ to quit at the end of the macro:

        run("Quit");

Ciao,
Johannes

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[Andy]

Danke for quick reply !

 

1.

 

The "run("Quit");"-option did not have any effect at all, nor under WINDOWS,

nor under LINUX.

 

2.

 

My nightly dirty solution was to shoot ImageJ/Java after the macro has finished

it's work by windowing like "taskkill /F /IN javaw.exe".

 

3.

 

Thanks for the JDK-Tip !  This will be my next approach to create clean code.

I'll keep you informed about my creatures.

 

 

Andy

 

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Andreas eMail

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Am 19.02.2013, 15:28 Uhr, schrieb "Johannes Schindelin [via ImageJ]" <[hidden email]>:

Hi Andy,

On Tue, 19 Feb 2013, Andy wrote:

> Dear all,having recorded, edited, tested a macro under LINUX I was
> happy, because it works fine. Also the GUI-less mode (starting imagej -b
> macro.ijm from terminal *and falling back to command line*) works as is
> wished.PROBLEM now:Same procedure under WINDOWS XP doesn't fall back to
> the command line, but remain hanging in ImageJ's GUI.There are no error
> messages.Thanks for reaching a helpfull hand.Andy

You could investigate by installing the JDK and inspecting the thread dump
using jvisualvm.

Or simply tell ImageJ to quit at the end of the macro:

        run("Quit");

Ciao,
Johannes

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[Rasband, Wayne (NIH/NIMH) [E]]

On Feb 19, 2013, at 6:43 AM, Andy wrote:

> Dear all,having recorded, edited, tested a macro under LINUX I was happy,
> because it works fine. Also the GUI-less mode (starting imagej -b macro.ijm
> from terminal *and falling back to command line*) works as is wished.PROBLEM
> now:Same procedure under WINDOWS XP doesn't fall back to the command line,
> but remain hanging in ImageJ's GUI.There are no error messages.Thanks for
> reaching a helpfull hand.Andy

This appears to be a problem with the ImageJ Windows launcher (ImageJ.exe). You can avoid the problem by using the 'java' command instead of the 'imagej' command, for example by using

   jre\bin\java -jar ij.jar -batch macro.ijm

This is essentially the same command you would use on Linux. It assumes that the current directory is the ImageJ folder and that there is a macro named 'macro.ijm' in the ImageJ\macros folder.

-wayne

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[Andy]

Good morning Wayne !

 

1.

 

Many thanks for your support - it helped to 150%, because it eliminated another issue,

which I didn't indicate here: The File.delete(...) did not work before. Now it works too.

 

2.

 

Now the macro runs, cleans up temporary files, closes, leaves ImageJ/Java by running "Quit".

No more Redmondish "taskkill" or "del" necessary.

 

Thanks, Wayne

thanks Johannes !

 

Andy

 

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Am 20.02.2013, 16:28 Uhr, schrieb "Rasband, Wayne (NIH/NIMH) [E] [via ImageJ]" <[hidden email]>:

On Feb 19, 2013, at 6:43 AM, Andy wrote:

> Dear all,having recorded, edited, tested a macro under LINUX I was happy,
> because it works fine. Also the GUI-less mode (starting imagej -b macro.ijm
> from terminal *and falling back to command line*) works as is wished.PROBLEM
> now:Same procedure under WINDOWS XP doesn't fall back to the command line,
> but remain hanging in ImageJ's GUI.There are no error messages.Thanks for
> reaching a helpfull hand.Andy

This appears to be a problem with the ImageJ Windows launcher (ImageJ.exe). You can avoid the problem by using the 'java' command instead of the 'imagej' command, for example by using

   jre\bin\java -jar ij.jar -batch macro.ijm

This is essentially the same command you would use on Linux. It assumes that the current directory is the ImageJ folder and that there is a macro named 'macro.ijm' in the ImageJ\macros folder.

-wayne

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