Re: some weka segmentation issues

Posted by Aryeh Weiss on
URL: http://imagej.273.s1.nabble.com/Error-cant-get-around-Expected-tp3684050p3684061.html

On 6/30/11 11:30 PM, Ignacio Arganda-Carreras wrote:
> Hello again Aryeh,
>
> I just fixed the second problem you mentioned, which was indeed a bug.
> You can find the new version of the plugin by updating Fiji.
>
> Regarding the first issue, it looks like a problem from the way ImageJ
> loads the classes from the macros. Still working on it.


Hi Ignacio,

Thank you for your attention to this. I updated Fiji and ran the new
Weka. However, now I am getting and error in updating the feature stack.
Here is the log output:

Creating feature stack...
Updating features of slice number 1...
Error when updating feature stack.
Feature stack was not updated.
The traning did not finish.

This appears to be unrelated to the macro, since it occurred when I ran
Weka standalone.

Best regards,
--aryeh

> On Wed, Jun 29, 2011 at 5:36 PM, Ignacio Arganda-Carreras
> <[hidden email] <mailto:[hidden email]>> wrote:
>
>     Very interesting, Aryeh. I guess it's a problem with my
>     multi-threading. Let me have a look and i will be back to you.
>     Thanks for reporting!
>
>     ignacio
>
>
>     On Wed, Jun 29, 2011 at 3:28 PM, Aryeh Weiss <[hidden email]
>     <mailto:[hidden email]>> wrote:
>
>         I am starting to use the Advanced Weka Segmentation plugins,
>         which are proving to be very interesting.
>
>         Two issues have come up when using them in macros.
>
>         1. there is some timing issue. Consider the following code:
>
>         run("Advanced Weka Segmentation");
>
>         wait(3000);  //Without this wait statement, the following
>         statements will fail and return segmentation faults.
>
>         call("trainableSegmentation.__Weka_Segmentation.setFeature",
>         "Variance=true");
>         call("trainableSegmentation.__Weka_Segmentation.setFeature",
>         "Mean=true");
>         call("trainableSegmentation.__Weka_Segmentation.setFeature",
>         "Maximum=true");
>         call("trainableSegmentation.__Weka_Segmentation.setFeature",
>         "Gabor=true");
>
>         2. If I do the following:
>
>         call("trainableSegmentation.__Weka_Segmentation.__trainClassifier");
>
>         then the segmentation will occur. However, a number buttons will
>         be grayed out. I will lose "Get Probability", "Apply
>         Classifier", and "Save Classifier".
>
>         On the other hand, if I do the trainClassifier by manually
>         clickingon "Train Classifier", then it does the segmentation and
>         leaves all the other things functional. Yet the macro recorder
>         records that very command
>         call("trainableSegmentation.__Weka_Segmentation.__trainClassifier");
>         when I do it by hand.
>
>         Since I am trying to automate my procedures as much as possible,
>         any help with this second issue would be greatly appreciated.
>
>         --aryeh
>         --
>

--
Aryeh Weiss
School of Engineering
Bar Ilan University
Ramat Gan 52900 Israel

Ph:  972-3-5317638
FAX: [phone]