CellProfiler/CellProfiler — Issue #72: JIRA [IMG-1446] .h5 file created with compiled CP (v10997) ilastik crashes compiled CP
Author: thouis
Created: 2011-11-23 20:49:50+00:00
State: open
Labels: current

The attached .h5 file was created for the malaria project. It was created using the 64-bit ilastik packaged with the CP release and it kills the CP release in ClassifyPixels. No warning is given, CP just crashes outright.
If you need to re-create the .h5 file, the ilastik project file is located here:https://imageweb.broadinstitute.org/imaging/analysis/2010_08_21_Malaria_MartiLab_MatthiasMarti_HSPH/2011_05_13/Malaria.ilpusing the images in Day* at //iodine/imaging_analysis/2010_08_21_Malaria_MartiLab_MatthiasMarti_HSPH/2011_05_13

Original reporter: mbray
Jira link: https://jira.broadinstitute.org/browse/IMG-1446
(Original JIRA has attachments.)
Fix version: Current
Assignee: leek

**Comment from leek on Fri, 17 Jun 2011 15:38:27 -0400:**
I verified that CP crashes in classifypixels. It does so in the Vigra random forest library. I'm not sure exactly what is causing this, but it seems to have something to do with the small images used to train. Ilastik works in blocks and it pads the blocks with a number of pixels proportional to the size of the filter. I'm thinking that you need a large filter size and you have small images, so it's possible the padding is larger than the image which might cause something bad to happen. In any case, I trained using the full images and classifypixels did not crash on the classifier I saved.