BodenmillerGroup / ImcSegmentationPipeline

A pixel classification based multiplexed image segmentation pipeline
https://bodenmillergroup.github.io/ImcSegmentationPipeline/
MIT License
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Ilastik error 'failed to generate export files' #55

Closed rachel662 closed 2 years ago

rachel662 commented 3 years ago

Hi there,

With the example data I get an error saying ilastik failed to generate export files, would anyone be able to help me solve this issue

kind regards Rachel

votti commented 3 years ago

Hi Rachel, Can you attach a screenshot of the problem as well as the Ilastik/Cellprofiler version?

Best, Vito

rachel662 commented 3 years ago

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Hi, I attach the image of the error I get I have the latest versions of ilastik and cellprofiler (v4) for windows 10

votti commented 3 years ago

Sorry for this, this seems very odd. So the 'latest' Ilastik verison mean the latest stable, 1.3.3?

Are you sure that all the settings are right?

    - Export Settings -> Source: Probabilities -> Choose Export Image Settings:
        - Convert to datatype: Unsigned Integer 16 bit
        - Renormalize: check
        - Format: Tiff

(Format needs to be Tiff, not Tiff Series or anything else.)

I guess I need to hunt down a Windows machine to try to reproduce this.

rachel662 commented 3 years ago

Hi there, Yeah my ilastik version is 1.3.3

rachel662 commented 3 years ago

Hi there again , I've had this problem with another dataset also, as well as the example dataset, yet another dataset I tried has been okay Do you know why this is happening?

nilseling commented 2 years ago

Closing since I'm not sure this issue still persists - please open if so