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CellCognition / cecog

A fast and cross-platform image analysis framework for fluorescence time-lapse microscopy and bioimage informatics.
https://cellcognition-project.org
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Don't write in input directory #173

Open jkh1 opened 10 years ago

jkh1 commented 10 years ago

Hi,

CellCognition shouldn't write to input image directories as these be read-only. The .pkl file with the data structure should instead be written in the selected output directory.

Cheers

J-K

sommerc commented 10 years ago

I am a bit confused. The structure file location is up to the user. For saving the structure file there are three options in the section "General":

Did CellCognition ignore your settings?

jkh1 commented 10 years ago

Hi Christoph,

I am a bit confused. The structure file location is up to the user. For saving the structure file there are three options in the section "General":

  • Image (input-) folder
  • analysis (output-) folder
  • arbitrary folder

I didn't pay attention to this setting. Sorry about that. Anyway, I think the default should be to write to the analysis folder.

Did CellCognition ignore your settings?

No but then it fails because plate directories haven't been created yet. So it should either create the plate subdirectory and put the structure file inside or put the structure file(s) in the top output directory itself, not a plate subdirectory. See attached screenshot.

Thanks

J-K

Dr Jean-Karim Heriche Cell Biology and Biophysics Unit European Molecular Biology Laboratory Meyerhofstrasse 1 69117 Heidelberg Germany

tel: +49 (0) 6221 387 8188