Deconvolving with image ops


When I try to deconvolve with the Image Ops plugin, I get the following error message:

[ERROR] Module threw exception
	at io.scif.img.ImgOpener.createReader(
	at io.scif.img.ImgOpener.openImgs(
	at io.scif.convert.FileToDatasetConverter.convert(
	at org.scijava.convert.AbstractConvertService.convert(
	at org.scijava.convert.AbstractDelegateConverter.convert(
	at org.scijava.convert.AbstractConvertService.convert(
	at org.scijava.module.DefaultModuleService.load(
	at org.scijava.module.DefaultModuleService.loadInput(
	at org.scijava.module.DefaultModuleService.lambda$loadInputs$1(
	at java.util.ArrayList.forEach(
	at java.util.Collections$UnmodifiableCollection.forEach(
	at org.scijava.module.DefaultModuleService.loadInputs(
	at org.scijava.module.process.LoadInputsPreprocessor.process(
	at org.scijava.module.ModuleRunner.preProcess(
	at org.scijava.thread.DefaultThreadService.lambda$wrap$2(
	at java.util.concurrent.ThreadPoolExecutor.runWorker(
	at java.util.concurrent.ThreadPoolExecutor$

Actually, I encountered error messages when I tried to run other filters from Image Ops as well. Has anyone else encountered this error? If so, how did you resolve it? Thank you for your time and attention.

I managed to install image ops, but I’m having difficulty deconvolving. I have tried a wide range of input regularization factors and I have attached the best I could come up with using a regularization factor of -0.01. Has anyone else had problems or success with deconvolving with Image Ops plugins? Also some of the deconvolving options ask for “Input 2”. Is “Input 2” the point spread function? I entreat your advice. Thank you. Here is the link for the data:

Hi @GopherConfocal

Yes, input2 is the point spread function. Do you have a measured point spread funciton you are using?? If so can you share it along with the images? If you are generating a theoretical point spread function do what code or plugin are you using?

Thank you for replying. There’s a python script I found that makes nice PSFs and I put the script, the settings I use, and the PSF image in the Google Drive folder. Thank you so much for your help. I need to deconvolve all three channels. Thanks again!

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For the record: this is likely an issue with #scifio, and unrelated to the actual deconvolution commands.

Related issues on GitHub: