Sebastian Rhode

New plugin: czifile.py

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Hi, there is a nice tool to read CZI images by Christoph Goehlke. can this be added easily to your library? http://www.lfd.uci.edu/~gohlke/code/czifile.py.html

Create MagicUI based UI using on a JSON or similiar

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Hi, imagine you have a JSON file, that is used to define the input elements for an UI (example below). What would be the best approach to get started to...

Image Attachment of CZI is not read correctly with BioFormats 5.3.4

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Hi, some of our systems use a preview camera to acquire an overview image of the sample and/or carrier to use this for sample or sample carrier recognition. This image...

Application crashes when trying to read the shape of a CZI file with WinError 10054

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Hi all, I use the latest AICSImageIO + aicspylibczi on a WIn10, Python 3.7.4 I have a CZI file, which works fine in ZEN and also in Fiji etc. No...

When I try to start SciView from Fiji (up-to-date) i get stuck with the following error message (see below). But my GPU works and the driver is up to data....

How to write image array with 6 or more dimensions to ome-azrr

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Hi, I read and also tried this method: https://ome-zarr.readthedocs.io/en/stable/api/writer.html and from the docu it says the image array must have 5 dimenisons in the following order TCZYX. Which raises some...

Strange error message when using LOCI reader inside script

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HI guys, I am using the LOCI reader inside a python script (latest Fiji from 20150522) and get: ERROR loci.formats.ImageReader - *** One or more readers is misbehaving. See the...

Scripting in Python available

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Hi, I was wondering if there is a way to script this plugin ideally in Python or using the macro language? Cheers, Sebi

Possible strategies to include new features of BioFormats 5.3.1

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Hi, you probably know that the new BioFormats 5.3.1 has some features that allow switching on/off reading tile images as a whole or as single series (like it was in...

Unclear problem with bioformats.get_omexml_metadata

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Hi guys, I just cannot figure out what causes the problem shiwn below. Any ideas? Sebi Python 2.7.11 |Anaconda 2.4.1 (64-bit)| (default, Jan 29 2016, 14:26:21) [MSC v.1500 64 bit...