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The issue is decribed here:
https://forum.image.sc/t/ngff-converter-1-1-4-fails-to-convert-czi-file-which-open-normally-in-fiji/78408?u=sebi06
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Hi all,
I just tried to convert a CZI fil…
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Hi guys,
this is more a request not a real bug entry or issue.
Zeiss recently released libCZI:
https://github.com/zeiss-microscopy/libCZI
I know that OpenSlide did not want to use ZeissImg…
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https://chanzuckerberg.com/grants-ventures/grants/
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If MVL file is missing, it may be possible to create one from the CZI metadata (for the latest CZI formats).
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Hi @arogozhnikov,
I am trying running the script below. I have both Demuxalot.py and Demuxalot.sif in this dir: /project/PI/USERS/me/czi/data/scrna, which is located upstream of all input files.
…
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This is a trimmed down version of the timeline and goal we planned in the original grant for better public tracking.
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We propose overhauling the Jupyter and IPython interactive documenta…
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This issue was raised on forum thread https://forum.image.sc/t/issue-with-czi-metadata/63836/5
A sample file was provided that reproduces the issue with Bio-Formats 6.9.0
The image consists of 6 t…
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Hello,
I'm trying to open fastairyscan raw data in FIJI but all the pixels of the images are at O except in channel 2 (sum of the images). Images from conventional airyscan open correctly. Any sugg…
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Hi,
I have a CZI that does open correctly with BioFormats 6.1.1. I did the following
- open compressed CZI in Fiji
- open uncompressed CZI in Fiji
- export CZI as OME-TIFF from ZEN and open in…
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### Requirements
CZI files need to be converted to TIFs as part of the workflow. This conversion is computation-intensive and hence needs to parallelized on EC2 instances. For this, a script needs to…