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We save our 2D OME-Zarrs as (z, y, x) images with (1, size_y, size_x). Some other OME-Zarrs (e.g. the ones generated by the faim-hcs OME-Zarr converter) can be (x,y) only, i.e. (size_y, size_x).
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The following is the exception I am encountering:
```
$ rm -rf test.zarr/ && ~/scratch/bioformats2raw-0.6.1/bin/bioformats2raw out.mrc --compression=null --downsample-type AREA test.zarr --progres…
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Branching from https://github.com/fractal-analytics-platform/fractal-tasks-core/issues/377.
For the moment I could only obtain something interesting via pydantic, while I got nowhere while trying w…
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* Write a minimal bash script conforming to the the right interface (`./script.sh -j /path/to/args.json -o /path/to/out.json`)
* Construct the task object, and set the appropriate `command`.
* Run i…
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**Summary**
Hi @Nicholas-Schaub, I identified multiple issues with OME Zarr Converter Plugin.
**What is the current *bug* behavior?**
1. Using `--fileExtension .abcdef` just produces output f…
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iohub needs a simple CLI interface for converting files into the spec-adherent formats that it writes.
`recOrder` has a simple `convert` command that depends `ZarrConverter` which in turn depends …
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@edyoshikun and @dsundarraman reported that:
```
recorder convert --input /hpc/projects/comp_micro/rawdata/falcon/zebrafish/2023_02_09_casper_Mpeg_GFP_wounded_unwounded/swing0p08_tails_3 --output …
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@giovp we need to test if we can use readers (as the one in your new pr) or if we need for some large datasets to use converters. The reason is that `Dask` allows to represent lazily the data in both …
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## System and Software
* aicsimageio Version: 4.1.0
* Python Version: 3.9.6 64bit
* Operating System: Windows 10
## Description
This is my first time trying to save files using aicsimageio and…
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Currently iohub [detects label-free channels](https://github.com/czbiohub/iohub/blob/c72d46ad3c02ac89f3556383d1ef08461214de3f/iohub/lf_utils.py#L10-L63) and writes OME-NGFF metadata fields to display …