webknossos-libs

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We use context-vars to manage the webknossos-url and tokens for the client. This should still work in executors. From the https://github.com/scalableminds/webknossos-libs/pull/452#discussion_r729619271: > By default, it seems like contextvars are not...

jstriebel

Instead, get_logger(__name__) should be used, similar to what we already do in voxelytics. This should have the benefit that logging can be selectively disabled

fm3

If input images are too big to hold 32 of them in RAM, we currently have to reduce the batch size below 32 which makes cubing way slower. Some sort...

philippotto

- Update to `1.8.0` (or newer) - There might be an error such as `cattr.errors.StructureHandlerNotFoundError: Unsupported type: typing.Union[int, wkcuber.mag.Mag]. Register a structure hook for it` - The hooks might be...

rschwanhold

see https://pypi.org/project/readlif/

youri-k

Currently, the `PillowImageReader` crops input dtypes into the output dtypes, while all other `ImageReader`s scale the value range of the input dtype to the output dtype.

youri-k

The conversion detection can currently only detect plain image stacks. Additionally, tiled image stacks should be recognized, too. This could be done inside the existing `detect_dataset_name_and_layer_path_to_layer_name` function of the `ImageStackConverter`.

youri-k

Now, using slurm requires `--distribution_strategy slurm --job_resources '{"time":"01:00:00","mem":"32G"}'`. Frankly, this is a lot to type. How about a convenience shorthand: `--slurm time=01:00:00,mem=32G`?

normanrz

We have some magic numbers in the code base, but the problematic one is 32. In several places, it's hardcoded which is confusing and often times problematic, since the actual...

philippotto

This issue is about displaying a better error message if an empty folder is present during a metadata refresh using wkcuber. I got the error message disaplyed in the last...

manuel-berning