core-bioimage-io-python

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zsh: illegal hardware instruction

13

Hi! I'm trying to test a model that pass the validation test but I get the following message, both with test-model and predict-image: ``` (bio-core-dev) esti@estimacbookair BioImageIO % bioimageio validate...

esgomezm

How to apply a model from Python

6

Hi all, I would like to apply a bioimage-io model to an image using Python. Unfortnunately, I cannot find the documentation that shows how to do this. Furthermore, the chatbot...

haesleinhuepf

Improve backward compatibility

1

FynnBe

add predict command

3

This PR - updates the CLI (rewrite that now include a predict command) - includes some other changes to allow loading statistical measures from json with pydantic validation

FynnBe

I have attempted to resolve the #383. Initially I did minor fixes to the weight convresions while adding tests. Each weight conversion method returns the corresponding `WeightDescr` (https://github.com/bioimage-io/core-bioimage-io-python/pull/411/commits/fbbfc573e2cd2449a9372c4b5bfe131a2dfc8ee1). Then, to...

thodkatz

```console $ bioimageio test impartial-shrimp ✔️ bioimageio validation passed ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ source https://uk1s3.embassy.ebi.ac.uk/public-datasets/bioimage.io/impartial-shrimp/1.1/files/rdf.yaml format version model 0.5.3 bioimageio.spec 0.5.3.2 bioimageio.core 0.6.9 ❓ location detail ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ ✔️ initialized ModelDescr to describe model...

FynnBe

Update _torchscript_model_adapter.py

3

converting the input to the model to float to avoid numpy array errors from torch @oeway

esgomezm

How to run 'powerful-fish' on my image?

2

Hi everyone, I wanted to try one of the available models to enhance membranes in one of my images. The image is 3D with `shape = (91, 1024, 1024)`. I...

tibuch

`bioimageio.core.test_model` skip checking `pytorch_state_dict` if `torchscript` is given

2

I read the code and it seems to be a design choice. I think this behaviour should change and it should test all weight formats by default, because I was...

qin-yu