Provides Fractal tasks for the MD to OME-Zarr conversion of faim-ipa
Project description
fractal-faim-hcs
Provides Fractal tasks for the conversion of Molecular Devices ImageXpress microscope to OME-Zarr.
The conversion based on the faim-ipa library. This repo also contains some of the test data from the faim-ipa library, as well as test data from the ZMB provided by @fstur.
To use the MD Converter Task in Fractal, add the package form PyPI to your Fractal server by installing fractal-faim-ipa.
Development
You can install it locally in this way:
git clone https://github.com/jluethi/fractal-faim-hcs
cd fractal-faim-hcs
pip install -e .
Adding tasks to Fractal server
You can trigger a manual collection of the tasks:
- Create a package wheel:
pip install build
python -m build
This wheel is put into the dist
folder.
- Collect your package from Fractal web: use the local task collection in fractal web and provide the
/path/to/package/dist/faim-ipa-version-details.whl
Alternatively, you can collect the task in Fractal via the CLI tool:
fractal task collect /path/to/package/dist/faim-ipa-version-details.whl
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