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fmi-faim / faim-ipa

A collection of Image Processing and Analysis (IPA) functions used at the Facility for Advanced Imaging and Microscopy (FAIM)
BSD 3-Clause "New" or "Revised" License
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Visiview stk acquisition #82

Closed tibuch closed 10 months ago

tibuch commented 10 months ago

Add support to convert Visiview STK acquisitions to ome-zarr multiscale images. This is used here: https://github.com/fmi-basel/ggrossha_GRH1_NHR23/tree/main/ipa/s01_convert_to_zarr

I changed the DaskTileStitcher to work with 2D and 3D tile data. In both cases the tile-data is only shifted in YX. This improves performance for STK acquisitions where the acquired raw-data is stored in 3D stacks.

codecov[bot] commented 10 months ago

Codecov Report

All modified and coverable lines are covered by tests :white_check_mark:

Comparison is base (155fc40) 98.86% compared to head (6020d58) 98.89%. Report is 2 commits behind head on main.

Additional details and impacted files ```diff @@ Coverage Diff @@ ## main #82 +/- ## ========================================== + Coverage 98.86% 98.89% +0.02% ========================================== Files 44 44 Lines 2558 2618 +60 Branches 250 256 +6 ========================================== + Hits 2529 2589 +60 Misses 18 18 Partials 11 11 ```

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