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Clarify bioformats reqs to stress java, man (#72)
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psobolewskiPhD authored Mar 10, 2023
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Expand Up @@ -19,6 +19,7 @@ AICSImageIO bindings for napari
- `DV` (DeltaVision)
- Any formats supported by [aicsimageio](https://github.com/AllenCellModeling/aicsimageio)
- Any formats supported by [bioformats](https://github.com/tlambert03/bioformats_jar)
(Note: requires `java` and `mvn` executables)
- `SLD` (Slidebook)
- `SVS` (Aperio)
- [Full List](https://docs.openmicroscopy.org/bio-formats/6.5.1/supported-formats.html)
Expand All @@ -36,6 +37,11 @@ _While upstream `aicsimageio` is released under BSD-3 license, this plugin is re
**Stable Release:** `pip install napari-aicsimageio` or `conda install napari-aicsimageio -c conda-forge`<br>
**Development Head:** `pip install git+https://github.com/AllenCellModeling/napari-aicsimageio.git`

> **Warning**
> The `bioformats` reader requires `java` and `mvn` executables, which cannot be pip installed.
> As a result, it's simplest to install it from conda-forge, ensuring both are also installed:
> `conda install -c conda-forge bioformats_jar`
### Reading Mode Threshold

This image reading plugin will load the provided image directly into memory if it meets
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