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When importing a TIF stack as prenormalized data, tomopyui reads the data correctly and shows all angles in the import tab, but clicking the "copy data from imported projections" button in the prep ta…
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I wanted to suggest using SCIFIO as a workaround for the issue with bio-formats reported [here](http://forum.imagej.net/t/release-of-bio-formats-5-2-0/2523/9?u=imagejan), but it turns out that `scifio…
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hello, we are trying to stitch two 3d tiff stacks (“tiles”): https://www.dropbox.com/sh/p26swfkmtkw772m/AACgTqMCWAC5gUDF8PPwhMKpa?dl=0
(the tile 140 should be above tile 1)
but no matter what in…
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I have configured a custom preamble, disabling babel so that I can use polyglossia with XeLaTeX. We do this so we can use UTF-8 sphinx input text and get decent unicode font handling, substitution, s…
ghost updated
3 years ago
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Issue was raised in the thread https://forum.image.sc/t/bioformats-reads-nd2-file-series-incorrectly/33263 and a sample file is provided in QA-29035
I have been able to reproduce the issue as descr…
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I am using MATLAB R2021a on my mac to open the attached example.nd2 _E. coli_ imaging file that has 15 z-frames (3 channels). However, `Results = bfopen('example.nd2')` gives me:
```
Results =
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#### Steps to reproduce:
Checkout `master` & start local dev server (`npm start`). Select "Tonsil Legacy Bioformats Pyramid Tiff".
#### Screen recording:
https://shareit.video/X8Z5KKqiCLrpghdPBUX…
manzt updated
3 years ago
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**Describe the bug**
@callum-jpg reported the following failing test in his source install - more investigation is needed as to why
`tests/modules/test_graytocolor.py::test_composite_rescale`
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@constantinpape @K-Meech @KateMoreva
`Plugins › BigDataViewer › OME ZARR › Open OME ZARR From File System...`
with
`/g/cba/exchange/ome-zarr/2022/lifdata1__bf2raw-0-4-0.zarr`
gives
``…
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Workflow as follows:
Read in the file
`temp_path = ‘pathpathpath.qptiff’`
Create a Slide Object
`mif_slide = SlideData(temp_path, backend = “bioformats”, slide_type = types.Vectra)`
I am cr…