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Previously, we were able to use a bash script and run Ashlar on Linux using:
ashlar "${c[@]}" --pyramid --flip-y --maximum-shift $MAX_SHIFT --filter-sigma $SIGMA --align-channel $ALIGN_CHANNEL -o $…
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Issue was raised on forum thread https://forum.image.sc/t/bfconvert-invalid-xml-character-unicode-0xffff-for-nd2-file/40453/3 and sample files have been provided in QA-29424
The issue was reproduce…
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First I should commend the creation of this package. I had just about given up (at least temporarily) on using bioformats due to the lack of python support, when I realised this package had been relea…
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I am trying to read sample zarr files provided here: https://github.com/ome/ome-ngff-prototypes#data-availability
```log
dzenan@corista:~/tester$ ncdump -h file:///media/xeonatorC/Dev/ITKIOOMEZarr…
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Tried downloading from https://cellpainting-gallery.s3.amazonaws.com/cpg0004-lincs/broad/images/2016_04_01_a549_48hr_batch1/images_zarr/SQ00015098__2016-06-08T18_43_42-Measurement1.ome.zarr/ and impor…
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Hello all!
I was trying validate that an OME-TIFF file had the correct metadata using FIJI as when compared to pure code / XML and ran into some interesting behavior I had not known about.
This …
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I'm trying to integrating ome-files in a CMake C++ project. In my hands, the following is a minimal CMakeLists.txt to successfully build a ome-files project. I am building on macOS 10.12.6 with clang …
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Hi,
First thank you for this great package!
Flow_registration outputs multi-channel TIFF stack with dimensions `frame x (spatial_1) x (spatial_2) x channel`. However, Suite2P (package for cell s…
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Hello,
I am trying to open .sdt files that contain my FLIM data, obtained from a becker & hickl FLIM instrument. However, I am getting the following error messages:
Does this mean that FL…
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I guess the arrays in bdv.n5 are 3D, right? I would assume so because in BDV the channel typically is encoded in the setup and the timepoint in the timepoint group, leaving only x,y,z as dimensions f…