Pradeep Rajasekhar

As your scan direction is bottom to top, use a negative angle, i.e., use an angle of -49. If you try this branch: https://github.com/clEsperanto/pyclesperanto_prototype/tree/orthogonal_interpolation with angle of -49, you'll get...

@oleksiievetsno Could you answer the questions in this thread? https://github.com/QI2lab/OPM/issues/10 @haesleinhuepf

Hi @haesleinhuepf I've checked the notebooks, Minor issue with displaying the transposed images using cle.imshow: https://github.com/clEsperanto/pyclesperanto_prototype/blob/dc1c641db5e39e5d1cca2edd53c52becdacc38b6/demo/transforms/deskew.ipynb Cheers Pradeep

@haesleinhuepf The error for tests is related to `test_skimage_imsave `function: `FAILED tests/test_skimage_imsave.py::test_skimage_imsave - ValueError: not enough samples for : expected 3, got 1` For some reason it fails for python...

@haesleinhuepf , I modified the test to make test_skimage_save test work. Changes here: https://github.com/clEsperanto/pyclesperanto_prototype/pull/284/commits/a6fdaab2c6580b455b0891d9d03ddede6b209a08

This commit in the pull request should fix this: https://github.com/clEsperanto/pyclesperanto_prototype/pull/284/commits/a6fdaab2c6580b455b0891d9d03ddede6b209a08

> One more idea: Why not splitting deskewing and cropping into two steps? > > ``` > deskewed = cle.deskew_x(raw_image) > cropped = cle.crop(deskewed) > ``` Ahh, This is a...

yup, I agree. Will refactor the code in the `napari-lattice` plugin, as I can see this being useful and easier to debug.. especially in the long run.

Thanks @haesleinhuepf . Even if I split into two steps, I'll still need to deskew cropped volume using a transform from the reference volume. I'll refactor first and come back...

Hi Robert Thanks for this. This is what I'm looking for. This looks really good. I saw the plugin earlier, but didn't realise immediately what it did. Pretty sure I'll...