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At present, we install CIL as follows:
- docker: via conda in the docker image via [SIRF-Exercises/environment.yml](https://github.com/SyneRBI/SIRF-Exercises/blob/ff0b4eae75b75394be635d62fb12626ffd…
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the PET recon has a funny line
![image](https://user-images.githubusercontent.com/6362141/214108091-da4de06c-e419-4f96-b3b1-600325dfd9d9.png)
Also, it is called gradient descent, but it is actuall…
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should have a minimal set-up for jupyterlab
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I am reconstructing with SIRF and have only encountered integer values for sirf.ObjectiveFunction.value.
Is this expected behaviour? I could be doing something wrong, but I am not sure I am... I ha…
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deformation/displacement vector fields (DVF) encode deformations in RAS. Also, the info for rigid transformations is in RAS, see https://github.com/SyneRBI/SIRF-Exercises/issues/44#issuecomment-640483…
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Here I will be referring to [MCIR/MR_recon_file.py](https://github.com/SyneRBI/SIRF-Contribs/blob/130223d9bc11991eadcd11f9b715aea34c4842fd/src/Python/sirf/contrib/MCIR/MR_recon_file.py).
I am aware…
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We use `nbstripout` to prevent conflicts due to notebook output, and to prevent output to be commited. Sadly, we still have conflicts when a notebook is commited with one Python version but run with a…
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In the example below, I used a NIfTI dataset that was size 432 x 432 in plane and had 30 slices. Reading into a SIRF ImageData class and getting the geometrical information I can obtain the following.…
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Since https://github.com/SyneRBI/SIRF/pull/870, SIRF has `requirements.txt` and `ci-requirements.txt`. We should use this in the SuperBuild, and also for any other projects that have such files, or wh…
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It's incredibly confusing that `img.get_geometrical_info().get_size()` return a tuple that is in the reverse order of `img.as_array().shape` (which is luckily the same as `img.get_dimensions()`.
Pr…