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Hi, I've been trying to use the various tools for T2 relaxometry (animaMultiT2RelaxometryEstimation or animaT2RelaxometryEstimation), with a multi-echo GRE T2star acquisition (flip angle 17, 7 TE at s…
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## Description
When conforming happens from inside run_prediction it adds incorrect "TR" information to the image header.
## Steps to Reproduce
Run run_prediction with an already conform inp…
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the file "mni.nii" is a text file and not a nifti, its contents are:
> version https://git-lfs.github.com/spec/v1
oid sha256:473c47706dae25aa9e77b3bee4917cc906e9cf9f54eb0a93b5b5c6a4c7ea5b9f
size …
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Cuber should be able to convert NiFTi files (*.nii). Typically used in MRT
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Hi,
I ran into some problems when running eval_strain_sax.py.
It shows that FileNotFoundError: No such file or no access: '/cine_motion/sa_crop.nii.gz'
I think maybe the following statement did n…
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### Description
`sct_analyze_lesion` fails when generating QC if the lesion mask is empty.
For some context, I run `sct_analyze_lesion` in a pipeline on lesion masks segmented by SCIseg (code [h…
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**Describe the bug**
There is a significant performance gap between MONAI and SimpleITK when loading NIfTI (.nii.gz) files.
In my own benchmark I have found:
- MONAI average load time: 2.0321 secon…
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there was a problem when I tried to start processing of the Nii image or dicom image
Runlist: ['C:/Users/V/Desktop/imagesTr/004_0000.nii.gz'].
1 volumes detected.
Will save outputs in C:/U…
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I pushed the data from email `Using sct for Quantitative Analysis of Spinal Cord MRI` received on `December 18, 2021 9:14:47 PM` on the branch `af/add_sub-56027` under `datasets/sct-testing-large`.
…
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When running SCT via a jupyter notebook, the QC report sometimes fail, throwing an "IPython missing" message:
Terminal output
```console
--
Spinal Cord Toolbox (git-master-a458fa37fd22179dd2a6…