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**AIMS**
- Integrate `ivadomed` and `pytorch` as requirements for ADS
- Create a CLI using ivadomed API for inference/segmentation with pre-trained ivadomed models
- Adapt performance measures and …
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The Microscopy BEP was integrated in BIDS and can be previewed [here](https://bids-specification.readthedocs.io/en/stable/04-modality-specific-files/10-microscopy.html).
It will be part of the BIDS…
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Hello,
So I get the following error when I am trying to process an image with version 4.0 of the code. This only occurs with the BF and SEM models.
`File "/home/msavage/anaconda3/envs/axonDeepS…
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Similar to #28, the goal is to have a benchmark on lesion segmenation wherein we compare our newly trained `ivadomed` lesion segmentation model to alternatives.
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## Issue description
The [two-class microscopy segmentation tutorial](https://ivadomed.org/tutorials/two_class_microscopy_seg_2d_unet.html) makes the user copy the config file to their local dire…
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Compare `sct_deepseg_sc` and your SC segmentation model.
To-do:
- [x] Open PR with a script performing the analysis below.
- [x] Decide on a evaluation / benchmarking plan.
- [x] Visualization o…
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This issue is for planning the integration of @EvanBeal's [contrast agnostic registration model project](https://github.com/ivadomed/multimodal-registration) into SCT's registration scripts.
### Pr…
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Following discussion in #425.
Currently, the CLI cannot be used to segment images with a new trained model, if the new model has a different resampling resolution than our default SEM and TEM.
T…
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## Issue description
While working on PR #806, I found a bug with the multiple raters feature with the command `segment`.
### Current behavior
When running the `segment` command, the output filen…