sct-pipeline / fmri-segmentation

Repository for the project on automatic spinal cord segmentation based on fMRI EPI data
MIT License
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Upload latest GT on OpenNeuro #44

Closed jcohenadad closed 4 months ago

jcohenadad commented 5 months ago

After discussing with @rohanbanerjee I realized that the current GT on OpenNeuro are the original ones provided by the sites. Since then, this GTs have been revisited. We should upload them on OpenNeuro (replace the current ones to avoid confusion).

Related to #30

rohanbanerjee commented 5 months ago

The latest GTs have been uploaded to Openneuro and is the v1.1.0 version of the dataset.

More details:


The above json file updation follows this [comment](https://github.com/ivadomed/canproco/issues/73#issuecomment-1911067370)
rohanbanerjee commented 5 months ago

Steps/Commands followed to download and update the dataset on Openneuro:

1. Download the data:
openneuro upload --dataset ds005143 -i openneuro_data

2. Updating the dataset using the script mentioned in the above comment

3. Upload the new snapshot of the dataset: 
openneuro upload --dataset ds005143 -i openneuro_data
rohanbanerjee commented 5 months ago

{ 'Name': 'Manual',
'Author': 'Rohan Banerjee and Merve Kaptan (Manually corrected after initial segmentation done by EPISeg model (https://github.com/sct-pipeline/fmri-segmentation/releases/tag/v0.2))',
'Date': time.strftime('%Y-%m-%d %H:%M:%S') }

There should be three values. For eg in the above json, there should be, for our case:

rohanbanerjee commented 4 months ago

The mentioned update has been done in the new version of the dataset --> https://openneuro.org/datasets/ds005143/versions/1.2.0