Include JSON metadata created by SCT

[valosekj]

Description

As SCT v6.4+ produces JSON sidecars for some outputs that track the provenance of the function, models, etc. (details: spinalcordtoolbox/spinalcordtoolbox#4466), we want to include this information in the final JSON sidecar produced by manual_correction.py. This PR implements this feature.

How to test this PR

cd ~/code/manual-correction
git fetch
git checkout jv/103_include_json_created_by_sct

sct_download_data -d sct_course_data -o sct_course_data_2024
cd sct_course_data_2024/multi_subject
chmod +x process_data.sh
sct_run_batch -script process_data.sh -config config.yml -jobs 3
# Note: you can add `exit` to line 115 to run only the contrast-agnostic model on T2w to save time

$SCT_DIR/python/envs/venv_sct/bin/python ~/code/manual-correction/manual_correction.py -config qc_fail.yml -path-img output/data_processed/ -path-label output/data_processed -path-out data/derivatives/labels

cat data/derivatives/labels/sub-05/anat/sub-05_T2w_seg.json

{
    "SpatialReference": "orig",
    "GeneratedBy": [
        {
            "GeneratedBy": [
                {
                    "Name": "spinalcordtoolbox: sct_deepseg -task seg_sc_contrast_agnostic -i sub-05_T2w.nii.gz -qc qc -qc-subject sub-05",
                    "Version": "git-master-64f55fdf022659db5d5c779f01c605d91ca7d052",
                    "CodeURL": "https://github.com/spinalcordtoolbox/spinalcordtoolbox/blob/64f55fdf022659db5d5c779f01c605d91ca7d052/spinalcordtoolbox/scripts/sct_deepseg.py",
                    "ModelURL": "https://github.com/sct-pipeline/contrast-agnostic-softseg-spinalcord/releases/download/v2.5/model_contrast-agnostic_20240930-1002.zip"
                }
            ]
        },
        {
            "Name": "Manual",
            "Author": "Jan Valosek",
            "Date": "2024-12-10 18:05:31"
        }
    ]
}

As you can see above, the output JSON sidecar under derivatives now includes information about the SCT model and the manual rater who made manual corrections.

---

Resolves: #103
Relevant to: #102

[sandrinebedard]

I tested it and works well! Thanks @valosekj !