mri_environment.yml

name: mri
channels:
  - conda-forge
  - defaults
dependencies:
  - dcm2niix=1.0.20240202
  - heudiconv=1.1.6
  - nipype=1.8.5
  - pip=24.2
  - pytest=8.3.2
  - python=3.11.10 # dipy v1.9.0 dependency >=3.9, <3.12
  - seaborn=0.13.2
  - traits=6.4.3
  - wheel=0.44.0
  - pip:
      - antspyx==0.5.3
      - atlasreader==0.3.2
      - dipy==1.9.0
      - fury==0.11.0 # dipy v1.9.0 viualisation didn't work with fury 0.10.0
      - ipykernel==6.29.3
      - ipython==8.22.1
      - jupyter==1.0.0
      - matplotlib==3.8.3
      - nibabel==5.2.1
      - nilearn==0.10.4
      - nipy==0.6.0
      - numpy==1.26.4 # dipy v1.9.0 dependency >=1.21.6, <1.27.0
      - nxviz==0.7.4
      - pandas==2.2.2
      - plotly==5.23.0
      - pybids==0.16.4
      - python-louvain==0.16
      - requests==2.31.0
      - rsatoolbox==0.1.5
      - scikit-image==0.24.0
      - scikit-learn==1.5.1
      - scipy==1.14.0

# After installation, to ensure the ipykernel is properly installed and set up:
# conda activate mri
# python -m ipykernel install --user --name mri --display-name "Python (mri)"