Broken fed-ixi download link in FLamby tutorial

[srcansiz]

It seems that the URL provided by FLamby to download fed-ixi dataset is no longer active. I've found this issue while following the instructions given below in the tutorial https://fedbiomed.gitlabpages.inria.fr/latest/tutorials/flamby/flamby-integration-into-fedbiomed/:

source ${FEDBIOMED_DIR}/scripts/fedbiomed_environment researcher
pip install nibabel

• then execute on each node (where ${FEDBIOMED_DIR} is the base directory of Fed-BioMed):

source ${FEDBIOMED_DIR}/scripts/fedbiomed_environment node
pip install nibabel
python $(find $CONDA_PREFIX -path */fed_ixi/dataset_creation_scripts/download.py) -o ${FEDBIOMED_DIR}/data

[srcansiz]

In GitLab by @ybouilla on Jan 12, 2023, 11:27

I ve done some investigations: issue is that FLamby repo seems not to have been updated, even when doing a ./script/configure_conda run

FLamby repo has been recently updated in order to point to another repo

[srcansiz]

In GitLab by @ybouilla on Jan 12, 2023, 15:13

I dont know how to update git repo whithin a conda environment, tried following commands:

• pip install git+https://github.com/owkin/FLamby@main
• pip install --upgrade git+https://github.com/owkin/FLamby@main

and updating the *.yaml file: adding -e before pip install as suggested in https://stackoverflow.com/questions/70352727/get-new-commits-from-a-git-repo-installed-with-pip-in-a-conda-environment-when-u

- pip:
    - -e git+https://github.com/owkin/FLamby@main

.. but none of them updated the git repo located whithin conda environment

[srcansiz]

In GitLab by @ybouilla on Jan 12, 2023, 15:44

Also tried cleaning the environment, and resintalling, still not working