Choose a working directory (IMPORTANT)
Check how much space you have in your network home dir (/homes/yourlogin). You have a 7 Go quota, so this should be more than enough. It is highly recommended to work there, as this is backuped and saved daily. If you don't have enough space there, FREE SOME SPACE (recommended), or alternatively you can create a folder under /users/local/ (but data is not guaranteed to stay there).
Change dir to your working directory and type
git clone https://github.com/brain-bzh/INT277.git
This will create a INT277 folder containing Jupyter Notebooks to start the projects.
See here to install MRICRON
Alternatively, you can also use this online viewer : http://ric.uthscsa.edu/mango/papaya/index.html
We will use a virtual environment in Conda, which makes it easier to install new packages without admin priviledges.
Create a new environment with the following command
conda create -n intersem python
You can now list the available environements by typing :
conda env list
You should see the newly created environment "intersem". Activate it using :
source activate intersem
You will see (intersem) at the beginning of your terminal, indicating you are now working under the virtual environment.
To deactivate the current environemnt, just type :
source deactivate
More on conda environments here.
For the projects, we will need the following packages :
You can install them all in one go by doing :
pip install jupyter matplotlib pandas nilearn sklearn nibabel
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