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PaulBautin edited this page Nov 5, 2020
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Welcome to the csa-atrophy wiki!
- go to "release"
- create new tag, e.g. rYYYYMMDD
- from master
- click "release"
First you must connect to compute canada with command ssh [email protected]
, then make sure you have the right python version installed
module avail python
for example you can choose (python>3.6) ex: module load python/3.7.4
Once you have installed all requirements for csa-atrophy with command pip install -e .
, you are ready to submit jobs to compute canada with command:
-
run_all -config config_sct_run_batch.yml -job-template job_template.sh -n 32
(make sure to update job_template.sh)
Create a target directory for the virtual environment
virtualenv --no-download ~/venv
then activate the virtual environment with command
source ~/venv/bin/activate
you can now install python packages with pip. ex:pip install num
to deactivate the virtual environment run
deactivate