Oscar
Running the BIDS validator on Oscar
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Running the BIDS validator on Oscar
Last updated
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If you are using the , then you are already inside an interactive session and you just need to open the terminal. Otherwise, you can start an interactive job of 1 hour with
You can run ls /oscar/data/bnc/simgs/bids/validator*
to print all available versions
Specify your bids directory. This is where dataset_description.json
file lives
Path to Singularity Image for the bids-validator (maintained by bnc)
The following command runs the bids-validator
executable (via singularity) to test if a directory is BIDS compliant. The command tells singularity to launch the validator-${version}.sif
image and execute the bids-validator
command. The bids validator expects a directory as an input, which in this case corresponds to ${bids_directory}
. The --bind ${bids_directory}:${bids_directory}:ro
makes the ${HOME}/xnat-exports/bnc/study-demodat/bids
available read-only inside the container at the same path.