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If you also want to transform tractograms (.trk):
If you are on Linux, we recommend using the Singularity container to run registration-flow.
Download the available singularity image here: scilus-1.1.0_registrationflow-1.0.0.img
Then add the following to your nextflow run command:
-with-singularity /pathto/scilus-1.1.0_registrationflow-1.0.0.img
FOR DEVELOPERS: The containers repository is available here: Containers-Scilus
If you are on MacOS or Windows, we recommend using the Docker container to run registration-flow
Simply add the following to your nextflow run command:
-with-docker scilus/scilus:1.1.0_registrationflow-1.0.0
FOR DEVELOPERS: The containers repository is available here: Containers-Scilus
See USAGE or run nextflow run main.nf --help