You signed in with another tab or window. Reload to refresh your session.You signed out in another tab or window. Reload to refresh your session.You switched accounts on another tab or window. Reload to refresh your session.Dismiss alert
While the set of commands from non-MRtrix3 neuroimaging software packages that will be present in the container has been reduced, they will still nevertheless be within PATH, and hence one could do e.g. MRtrix3.sif N4BiasFieldCorrection ...
What might be interesting is to have some form of gateway command / mechanism that only inserts the non-MRtrix3 contents of /opt/ into PATH following resolution of the requested command, such that the above example would not work but dwibiascorrect ants would be able to find that requested command.
It might be the case that this is fairly trivial to do for command invocations via the entrypoint but breaks down if SSHing into the container, but that would probably be an acceptable limitation.
The text was updated successfully, but these errors were encountered:
While the set of commands from non-MRtrix3 neuroimaging software packages that will be present in the container has been reduced, they will still nevertheless be within
PATH
, and hence one could do e.g.MRtrix3.sif N4BiasFieldCorrection ...
What might be interesting is to have some form of gateway command / mechanism that only inserts the non-MRtrix3 contents of
/opt/
intoPATH
following resolution of the requested command, such that the above example would not work butdwibiascorrect ants
would be able to find that requested command.It might be the case that this is fairly trivial to do for command invocations via the entrypoint but breaks down if SSHing into the container, but that would probably be an acceptable limitation.
The text was updated successfully, but these errors were encountered: