Is your feature request related to a problem? Please describe.
Currently, sample paths, resource paths, temporary paths are all passed individually for mounting in Singularity images. For runs with many samples this can lead to excessively long calls (potentially exceeding the max length of POSIX commands).
It would be good to include an algorithm that minimizes bind paths by finding common parent paths to mount.
Describe the solution you'd like
N/A
Describe alternatives you've considered
Rather than finding parent paths, it might also be good to think of ways how to bind only what's necessary for each call.
Additional context
Binding parent paths can have security implications.
Is your feature request related to a problem? Please describe.
Currently, sample paths, resource paths, temporary paths are all passed individually for mounting in Singularity images. For runs with many samples this can lead to excessively long calls (potentially exceeding the max length of POSIX commands).
It would be good to include an algorithm that minimizes bind paths by finding common parent paths to mount.
Describe the solution you'd like
N/A
Describe alternatives you've considered
Rather than finding parent paths, it might also be good to think of ways how to bind only what's necessary for each call.
Additional context
Binding parent paths can have security implications.