Arvados

Some tools apply a 0200 mask to their output. This breaks crunch-run which relies on group rw permission to be able to upload and then clean up the output files. The crunch-run user cannot change the permission bits of files it does not own. Investigate and determine how to handle this situation.

Ideas:

1) Run uploader inside container (crunchrunner strategy)
2) Match container user to host user (cwltool strategy)
3) Exclusively use arv-mount for output (would require improved POSIX compatability)
4) Pass-through filesystem to remap permissions (haven't anything like this yet)