Get rid of permission 777 directories

[adamnovak]

Toil uses a make_public_dir() function to make world-writable directories to use as temp directories in the worker and the file store implementations, like this:

toil/src/toil/fileStores/nonCachingFileStore.py

Line 105 in 115be67

self.localTempDir: str = make_public_dir(self.localTempDir, suggested_name="job")

It's clear that we intended to do this. It's not clear to me why we intended to do this (maybe to solve Docker-related permission issues?), or that it's actually necessary. It's definitely a good way to have security problems in a multi-tenant environment.

We should stop doing this.

┆Issue is synchronized with this Jira Story
┆Issue Number: TOIL-1564