Relative paths don't work for PidFile and control_auth_cookie

When I use relative paths in my torrc, tor tells me what it will use for the PidFile, and then claims it can't find it. It also has a similar issue with a relative data directory and control_auth_cookie.

Oct 25 11:24:12.784 [warn] Path for PidFile (./data/tor.2/tor.pid) is relative and will resolve to /home/ubuntu/bwauth/torflow/NetworkScanners/BwAuthority/./data/tor.2/tor.pid. Is this what you wanted?
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Oct 25 11:24:12.000 [warn] Unable to open "./data/tor.2/tor.pid" for writing: No such file or directory
Oct 25 11:24:12.000 [warn] Couldn't open "./data/tor.2/control_auth_cookie.tmp" (./data/tor.2/control_auth_cookie) for writing: No such file or directory