WS-207: Final std_calibration changes for HTCondor environment

Changes:

Submit file:

• Updated submit file to copy pycapo PEX
• Updated submit file to copy back 3 output directories upon workflow completion

Shell script:

• Removed now-redundant first two lines
• Added chmod 770 . before product fetch
• Changed script calls to correctly reference relative locations of scripts
• Disabled call to ./deliver-cipl.sh

casa_envoy:

• Added swapping of path values in PPR with current directory if condor is being used (in temporary PPR for the run, which gets deleted after the run finished, with the old PPR restored)
  • Also swaps value for SCIPIPE_ROOTDIR, a CASA environment variable
• auditor now logs messages (fixed duplicate logging output)

Other:

• pycapo is now a submodule (a repo within our repo) in apps/cli/executables/pexable for easy and automated PEXing
• deliver-cipl.sh now correctly references relative pycapo PEX