CIP-2003 system test (and ec) updates for multiple delay models

• changes made to ec as part of the changes related multiple delay models in CIP-2003
  • linting changes, typo fix, lint/format fixes, using logger instead of as well as print statements, adding flush=True to print statements
• tested on the system-tests side
  • test a (last two histograms failed)
  • Test_14 all checkpoints and visibilities passed
• TODO: local test
• TODO: update ec-bite to check for and use the base time created by the dm formatter (if the file exists)