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Simplify system tests command files

Afonso Mukai requested to merge simplify_system_tests into refactor_message_filters

Created by: mattclarke

Issue

N/A

Description of work

Removed some of the command files by using a generic stop command file and getting the job id from the start command.

A number of the start command files could also be removed by supplying start and stop times, and file names from the method.

May make sense to break the send_writer_command into two separate start and stop commands for clarity. Not sure.

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