Rework API - remove lots of legacy cruft and improve endpoint naming.

Routes going from:

GET: [/managers/<manager_name>]/setup
GET: [/managers/<manager_name>]/clean?job_id=
GET: [/managers/<manager_name>]/launch?job_id=
GET: [/managers/<manager_name>]/check_complete?job_id=
GET: [/managers/<manager_name>]/kill?job_id=
GET: [/managers/<manager_name>]/upload_input?job_id=
GET: [/managers/<manager_name>]/upload_extra_input?job_id=
GET: [/managers/<manager_name>]/upload_config_file?job_id=
GET: [/managers/<manager_name>]/upload_working_directory_file?job_id=
GET: [/managers/<manager_name>]/upload_unstructured_file?job_id=
GET: [/managers/<manager_name>]/download_output?job_id=
GET: [/managers/<manager_name>]/output_path?job_id=
GET: [/managers/<manager_name>]/get_output_type?job_id=

To:

GET: [/managers/<manager_name>]/setup
GET: [/managers/<manager_name>]/clean?job_id=
GET: [/managers/<manager_name>]/submit?job_id= (was launch)
GET: [/managers/<manager_name>]/status?job_id= (was check_complete)
GET: [/managers/<manager_name>]/cancel?job_id= (was kill)
GET: [/managers/<manager_name>]/upload_input?job_id=
GET: [/managers/<manager_name>]/download_output?job_id=
GET: [/managers/<manager_name>]/output_path?job_id=