sanger / automanual Goto Github PK

Description
A cursory examination of automanual shows it queries the MLWH table iseq_run_lane_metrics for the QC status of runs and posts this information to a SequenceScape endpoint.

I would like to establish:

• Check the automanual logs, when did automanual last call the SequenceScape API?
• Where is the QC information provided by the API call displayed in SequenceScape?
• Ask NPG if they are calling the SS API on automatic QC.
• Assuming NPG are calling the SS API on QC results, why is this needed for manual QC passes? (Are these NPG calls not being made on manual QC? Is there an ordering problem on the state field, i.e. it's set to passed and then set to something else....?)

Who the primary contacts are for this work
TW

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Describe the bug
Getting following error in uat

Traceback (most recent call last):
  File "main.py", line 186, in magic
    find_and_complete(config, lanes_info)
  File "main.py", line 173, in find_and_complete
    cursor.execute(mlwh_query)
  File "/usr/local/lib/python3.8/site-packages/mysql/connector/cursor.py", line 569, in execute
    self._handle_result(self._connection.cmd_query(stmt))
  File "/usr/local/lib/python3.8/site-packages/mysql/connector/connection.py", line 598, in cmd_query
    result = self._handle_result(self._send_cmd(ServerCmd.QUERY, query))
  File "/usr/local/lib/python3.8/site-packages/mysql/connector/connection.py", line 486, in _handle_result
    raise errors.get_exception(packet)
mysql.connector.errors.ProgrammingError: 1054 (42S22): Unknown column 'qc_seq' in 'field list'
2020-12-15 03:13:27,803 root:189 ERROR:None
2020-12-15 03:13:27,803 root:190 ERROR:1054 (42S22): Unknown column 'qc_seq' in 'field list'

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