Class: SampleAccessioningJob

Inherits:
Struct
  • Object
show all
Defined in:
app/jobs/sample_accessioning_job.rb

Overview

Sends sample data to the ENA or EGA in order to generate an accession number Records the generated accession number on the sample

See Also:

Instance Attribute Summary collapse

Instance Method Summary collapse

Instance Attribute Details

#accessionable ⇒ Object

Returns the value of attribute accessionable

Returns:

  • (Object) —

    the current value of accessionable



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# File 'app/jobs/sample_accessioning_job.rb', line 8

def accessionable
  @accessionable
end

Instance Method Details

#max_attempts ⇒ Object 



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# File 'app/jobs/sample_accessioning_job.rb', line 27

def max_attempts
  3
end

#perform ⇒ Object 



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# File 'app/jobs/sample_accessioning_job.rb', line 10

def perform
  submission = Accession::Submission.new(User.find_by(api_key: configatron.accession_local_key), accessionable)
  submission.post

  # update_accession_number returns true if an accession has been supplied, and the sample has been saved.
  # If this returns false, then we fail the job. This should catch any failure situations
  cause = 'EBI failed to update accession number, data may be invalid'

  submission.update_accession_number || raise_accession_error(submission, cause)
rescue AccessionService::AccessionServiceError => e
  handle_accession_error(e, submission, cause)
end

#queue_name ⇒ Object 



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# File 'app/jobs/sample_accessioning_job.rb', line 31

def queue_name
  'sample_accessioning'
end

#reschedule_at(current_time, _attempts) ⇒ Object 



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# File 'app/jobs/sample_accessioning_job.rb', line 23

def reschedule_at(current_time, _attempts)
  current_time + 1.day
end