Class: LabwareCreators::PooledTubesFromWholePlates

Inherits:
Base
  • Object
show all
Includes:
CustomPage, SupportParent::TaggedPlateOnly
Defined in:
app/models/labware_creators/pooled_tubes_from_whole_plates.rb

Overview

Pools one or more plates into a single tube. Useful for MiSeqQC

Instance Attribute Summary collapse

Instance Method Summary collapse

Constructor Details

This class inherits a constructor from LabwareCreators::Base

Instance Attribute Details

#barcodes ⇒ Object

Returns the value of attribute barcodes.



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# File 'app/models/labware_creators/pooled_tubes_from_whole_plates.rb', line 8

def barcodes
  @barcodes
end

#child ⇒ Object (readonly)

Returns the value of attribute child.



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# File 'app/models/labware_creators/pooled_tubes_from_whole_plates.rb', line 8

def child
  @child
end

#tube_transfer ⇒ Object (readonly)

Returns the value of attribute tube_transfer.



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# File 'app/models/labware_creators/pooled_tubes_from_whole_plates.rb', line 8

def tube_transfer
  @tube_transfer
end

Instance Method Details

#available_plates ⇒ Object

TODO: This should probably be asynchronous



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# File 'app/models/labware_creators/pooled_tubes_from_whole_plates.rb', line 46

def available_plates
  @search_options = OngoingPlate.new(purposes: [parent.plate_purpose.uuid], include_used: false, states: ['passed'])
  @search_results = plate_search.all(Limber::Plate, @search_options.search_parameters)
end

#create_labware! ⇒ Object

rubocop:todo Metrics/AbcSize



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# File 'app/models/labware_creators/pooled_tubes_from_whole_plates.rb', line 16

def create_labware! # rubocop:todo Metrics/AbcSize
  # Create a single tube
  # TODO: This should link to multiple parents in production
  @child =
    api
      .specific_tube_creation
      .create!(
        user: user_uuid,
        parent: parents.first.uuid,
        child_purposes: [purpose_uuid],
        tube_attributes: [{ name: "#{stock_plate_barcode}+" }]
      )
      .children
      .first

  # Transfer EVERYTHING into it
  parents.each do |parent_plate|
    transfer_template.create!(user: user_uuid, source: parent_plate.uuid, destination: @child.uuid)
  end
end

#number_of_parent_labwares ⇒ Object 



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# File 'app/models/labware_creators/pooled_tubes_from_whole_plates.rb', line 67

def number_of_parent_labwares
  # default to 4 if value not found in config
  purpose_config.fetch(:number_of_parent_labwares, 4)
end

#parent ⇒ Object Originally defined in module SupportParent::TaggedPlateOnly

#parents ⇒ Object 



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# File 'app/models/labware_creators/pooled_tubes_from_whole_plates.rb', line 51

def parents
  @parents ||=
    api.search.find(Settings.searches['Find assets by barcode']).all(Limber::BarcodedAsset, barcode: barcodes)
end

#parents_suitable ⇒ Object 



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# File 'app/models/labware_creators/pooled_tubes_from_whole_plates.rb', line 56

def parents_suitable
  missing_barcodes = barcodes - parents.map { |p| p.barcode.machine }
  return if missing_barcodes.empty?

  errors.add(:barcodes, "could not be found: #{missing_barcodes}")
end

#plate_search ⇒ Object 



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# File 'app/models/labware_creators/pooled_tubes_from_whole_plates.rb', line 63

def plate_search
  api.search.find(Settings.searches['Find plates'])
end

#stock_plate_barcode ⇒ Object 



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# File 'app/models/labware_creators/pooled_tubes_from_whole_plates.rb', line 41

def stock_plate_barcode
  "#{parents.first.stock_plate.barcode.prefix}#{parents.first.stock_plate.barcode.number}"
end