Class: Labware
Overview
Labware represents a physical object which moves around the lab. It has one or more receptacles. rubocop:disable Metrics/ClassLength
Defined Under Namespace
Classes: CommentsController
Instance Attribute Summary collapse
Class Method Summary
collapse
Instance Method Summary
collapse
included
included
included, #unsaved_uuid!, #uuid
#after_comment_addition
Methods inherited from Asset
#asset_type_for_request_types, #barcode_number, #compatible_purposes, #contained_samples, #details, #generate_barcode, #get_qc_result_value_for, #has_stock_asset?, #label, #label=, #original_stock_plates, #prefix, #printable?, #printable_target, #register_stock!, #request_types, #type, #update_from_qc
#has_many_events, #has_many_lab_events, #has_one_event_with_family
#event_date, #fluidigm_stamp_date, #gel_qc_date, #pico_date, #qc_started_date, #sequenom_stamp_date
alias_association, convert_labware_to_receptacle_for, find_by_id_or_name, find_by_id_or_name!
Methods included from Squishify
extended
Instance Attribute Details
#storage_location_service ⇒ Object
Returns the value of attribute storage_location_service.
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# File 'app/models/labware.rb', line 12
def storage_location_service
@storage_location_service
end
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Class Method Details
.find_by_barcode(source_barcode) ⇒ Object
Also known as:
find_from_barcode
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# File 'app/models/labware.rb', line 311
def find_by_barcode(source_barcode)
with_barcode(source_barcode).first
end
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.find_from_any_barcode(source_barcode) ⇒ Object
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# File 'app/models/labware.rb', line 300
def find_from_any_barcode(source_barcode)
if source_barcode.blank?
nil
elsif /\A[0-9]{1,7}\z/.match?(source_barcode)
joins(:barcodes).order(:id).find_by('barcodes.barcode LIKE "__?_"', source_barcode)
else
find_by_barcode(source_barcode)
end
end
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.labwhere_locations(labware_barcodes) ⇒ Object
Bulk retrieves locations for multiple labwares at once Returns hash { labware barcode => location string, .. } e.g. { 'DN1234' => 'Sanger - Room 1 - Shelf 2' } Hash has blank values where location was not found for a particular barcode Or raises LabWhereClient::LabwhereException if Labwhere response is unexpected
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# File 'app/models/labware.rb', line 281
def labwhere_locations(labware_barcodes) info_from_labwhere = LabWhereClient::LabwareSearch.find_locations_by_barcodes(labware_barcodes)
if info_from_labwhere.blank?
raise LabWhereClient::LabwhereException, 'Labwhere service did not return information'
end
barcodes_to_parentage =
info_from_labwhere.labwares.each_with_object({}) { |info, obj| obj[info.barcode] = info.location.location_info }
unless labware_barcodes.count == barcodes_to_parentage.count
labware_barcodes.each do |barcode|
barcodes_to_parentage[barcode] ||= ''
end
end
barcodes_to_parentage
end
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.search_for_labware(params) ⇒ Object
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# File 'app/models/labware.rb', line 157
def self.search_for_labware(params)
(params[:faculty_sponsor_ids] || nil)
.with_study_id(params[:study_id] || nil)
.with_plate_purpose_ids(params[:plate_purpose_ids] || nil)
.created_between(params[:start_date], params[:end_date])
.filter_by_barcode(params[:barcodes] || nil)
.distinct
end
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Instance Method Details
#ancestor_of_purpose(ancestor_purpose_id) ⇒ Object
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# File 'app/models/labware.rb', line 203
def ancestor_of_purpose(ancestor_purpose_id)
return self if plate_purpose_id == ancestor_purpose_id
ancestors.order(id: :desc).find_by(plate_purpose_id: ancestor_purpose_id)
end
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#ancestors_of_purpose(ancestor_purpose_id) ⇒ Object
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# File 'app/models/labware.rb', line 209
def ancestors_of_purpose(ancestor_purpose_id)
return [self] if plate_purpose_id == ancestor_purpose_id
ancestors.order(id: :desc).where(plate_purpose_id: ancestor_purpose_id)
end
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#child ⇒ Object
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# File 'app/models/labware.rb', line 321
def child
children.last
end
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#display_name ⇒ Object
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# File 'app/models/labware.rb', line 242
def display_name
name.presence || "#{sti_type} #{id}"
end
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#external_identifier ⇒ Object
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# File 'app/models/labware.rb', line 199
def external_identifier
"#{sti_type}#{id}"
end
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#generate_name(new_name) ⇒ Object
Note:
Overridden on subclasses to append the asset id to the name via on_create callbacks
Assigns name
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# File 'app/models/labware.rb', line 238
def generate_name(new_name)
self.name = new_name
end
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#labware ⇒ Object
Labware reflects the physical piece of plastic corresponding to an asset
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# File 'app/models/labware.rb', line 251
def labware
self
end
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#labwhere_location ⇒ Object
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# File 'app/models/labware.rb', line 246
def labwhere_location
@labwhere_location ||= lookup_labwhere_location
end
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#parent ⇒ Object
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# File 'app/models/labware.rb', line 317
def parent
parents.first
end
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#received_date ⇒ Object
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# File 'app/models/labware.rb', line 263
def received_date
asset_audits &.where('`key` = ? AND message LIKE ?', 'slf_receive_plates', '%Reception fridge%')
&.order(:created_at)
&.last
&.created_at
end
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#retention_instructions ⇒ Object
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# File 'app/models/labware.rb', line 271
def retention_instructions
@retention_instructions ||= obtain_retention_instructions
end
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#role ⇒ Object
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# File 'app/models/labware.rb', line 223
def role
(requests_as_source.first || in_progress_requests.first)&.role
end
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#scanned_in_date ⇒ Object
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# File 'app/models/labware.rb', line 259
def scanned_in_date
scanned_into_lab_event.try(:content) || ''
end
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#source_plate ⇒ Object
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# File 'app/models/labware.rb', line 227
def source_plate
@source_plate ||= purpose&.source_plate(self)
end
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#source_plates ⇒ Object
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# File 'app/models/labware.rb', line 231
def source_plates
@source_plates ||= purpose&.source_plates(self)
end
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#spiked_in_buffer ⇒ Object
Gets the relevant SpikedBuffer tube, if one exists, by using the two associations. A direct parent SpikedBuffer tube is used if it exists, otherwise the most recent ancestor. This was necessary to avoid affecting historical data, for which the direct parent should be used, even though there is another ancestor that was created more recently.
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# File 'app/models/labware.rb', line 219
def spiked_in_buffer
direct_spiked_in_buffer || most_recent_spiked_in_buffer
end
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#state ⇒ Object
Provided for API compatibility
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# File 'app/models/labware.rb', line 195
def state
nil
end
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#storage_location ⇒ Object
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# File 'app/models/labware.rb', line 255
def storage_location
@storage_location ||= obtain_storage_location
end
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