Y24-083 cell counting driver file lrc pbs defrost plate

app/views/exports/hamilton_lrc_pbmc_defrost_pbs_to_cellaca.csv.erb

@@ -0,0 +1,35 @@
+<%# This template generates Hamilton LRC PBMC Defrost PBS to Cellaca CSV download. %>
+<%= CSV.generate_line [
+        'Workflow',
+        @workflow
+      ],
+      row_sep: ''
+%>
+<%= CSV.generate_line [], row_sep: "" %>
+<%=
+  CSV.generate_line [
+    'Plate Barcode',
+    'Well Position',
+    'Vac Tube Barcode',
+    'Sample Name',
+    'Well Name'
+  ], row_sep: ''
+%>
+<%
+  rows_array = []
+  filtered_wells = @plate.wells_in_columns.reject { |well| well.empty? || well.failed? }
+  filtered_wells.each do | well |
+    sample = well.aliquots.first.sample
+    row = [
+      @plate.labware_barcode.human,
+      well.location,
+      sample.sample_metadata.supplier_name,
+      sample.name,
+      well.name
+    ]
+    rows_array << row
+  end
+%>
+<% rows_array.each do |row| %>
+<%= CSV.generate_line row, row_sep: "" %>
+<% end %>

config/exports/exports.yml

@@ -193,26 +193,28 @@ hamilton_lrc_gem_x_5p_cherrypick_to_lrc_gem_x_5p_gex_dil:
   csv: hamilton_fixed_volume_dilutions
   plate_includes: wells.transfer_requests_as_target.source_asset
   workflow: Sample Dilution
-
+hamilton_lrc_pbmc_defrost_pbs_to_cellaca:
+  csv: hamilton_lrc_pbmc_defrost_pbs_to_cellaca
+  workflow: scRNA Core LRC PBMC Defrost PBS Cell Count
+  plate_includes:
+    - wells.qc_results
+    - wells.transfer_requests_as_target.source_asset
+    - wells.aliquots.study.poly_metadata
 hamilton_lrc_pbmc_bank_to_cellaca_common: &hamilton_lrc_pbmc_bank_to_cellaca_common
   workflow: scRNA Core LRC PBMC Bank Cell Count
   plate_includes:
     - wells.aliquots
     - wells.aliquots.sample
     - wells.aliquots.sample.sample_metadata
-
 hamilton_lrc_pbmc_bank_to_cellaca_4_count:
   <<: *hamilton_lrc_pbmc_bank_to_cellaca_common
   csv: hamilton_lrc_pbmc_bank_to_cellaca_4_count
-
 hamilton_lrc_pbmc_bank_to_cellaca_6_count:
   <<: *hamilton_lrc_pbmc_bank_to_cellaca_common
   csv: hamilton_lrc_pbmc_bank_to_cellaca_6_count
-
 hamilton_lrc_pbmc_bank_to_cellaca_12_count:
   <<: *hamilton_lrc_pbmc_bank_to_cellaca_common
   csv: hamilton_lrc_pbmc_bank_to_cellaca_12_count
-
 hamilton_lrc_pbmc_bank_to_cellaca_all_count:
   <<: *hamilton_lrc_pbmc_bank_to_cellaca_common
   csv: hamilton_lrc_pbmc_bank_to_cellaca_all_count

config/purposes/scrna_core_cdna_prep.wip.yml

@@ -26,22 +26,8 @@ LRC PBMC Defrost PBS:
   :asset_type: plate
   :label_template: plate_quad_qc # creates QC4 barcodes
   :file_links:
-    - name: 'Download Cellaca Input QC1'
-      id: cellaca_input_file
-      params:
-        page: 0
-    - name: 'Download Cellaca Input QC2'
-      id: cellaca_input_file
-      params:
-        page: 1
-    - name: 'Download Cellaca Input QC3'
-      id: cellaca_input_file
-      params:
-        page: 2
-    - name: 'Download Cellaca Input QC4'
-      id: cellaca_input_file
-      params:
-        page: 3
+    - name: 'Download Cellaca Count CSV'
+      id: hamilton_lrc_pbmc_defrost_pbs_to_cellaca
   :qc_thresholds:
     viability:
       units: '%'

spec/views/exports/hamilton_lrc_pbmc_defrost_pbs_to_cellaca.csv.erb_spec.rb

@@ -0,0 +1,56 @@
+# frozen_string_literal: true
+
+RSpec.describe 'exports/hamilton_lrc_pbmc_defrost_pbs_to_cellaca.csv.erb' do
+  has_a_working_api
+
+  let(:wells) do
+    (1..12).map do |index|  # one-based index
+      supplier_name = "vac-tube-barcode-#{index}"
+      sample_metadata = create(:v2_sample_metadata, supplier_name: supplier_name)
+      sample = create(:v2_sample, sample_metadata: sample_metadata)
+      aliquots = [create(:v2_aliquot, sample: sample)]
+      location = WellHelpers.well_at_column_index(index - 1)
+      create(:v2_well, aliquots: aliquots, location: location)
+    end
+  end
+
+  let(:plate) do
+    # Empty wells will be filtered out.
+    wells[0].aliquots = []
+    wells[1].aliquots = []
+
+    # Failed wells will be filtered out.
+    wells[2].state = 'failed'
+    wells[3].state = 'failed'
+
+    create(:v2_plate, wells: wells)
+  end
+
+  let(:workflow) { 'scRNA Core LRC PBMC Defrost PBS Cell Count' }
+
+  let(:expected_content) do
+    header = [
+      ['Workflow', workflow],
+      [],
+      ['Plate Barcode', 'Well Position', 'Vac Tube Barcode', 'Sample Name', 'Well Name']
+    ]
+    body =
+      (5..12).map do |index|  # one-based index
+        well = plate.wells_in_columns[index - 1]
+        sample = well.aliquots.first.sample
+        [plate.labware_barcode.human, well.location, sample.sample_metadata.supplier_name, sample.name, well.name]
+      end
+    header + body
+  end
+
+  before do
+    assign(:plate, plate)
+    assign(:workflow, workflow)
+  end
+
+  it 'renders the expected content' do
+    rows = CSV.parse(render)
+    expect(rows.size).to eq(11) # 8 body + 3 header rows
+    expect(rows).to eq(expected_content)
+  end
+end