track SampleManifest updates Some samples get updated by a manifest and events get created Failure/Error: return unless row.plate_barcode && row.well_position NameError: undefined local variable or method `row' for #<SampleManifestExcel::Upload::Rows:0x00007ff7f80afda0 @DaTa=<SampleManifestExcel::Upload::Data: @header_row=["SANGER PLATE ID", "WELL", "SANGER SAMPLE ID", "SUPPLIER SAMPLE NAME", "COHORT", "VOLUME (ul)", "CONC. (ng/ul)", "GENDER", "COUNTRY OF ORIGIN", "GEOGRAPHICAL REGION", "ETHNICITY", "DNA SOURCE", "DATE OF SAMPLE COLLECTION (MM/YY or YYYY only)", "DATE OF DNA EXTRACTION (MM/YY or YYYY only)", "DNA EXTRACTION METHOD", "SAMPLE PURIFIED?", "PURIFICATION METHOD", "CONCENTRATION DETERMINED BY", "DNA STORAGE CONDITIONS", "MOTHER (optional)", "FATHER (optional)", "SIBLING (optional)", "GC CONTENT", "PUBLIC NAME", "TAXON ID", "COMMON NAME", "SAMPLE DESCRIPTION", "STRAIN", "SAMPLE TYPE", "SAMPLE ACCESSION NUMBER (optional)", "DONOR ID (required for cancer samples)", "PHENOTYPE (required for EGA)", nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil], @DaTa=[["SQPD-1234567", "B1", "sample_1", "aaaa", nil, "10", "20", "Male", "United Kingdom", nil, nil, "Genomic", "2022-12-12", nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, "Human", "9606", "Human", "Human", nil, nil, nil, "12345", nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil], ["SQPD-1234567", "C1", "sample_2", "bbbb", nil, "10", "20", "Male", "United Kingdom", nil, nil, "Genomic", "2022-12-12", nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, "Human", "9607", "Human", "Human", nil, nil, nil, "12345", nil, nil, nil, nil, nil, nil, "Any incomplete areas will be", nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil], ["SQPD-1234567", "D1", "sample_3", "Water", nil, "10", "20", "Male", "United Kingdom", nil, nil, "Genomic", "2022-12-12", nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, "Human", "9608", "Human", "Human", nil, nil, nil, "12345", nil, nil, nil, nil, nil, nil, "shaded in blue -", nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil], ["SQPD-1234567", "E1", "sample_4", "cccc", nil, "10", "20", "Male", "United Kingdom", nil, nil, "Genomic", "2022-12-12", nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, "Human", "9609", "Human", "Human", nil, nil, nil, "12345", nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil], ["SQPD-1234567", "F1", "sample_5", "Blank", nil, "10", "20", "Male", "United Kingdom", nil, nil, "Genomic", "2022-12-12", nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, "Human", "9610", "Human", "Human", nil, nil, nil, "12345", nil, nil, nil, nil, nil, nil, "Any incorrect data entries will", nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil], ["SQPD-1234567", "G1", "sample_6", "dddd", nil, "10", "20", "Male", "United Kingdom", nil, nil, "Genomic", "2022-12-12", nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, "Human", "9611", "Human", "Human", nil, nil, nil, "12345", nil, nil, nil, nil, nil, nil, "be shaded in red -", nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil], ["SQPD-1234567", "H1", "sample_7", nil, nil, "10", "20", "Male", "United Kingdom", nil, nil, "Genomic", "2022-12-12", nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, "Human", "9612", "Human", "Human", nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil], ["SQPD-1234567", "A2", "sample_8", "eeee", nil, "10", "20", "Male", "United Kingdom", nil, nil, "Genomic", "2022-12-12", nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, "Human", "9613", "Human", "Human", nil, nil, nil, "12345", nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil], ["SQPD-1234567", "B2", "sample_9", "EMPTY", nil, "10", "20", "Male", "United Kingdom", nil, nil, "Genomic", "2022-12-12", nil, nil, nil, nil, nil

Process completed with exit code 1.

The job was canceled because "_3_0" failed.

SampleManifestExcel::Upload::Processor#run SampleManifestExcel::Upload::Processor::TubeRack when has been previously uploaded will process Failure/Error: return unless row.plate_barcode && row.well_position NameError: undefined local variable or method `row' for #<SampleManifestExcel::Upload::Rows:0x000055bab91b4198 @DaTa=<SampleManifestExcel::Upload::Data: @header_row=["TUBE BARCODE", "SANGER SAMPLE ID", "SUPPLIER SAMPLE NAME", "REFERENCE GENOME", "COHORT", "VOLUME (ul)", "CONC. (ng/ul)", "GENDER", "COUNTRY OF ORIGIN", "GEOGRAPHICAL REGION", "ETHNICITY", "DNA SOURCE", "DATE OF SAMPLE COLLECTION (MM/YY or YYYY only)", "DATE OF DNA EXTRACTION (MM/YY or YYYY only)", "DNA EXTRACTION METHOD", "SAMPLE PURIFIED?", "PURIFICATION METHOD", "CONCENTRATION DETERMINED BY", "DNA STORAGE CONDITIONS", "MOTHER (optional)", "FATHER (optional)", "SIBLING (optional)", "GC CONTENT", "PUBLIC NAME", "TAXON ID", "COMMON NAME", "SAMPLE DESCRIPTION", "STRAIN", "SAMPLE TYPE", "SAMPLE ACCESSION NUMBER (optional)", "DONOR ID (required for EGA)", "PHENOTYPE (required for EGA)"], @DaTa=[["TB11111110", "sample_1", "SCG--1222_A0", "My reference genome", nil, "1", "1", "Unknown", "United Kingdom", nil, nil, "Cell Line", "Nov-16", "Nov-16", nil, "No", nil, nil, nil, nil, nil, nil, nil, "SCG--1222_A0", "9606", "Homo sapiens", nil, nil, nil, nil, "id", "Unknown"], ["TB11111111", "sample_2", "SCG--1222_A0", "My reference genome", nil, "1", "1", "Unknown", "United Kingdom", nil, nil, "Cell Line", "Nov-16", "Nov-16", nil, "No", nil, nil, nil, nil, nil, nil, nil, "SCG--1222_A0", "9606", "Homo sapiens", nil, nil, nil, nil, "id", "Unknown"]], @start_row=11, @file=#<Rack::Test::UploadedFile:0x000055bab8cb88b0>>, @columns=<SequencescapeExcel::ColumnList: @columns:["tube_barcode", "sanger_sample_id", "supplier_name", "reference_genome", "cohort", "volume", "concentration", "gender", "country_of_origin", "geographical_region", "ethnicity", "dna_source", "date_of_sample_collection", "date_of_sample_extraction", "sample_extraction_method", "sample_purified", "purification_method", "concentration_determined_by", "sample_storage_conditions", "mother", "father", "sibling", "gc_content", "sample_public_name", "sample_taxon_id", "sample_common_name", "sample_description", "sample_strain_att", "sample_type", "sample_ebi_accession_number", "donor_id", "phenotype"]...>, @Items=[#<SampleManifestExcel::Upload::Row:0x000055bab922ee70 @Number=12, @DaTa=["TB11111110", "sample_1", "SCG--1222_A0", "My reference genome", nil, "1", "1", "Unknown", "United Kingdom", nil, nil, "Cell Line", "Nov-16", "Nov-16", nil, "No", nil, nil, nil, nil, nil, nil, nil, "SCG--1222_A0", "9606", "Homo sapiens", nil, nil, nil, nil, "id", "Unknown"], @columns=<SequencescapeExcel::ColumnList: @columns:["tube_barcode", "sanger_sample_id", "supplier_name", "reference_genome", "cohort", "volume", "concentration", "gender", "country_of_origin", "geographical_region", "ethnicity", "dna_source", "date_of_sample_collection", "date_of_sample_extraction", "sample_extraction_method", "sample_purified", "purification_method", "concentration_determined_by", "sample_storage_conditions", "mother", "father", "sibling", "gc_content", "sample_public_name", "sample_taxon_id", "sample_common_name", "sample_description", "sample_strain_att", "sample_type", "sample_ebi_accession_number", "donor_id", "phenotype"]...>, @cache=#<SampleManifestExcel::Upload::Cache:0x000055bab907eb20 @base=<SampleManifestExcel::Upload::Base: @file=#<Rack::Test::UploadedFile:0x000055bab8cb88b0>, @columns=<SequencescapeExcel::ColumnList: @columns:["tube_barcode", "sanger_sample_id", "supplier_name", "reference_genome", "cohort", "volume", "concentration", "gender", "country_of_origin", "geographical_region", "ethnicity", "dna_source", "date_of_sample_collection", "date_of_sample_extraction", "sample_extraction_method", "sample_purified", "purification_method", "concentration_determined_by", "sample_storage_conditions", "mother", "father", "sibling", "gc_content", "sample_public_name", "sample_taxon_id", "sample_common_name", "sample_description",

SampleManifestExcel::Upload::Processor#run SampleManifestExcel::Upload::Processor::TubeRack when has been previously uploaded will not create any data Failure/Error: return unless row.plate_barcode && row.well_position NameError: undefined local variable or method `row' for #<SampleManifestExcel::Upload::Rows:0x000055babafd9470 @DaTa=<SampleManifestExcel::Upload::Data: @header_row=["TUBE BARCODE", "SANGER SAMPLE ID", "SUPPLIER SAMPLE NAME", "REFERENCE GENOME", "COHORT", "VOLUME (ul)", "CONC. (ng/ul)", "GENDER", "COUNTRY OF ORIGIN", "GEOGRAPHICAL REGION", "ETHNICITY", "DNA SOURCE", "DATE OF SAMPLE COLLECTION (MM/YY or YYYY only)", "DATE OF DNA EXTRACTION (MM/YY or YYYY only)", "DNA EXTRACTION METHOD", "SAMPLE PURIFIED?", "PURIFICATION METHOD", "CONCENTRATION DETERMINED BY", "DNA STORAGE CONDITIONS", "MOTHER (optional)", "FATHER (optional)", "SIBLING (optional)", "GC CONTENT", "PUBLIC NAME", "TAXON ID", "COMMON NAME", "SAMPLE DESCRIPTION", "STRAIN", "SAMPLE TYPE", "SAMPLE ACCESSION NUMBER (optional)", "DONOR ID (required for EGA)", "PHENOTYPE (required for EGA)"], @DaTa=[["TB11111110", "sample_1", "SCG--1222_A0", "My reference genome", nil, "1", "1", "Unknown", "United Kingdom", nil, nil, "Cell Line", "Nov-16", "Nov-16", nil, "No", nil, nil, nil, nil, nil, nil, nil, "SCG--1222_A0", "9606", "Homo sapiens", nil, nil, nil, nil, "id", "Unknown"], ["TB11111111", "sample_2", "SCG--1222_A0", "My reference genome", nil, "1", "1", "Unknown", "United Kingdom", nil, nil, "Cell Line", "Nov-16", "Nov-16", nil, "No", nil, nil, nil, nil, nil, nil, nil, "SCG--1222_A0", "9606", "Homo sapiens", nil, nil, nil, nil, "id", "Unknown"]], @start_row=11, @file=#<Rack::Test::UploadedFile:0x00007f9510faa710>>, @columns=<SequencescapeExcel::ColumnList: @columns:["tube_barcode", "sanger_sample_id", "supplier_name", "reference_genome", "cohort", "volume", "concentration", "gender", "country_of_origin", "geographical_region", "ethnicity", "dna_source", "date_of_sample_collection", "date_of_sample_extraction", "sample_extraction_method", "sample_purified", "purification_method", "concentration_determined_by", "sample_storage_conditions", "mother", "father", "sibling", "gc_content", "sample_public_name", "sample_taxon_id", "sample_common_name", "sample_description", "sample_strain_att", "sample_type", "sample_ebi_accession_number", "donor_id", "phenotype"]...>, @Items=[#<SampleManifestExcel::Upload::Row:0x000055babafd9358 @Number=12, @DaTa=["TB11111110", "sample_1", "SCG--1222_A0", "My reference genome", nil, "1", "1", "Unknown", "United Kingdom", nil, nil, "Cell Line", "Nov-16", "Nov-16", nil, "No", nil, nil, nil, nil, nil, nil, nil, "SCG--1222_A0", "9606", "Homo sapiens", nil, nil, nil, nil, "id", "Unknown"], @columns=<SequencescapeExcel::ColumnList: @columns:["tube_barcode", "sanger_sample_id", "supplier_name", "reference_genome", "cohort", "volume", "concentration", "gender", "country_of_origin", "geographical_region", "ethnicity", "dna_source", "date_of_sample_collection", "date_of_sample_extraction", "sample_extraction_method", "sample_purified", "purification_method", "concentration_determined_by", "sample_storage_conditions", "mother", "father", "sibling", "gc_content", "sample_public_name", "sample_taxon_id", "sample_common_name", "sample_description", "sample_strain_att", "sample_type", "sample_ebi_accession_number", "donor_id", "phenotype"]...>, @cache=#<SampleManifestExcel::Upload::Cache:0x000055babafd94e8 @base=<SampleManifestExcel::Upload::Base: @file=#<Rack::Test::UploadedFile:0x00007f9510faa710>, @columns=<SequencescapeExcel::ColumnList: @columns:["tube_barcode", "sanger_sample_id", "supplier_name", "reference_genome", "cohort", "volume", "concentration", "gender", "country_of_origin", "geographical_region", "ethnicity", "dna_source", "date_of_sample_collection", "date_of_sample_extraction", "sample_extraction_method", "sample_purified", "purification_method", "concentration_determined_by", "sample_storage_conditions", "mother", "father", "sibling", "gc_content", "sample_public_name", "sample_taxon_id", "sample_common_name", "sample_de

SampleManifestExcel::Upload::Processor#run SampleManifestExcel::Upload::Processor::TubeRack when valid with one tube rack behaves like tube rack manifest upload success case will generate barcodes for existing tubes Failure/Error: return unless row.plate_barcode && row.well_position NameError: undefined local variable or method `row' for #<SampleManifestExcel::Upload::Rows:0x000055bab85221a0 @DaTa=<SampleManifestExcel::Upload::Data: @header_row=["TUBE BARCODE", "SANGER SAMPLE ID", "SUPPLIER SAMPLE NAME", "REFERENCE GENOME", "COHORT", "VOLUME (ul)", "CONC. (ng/ul)", "GENDER", "COUNTRY OF ORIGIN", "GEOGRAPHICAL REGION", "ETHNICITY", "DNA SOURCE", "DATE OF SAMPLE COLLECTION (MM/YY or YYYY only)", "DATE OF DNA EXTRACTION (MM/YY or YYYY only)", "DNA EXTRACTION METHOD", "SAMPLE PURIFIED?", "PURIFICATION METHOD", "CONCENTRATION DETERMINED BY", "DNA STORAGE CONDITIONS", "MOTHER (optional)", "FATHER (optional)", "SIBLING (optional)", "GC CONTENT", "PUBLIC NAME", "TAXON ID", "COMMON NAME", "SAMPLE DESCRIPTION", "STRAIN", "SAMPLE TYPE", "SAMPLE ACCESSION NUMBER (optional)", "DONOR ID (required for EGA)", "PHENOTYPE (required for EGA)"], @DaTa=[["TB11111110", "sample_1", "SCG--1222_A0", "My reference genome", nil, "1", "1", "Unknown", "United Kingdom", nil, nil, "Cell Line", "Nov-16", "Nov-16", nil, "No", nil, nil, nil, nil, nil, nil, nil, "SCG--1222_A0", "9606", "Homo sapiens", nil, nil, nil, nil, "id", "Unknown"], ["TB11111111", "sample_2", "SCG--1222_A0", "My reference genome", nil, "1", "1", "Unknown", "United Kingdom", nil, nil, "Cell Line", "Nov-16", "Nov-16", nil, "No", nil, nil, nil, nil, nil, nil, nil, "SCG--1222_A0", "9606", "Homo sapiens", nil, nil, nil, nil, "id", "Unknown"]], @start_row=11, @file=#<Rack::Test::UploadedFile:0x000055bab8279098>>, @columns=<SequencescapeExcel::ColumnList: @columns:["tube_barcode", "sanger_sample_id", "supplier_name", "reference_genome", "cohort", "volume", "concentration", "gender", "country_of_origin", "geographical_region", "ethnicity", "dna_source", "date_of_sample_collection", "date_of_sample_extraction", "sample_extraction_method", "sample_purified", "purification_method", "concentration_determined_by", "sample_storage_conditions", "mother", "father", "sibling", "gc_content", "sample_public_name", "sample_taxon_id", "sample_common_name", "sample_description", "sample_strain_att", "sample_type", "sample_ebi_accession_number", "donor_id", "phenotype"]...>, @Items=[#<SampleManifestExcel::Upload::Row:0x000055bab8521d68 @Number=12, @DaTa=["TB11111110", "sample_1", "SCG--1222_A0", "My reference genome", nil, "1", "1", "Unknown", "United Kingdom", nil, nil, "Cell Line", "Nov-16", "Nov-16", nil, "No", nil, nil, nil, nil, nil, nil, nil, "SCG--1222_A0", "9606", "Homo sapiens", nil, nil, nil, nil, "id", "Unknown"], @columns=<SequencescapeExcel::ColumnList: @columns:["tube_barcode", "sanger_sample_id", "supplier_name", "reference_genome", "cohort", "volume", "concentration", "gender", "country_of_origin", "geographical_region", "ethnicity", "dna_source", "date_of_sample_collection", "date_of_sample_extraction", "sample_extraction_method", "sample_purified", "purification_method", "concentration_determined_by", "sample_storage_conditions", "mother", "father", "sibling", "gc_content", "sample_public_name", "sample_taxon_id", "sample_common_name", "sample_description", "sample_strain_att", "sample_type", "sample_ebi_accession_number", "donor_id", "phenotype"]...>, @cache=#<SampleManifestExcel::Upload::Cache:0x000055bab8522218 @base=<SampleManifestExcel::Upload::Base: @file=#<Rack::Test::UploadedFile:0x000055bab8279098>, @columns=<SequencescapeExcel::ColumnList: @columns:["tube_barcode", "sanger_sample_id", "supplier_name", "reference_genome", "cohort", "volume", "concentration", "gender", "country_of_origin", "geographical_region", "ethnicity", "dna_source", "date_of_sample_collection", "date_of_sample_extraction", "sample_extraction_method", "sample_purified", "purification_method", "concentration_determined_by", "sample_storage_conditions", "mother", "father", "sibling", "gc_content", "sample_

SampleManifestExcel::Upload::Processor#run SampleManifestExcel::Upload::Processor::TubeRack when valid with one tube rack behaves like tube rack manifest upload success case will not generate samples on validation Failure/Error: return unless row.plate_barcode && row.well_position NameError: undefined local variable or method `row' for #<SampleManifestExcel::Upload::Rows:0x00007f95109b2ee8 @DaTa=<SampleManifestExcel::Upload::Data: @header_row=["TUBE BARCODE", "SANGER SAMPLE ID", "SUPPLIER SAMPLE NAME", "REFERENCE GENOME", "COHORT", "VOLUME (ul)", "CONC. (ng/ul)", "GENDER", "COUNTRY OF ORIGIN", "GEOGRAPHICAL REGION", "ETHNICITY", "DNA SOURCE", "DATE OF SAMPLE COLLECTION (MM/YY or YYYY only)", "DATE OF DNA EXTRACTION (MM/YY or YYYY only)", "DNA EXTRACTION METHOD", "SAMPLE PURIFIED?", "PURIFICATION METHOD", "CONCENTRATION DETERMINED BY", "DNA STORAGE CONDITIONS", "MOTHER (optional)", "FATHER (optional)", "SIBLING (optional)", "GC CONTENT", "PUBLIC NAME", "TAXON ID", "COMMON NAME", "SAMPLE DESCRIPTION", "STRAIN", "SAMPLE TYPE", "SAMPLE ACCESSION NUMBER (optional)", "DONOR ID (required for EGA)", "PHENOTYPE (required for EGA)"], @DaTa=[["TB11111110", "sample_1", "SCG--1222_A0", "My reference genome", nil, "1", "1", "Unknown", "United Kingdom", nil, nil, "Cell Line", "Nov-16", "Nov-16", nil, "No", nil, nil, nil, nil, nil, nil, nil, "SCG--1222_A0", "9606", "Homo sapiens", nil, nil, nil, nil, "id", "Unknown"], ["TB11111111", "sample_2", "SCG--1222_A0", "My reference genome", nil, "1", "1", "Unknown", "United Kingdom", nil, nil, "Cell Line", "Nov-16", "Nov-16", nil, "No", nil, nil, nil, nil, nil, nil, nil, "SCG--1222_A0", "9606", "Homo sapiens", nil, nil, nil, nil, "id", "Unknown"]], @start_row=11, @file=#<Rack::Test::UploadedFile:0x00007f95103bef78>>, @columns=<SequencescapeExcel::ColumnList: @columns:["tube_barcode", "sanger_sample_id", "supplier_name", "reference_genome", "cohort", "volume", "concentration", "gender", "country_of_origin", "geographical_region", "ethnicity", "dna_source", "date_of_sample_collection", "date_of_sample_extraction", "sample_extraction_method", "sample_purified", "purification_method", "concentration_determined_by", "sample_storage_conditions", "mother", "father", "sibling", "gc_content", "sample_public_name", "sample_taxon_id", "sample_common_name", "sample_description", "sample_strain_att", "sample_type", "sample_ebi_accession_number", "donor_id", "phenotype"]...>, @Items=[#<SampleManifestExcel::Upload::Row:0x00007f95109b2da8 @Number=12, @DaTa=["TB11111110", "sample_1", "SCG--1222_A0", "My reference genome", nil, "1", "1", "Unknown", "United Kingdom", nil, nil, "Cell Line", "Nov-16", "Nov-16", nil, "No", nil, nil, nil, nil, nil, nil, nil, "SCG--1222_A0", "9606", "Homo sapiens", nil, nil, nil, nil, "id", "Unknown"], @columns=<SequencescapeExcel::ColumnList: @columns:["tube_barcode", "sanger_sample_id", "supplier_name", "reference_genome", "cohort", "volume", "concentration", "gender", "country_of_origin", "geographical_region", "ethnicity", "dna_source", "date_of_sample_collection", "date_of_sample_extraction", "sample_extraction_method", "sample_purified", "purification_method", "concentration_determined_by", "sample_storage_conditions", "mother", "father", "sibling", "gc_content", "sample_public_name", "sample_taxon_id", "sample_common_name", "sample_description", "sample_strain_att", "sample_type", "sample_ebi_accession_number", "donor_id", "phenotype"]...>, @cache=#<SampleManifestExcel::Upload::Cache:0x00007f95109b2f60 @base=<SampleManifestExcel::Upload::Base: @file=#<Rack::Test::UploadedFile:0x00007f95103bef78>, @columns=<SequencescapeExcel::ColumnList: @columns:["tube_barcode", "sanger_sample_id", "supplier_name", "reference_genome", "cohort", "volume", "concentration", "gender", "country_of_origin", "geographical_region", "ethnicity", "dna_source", "date_of_sample_collection", "date_of_sample_extraction", "sample_extraction_method", "sample_purified", "purification_method", "concentration_determined_by", "sample_storage_conditions", "mother", "father", "sibling", "gc_content", "sample_pu

SampleManifestExcel::Upload::Processor#run SampleManifestExcel::Upload::Processor::TubeRack when valid with one tube rack behaves like tube rack manifest upload success case will generate tube racks, with barcodes Failure/Error: return unless row.plate_barcode && row.well_position NameError: undefined local variable or method `row' for #<SampleManifestExcel::Upload::Rows:0x000055bab80a8660 @DaTa=<SampleManifestExcel::Upload::Data: @header_row=["TUBE BARCODE", "SANGER SAMPLE ID", "SUPPLIER SAMPLE NAME", "REFERENCE GENOME", "COHORT", "VOLUME (ul)", "CONC. (ng/ul)", "GENDER", "COUNTRY OF ORIGIN", "GEOGRAPHICAL REGION", "ETHNICITY", "DNA SOURCE", "DATE OF SAMPLE COLLECTION (MM/YY or YYYY only)", "DATE OF DNA EXTRACTION (MM/YY or YYYY only)", "DNA EXTRACTION METHOD", "SAMPLE PURIFIED?", "PURIFICATION METHOD", "CONCENTRATION DETERMINED BY", "DNA STORAGE CONDITIONS", "MOTHER (optional)", "FATHER (optional)", "SIBLING (optional)", "GC CONTENT", "PUBLIC NAME", "TAXON ID", "COMMON NAME", "SAMPLE DESCRIPTION", "STRAIN", "SAMPLE TYPE", "SAMPLE ACCESSION NUMBER (optional)", "DONOR ID (required for EGA)", "PHENOTYPE (required for EGA)"], @DaTa=[["TB11111110", "sample_1", "SCG--1222_A0", "My reference genome", nil, "1", "1", "Unknown", "United Kingdom", nil, nil, "Cell Line", "Nov-16", "Nov-16", nil, "No", nil, nil, nil, nil, nil, nil, nil, "SCG--1222_A0", "9606", "Homo sapiens", nil, nil, nil, nil, "id", "Unknown"], ["TB11111111", "sample_2", "SCG--1222_A0", "My reference genome", nil, "1", "1", "Unknown", "United Kingdom", nil, nil, "Cell Line", "Nov-16", "Nov-16", nil, "No", nil, nil, nil, nil, nil, nil, nil, "SCG--1222_A0", "9606", "Homo sapiens", nil, nil, nil, nil, "id", "Unknown"]], @start_row=11, @file=#<Rack::Test::UploadedFile:0x000055bab7411398>>, @columns=<SequencescapeExcel::ColumnList: @columns:["tube_barcode", "sanger_sample_id", "supplier_name", "reference_genome", "cohort", "volume", "concentration", "gender", "country_of_origin", "geographical_region", "ethnicity", "dna_source", "date_of_sample_collection", "date_of_sample_extraction", "sample_extraction_method", "sample_purified", "purification_method", "concentration_determined_by", "sample_storage_conditions", "mother", "father", "sibling", "gc_content", "sample_public_name", "sample_taxon_id", "sample_common_name", "sample_description", "sample_strain_att", "sample_type", "sample_ebi_accession_number", "donor_id", "phenotype"]...>, @Items=[#<SampleManifestExcel::Upload::Row:0x000055bab80a82a0 @Number=12, @DaTa=["TB11111110", "sample_1", "SCG--1222_A0", "My reference genome", nil, "1", "1", "Unknown", "United Kingdom", nil, nil, "Cell Line", "Nov-16", "Nov-16", nil, "No", nil, nil, nil, nil, nil, nil, nil, "SCG--1222_A0", "9606", "Homo sapiens", nil, nil, nil, nil, "id", "Unknown"], @columns=<SequencescapeExcel::ColumnList: @columns:["tube_barcode", "sanger_sample_id", "supplier_name", "reference_genome", "cohort", "volume", "concentration", "gender", "country_of_origin", "geographical_region", "ethnicity", "dna_source", "date_of_sample_collection", "date_of_sample_extraction", "sample_extraction_method", "sample_purified", "purification_method", "concentration_determined_by", "sample_storage_conditions", "mother", "father", "sibling", "gc_content", "sample_public_name", "sample_taxon_id", "sample_common_name", "sample_description", "sample_strain_att", "sample_type", "sample_ebi_accession_number", "donor_id", "phenotype"]...>, @cache=#<SampleManifestExcel::Upload::Cache:0x000055bab80a8728 @base=<SampleManifestExcel::Upload::Base: @file=#<Rack::Test::UploadedFile:0x000055bab7411398>, @columns=<SequencescapeExcel::ColumnList: @columns:["tube_barcode", "sanger_sample_id", "supplier_name", "reference_genome", "cohort", "volume", "concentration", "gender", "country_of_origin", "geographical_region", "ethnicity", "dna_source", "date_of_sample_collection", "date_of_sample_extraction", "sample_extraction_method", "sample_purified", "purification_method", "concentration_determined_by", "sample_storage_conditions", "mother", "father", "sibling", "gc_content", "sample_pu

SampleManifestExcel::Upload::Processor#run SampleManifestExcel::Upload::Processor::TubeRack when valid with one tube rack behaves like tube rack manifest upload success case will not generate samples on intitialization Failure/Error: return unless row.plate_barcode && row.well_position NameError: undefined local variable or method `row' for #<SampleManifestExcel::Upload::Rows:0x00007f95106d68a0 @DaTa=<SampleManifestExcel::Upload::Data: @header_row=["TUBE BARCODE", "SANGER SAMPLE ID", "SUPPLIER SAMPLE NAME", "REFERENCE GENOME", "COHORT", "VOLUME (ul)", "CONC. (ng/ul)", "GENDER", "COUNTRY OF ORIGIN", "GEOGRAPHICAL REGION", "ETHNICITY", "DNA SOURCE", "DATE OF SAMPLE COLLECTION (MM/YY or YYYY only)", "DATE OF DNA EXTRACTION (MM/YY or YYYY only)", "DNA EXTRACTION METHOD", "SAMPLE PURIFIED?", "PURIFICATION METHOD", "CONCENTRATION DETERMINED BY", "DNA STORAGE CONDITIONS", "MOTHER (optional)", "FATHER (optional)", "SIBLING (optional)", "GC CONTENT", "PUBLIC NAME", "TAXON ID", "COMMON NAME", "SAMPLE DESCRIPTION", "STRAIN", "SAMPLE TYPE", "SAMPLE ACCESSION NUMBER (optional)", "DONOR ID (required for EGA)", "PHENOTYPE (required for EGA)"], @DaTa=[["TB11111110", "sample_1", "SCG--1222_A0", "My reference genome", nil, "1", "1", "Unknown", "United Kingdom", nil, nil, "Cell Line", "Nov-16", "Nov-16", nil, "No", nil, nil, nil, nil, nil, nil, nil, "SCG--1222_A0", "9606", "Homo sapiens", nil, nil, nil, nil, "id", "Unknown"], ["TB11111111", "sample_2", "SCG--1222_A0", "My reference genome", nil, "1", "1", "Unknown", "United Kingdom", nil, nil, "Cell Line", "Nov-16", "Nov-16", nil, "No", nil, nil, nil, nil, nil, nil, nil, "SCG--1222_A0", "9606", "Homo sapiens", nil, nil, nil, nil, "id", "Unknown"]], @start_row=11, @file=#<Rack::Test::UploadedFile:0x00007f95105d6680>>, @columns=<SequencescapeExcel::ColumnList: @columns:["tube_barcode", "sanger_sample_id", "supplier_name", "reference_genome", "cohort", "volume", "concentration", "gender", "country_of_origin", "geographical_region", "ethnicity", "dna_source", "date_of_sample_collection", "date_of_sample_extraction", "sample_extraction_method", "sample_purified", "purification_method", "concentration_determined_by", "sample_storage_conditions", "mother", "father", "sibling", "gc_content", "sample_public_name", "sample_taxon_id", "sample_common_name", "sample_description", "sample_strain_att", "sample_type", "sample_ebi_accession_number", "donor_id", "phenotype"]...>, @Items=[#<SampleManifestExcel::Upload::Row:0x00007f95106d67b0 @Number=12, @DaTa=["TB11111110", "sample_1", "SCG--1222_A0", "My reference genome", nil, "1", "1", "Unknown", "United Kingdom", nil, nil, "Cell Line", "Nov-16", "Nov-16", nil, "No", nil, nil, nil, nil, nil, nil, nil, "SCG--1222_A0", "9606", "Homo sapiens", nil, nil, nil, nil, "id", "Unknown"], @columns=<SequencescapeExcel::ColumnList: @columns:["tube_barcode", "sanger_sample_id", "supplier_name", "reference_genome", "cohort", "volume", "concentration", "gender", "country_of_origin", "geographical_region", "ethnicity", "dna_source", "date_of_sample_collection", "date_of_sample_extraction", "sample_extraction_method", "sample_purified", "purification_method", "concentration_determined_by", "sample_storage_conditions", "mother", "father", "sibling", "gc_content", "sample_public_name", "sample_taxon_id", "sample_common_name", "sample_description", "sample_strain_att", "sample_type", "sample_ebi_accession_number", "donor_id", "phenotype"]...>, @cache=#<SampleManifestExcel::Upload::Cache:0x00007f95106d6918 @base=<SampleManifestExcel::Upload::Base: @file=#<Rack::Test::UploadedFile:0x00007f95105d6680>, @columns=<SequencescapeExcel::ColumnList: @columns:["tube_barcode", "sanger_sample_id", "supplier_name", "reference_genome", "cohort", "volume", "concentration", "gender", "country_of_origin", "geographical_region", "ethnicity", "dna_source", "date_of_sample_collection", "date_of_sample_extraction", "sample_extraction_method", "sample_purified", "purification_method", "concentration_determined_by", "sample_storage_conditions", "mother", "father", "sibling", "gc_content", "samp

SampleManifestExcel::Upload::Processor#run SampleManifestExcel::Upload::Processor::TubeRack when valid with one tube rack behaves like tube rack manifest upload success case will process Failure/Error: return unless row.plate_barcode && row.well_position NameError: undefined local variable or method `row' for #<SampleManifestExcel::Upload::Rows:0x000055bab8541b40 @DaTa=<SampleManifestExcel::Upload::Data: @header_row=["TUBE BARCODE", "SANGER SAMPLE ID", "SUPPLIER SAMPLE NAME", "REFERENCE GENOME", "COHORT", "VOLUME (ul)", "CONC. (ng/ul)", "GENDER", "COUNTRY OF ORIGIN", "GEOGRAPHICAL REGION", "ETHNICITY", "DNA SOURCE", "DATE OF SAMPLE COLLECTION (MM/YY or YYYY only)", "DATE OF DNA EXTRACTION (MM/YY or YYYY only)", "DNA EXTRACTION METHOD", "SAMPLE PURIFIED?", "PURIFICATION METHOD", "CONCENTRATION DETERMINED BY", "DNA STORAGE CONDITIONS", "MOTHER (optional)", "FATHER (optional)", "SIBLING (optional)", "GC CONTENT", "PUBLIC NAME", "TAXON ID", "COMMON NAME", "SAMPLE DESCRIPTION", "STRAIN", "SAMPLE TYPE", "SAMPLE ACCESSION NUMBER (optional)", "DONOR ID (required for EGA)", "PHENOTYPE (required for EGA)"], @DaTa=[["TB11111110", "sample_1", "SCG--1222_A0", "My reference genome", nil, "1", "1", "Unknown", "United Kingdom", nil, nil, "Cell Line", "Nov-16", "Nov-16", nil, "No", nil, nil, nil, nil, nil, nil, nil, "SCG--1222_A0", "9606", "Homo sapiens", nil, nil, nil, nil, "id", "Unknown"], ["TB11111111", "sample_2", "SCG--1222_A0", "My reference genome", nil, "1", "1", "Unknown", "United Kingdom", nil, nil, "Cell Line", "Nov-16", "Nov-16", nil, "No", nil, nil, nil, nil, nil, nil, nil, "SCG--1222_A0", "9606", "Homo sapiens", nil, nil, nil, nil, "id", "Unknown"]], @start_row=11, @file=#<Rack::Test::UploadedFile:0x000055bab8253c30>>, @columns=<SequencescapeExcel::ColumnList: @columns:["tube_barcode", "sanger_sample_id", "supplier_name", "reference_genome", "cohort", "volume", "concentration", "gender", "country_of_origin", "geographical_region", "ethnicity", "dna_source", "date_of_sample_collection", "date_of_sample_extraction", "sample_extraction_method", "sample_purified", "purification_method", "concentration_determined_by", "sample_storage_conditions", "mother", "father", "sibling", "gc_content", "sample_public_name", "sample_taxon_id", "sample_common_name", "sample_description", "sample_strain_att", "sample_type", "sample_ebi_accession_number", "donor_id", "phenotype"]...>, @Items=[#<SampleManifestExcel::Upload::Row:0x000055bab85416e0 @Number=12, @DaTa=["TB11111110", "sample_1", "SCG--1222_A0", "My reference genome", nil, "1", "1", "Unknown", "United Kingdom", nil, nil, "Cell Line", "Nov-16", "Nov-16", nil, "No", nil, nil, nil, nil, nil, nil, nil, "SCG--1222_A0", "9606", "Homo sapiens", nil, nil, nil, nil, "id", "Unknown"], @columns=<SequencescapeExcel::ColumnList: @columns:["tube_barcode", "sanger_sample_id", "supplier_name", "reference_genome", "cohort", "volume", "concentration", "gender", "country_of_origin", "geographical_region", "ethnicity", "dna_source", "date_of_sample_collection", "date_of_sample_extraction", "sample_extraction_method", "sample_purified", "purification_method", "concentration_determined_by", "sample_storage_conditions", "mother", "father", "sibling", "gc_content", "sample_public_name", "sample_taxon_id", "sample_common_name", "sample_description", "sample_strain_att", "sample_type", "sample_ebi_accession_number", "donor_id", "phenotype"]...>, @cache=#<SampleManifestExcel::Upload::Cache:0x000055bab8541d98 @base=<SampleManifestExcel::Upload::Base: @file=#<Rack::Test::UploadedFile:0x000055bab8253c30>, @columns=<SequencescapeExcel::ColumnList: @columns:["tube_barcode", "sanger_sample_id", "supplier_name", "reference_genome", "cohort", "volume", "concentration", "gender", "country_of_origin", "geographical_region", "ethnicity", "dna_source", "date_of_sample_collection", "date_of_sample_extraction", "sample_extraction_method", "sample_purified", "purification_method", "concentration_determined_by", "sample_storage_conditions", "mother", "father", "sibling", "gc_content", "sample_public_name", "sample_taxon_i

SampleManifestExcel::Upload::Processor#run SampleManifestExcel::Upload::Processor::TubeRack when valid with one tube rack behaves like tube rack manifest upload success case will generate racked tubes to link tubes to racks Failure/Error: return unless row.plate_barcode && row.well_position NameError: undefined local variable or method `row' for #<SampleManifestExcel::Upload::Rows:0x00007f9510a80f50 @DaTa=<SampleManifestExcel::Upload::Data: @header_row=["TUBE BARCODE", "SANGER SAMPLE ID", "SUPPLIER SAMPLE NAME", "REFERENCE GENOME", "COHORT", "VOLUME (ul)", "CONC. (ng/ul)", "GENDER", "COUNTRY OF ORIGIN", "GEOGRAPHICAL REGION", "ETHNICITY", "DNA SOURCE", "DATE OF SAMPLE COLLECTION (MM/YY or YYYY only)", "DATE OF DNA EXTRACTION (MM/YY or YYYY only)", "DNA EXTRACTION METHOD", "SAMPLE PURIFIED?", "PURIFICATION METHOD", "CONCENTRATION DETERMINED BY", "DNA STORAGE CONDITIONS", "MOTHER (optional)", "FATHER (optional)", "SIBLING (optional)", "GC CONTENT", "PUBLIC NAME", "TAXON ID", "COMMON NAME", "SAMPLE DESCRIPTION", "STRAIN", "SAMPLE TYPE", "SAMPLE ACCESSION NUMBER (optional)", "DONOR ID (required for EGA)", "PHENOTYPE (required for EGA)"], @DaTa=[["TB11111110", "sample_1", "SCG--1222_A0", "My reference genome", nil, "1", "1", "Unknown", "United Kingdom", nil, nil, "Cell Line", "Nov-16", "Nov-16", nil, "No", nil, nil, nil, nil, nil, nil, nil, "SCG--1222_A0", "9606", "Homo sapiens", nil, nil, nil, nil, "id", "Unknown"], ["TB11111111", "sample_2", "SCG--1222_A0", "My reference genome", nil, "1", "1", "Unknown", "United Kingdom", nil, nil, "Cell Line", "Nov-16", "Nov-16", nil, "No", nil, nil, nil, nil, nil, nil, nil, "SCG--1222_A0", "9606", "Homo sapiens", nil, nil, nil, nil, "id", "Unknown"]], @start_row=11, @file=#<Rack::Test::UploadedFile:0x00007f95108d6bf0>>, @columns=<SequencescapeExcel::ColumnList: @columns:["tube_barcode", "sanger_sample_id", "supplier_name", "reference_genome", "cohort", "volume", "concentration", "gender", "country_of_origin", "geographical_region", "ethnicity", "dna_source", "date_of_sample_collection", "date_of_sample_extraction", "sample_extraction_method", "sample_purified", "purification_method", "concentration_determined_by", "sample_storage_conditions", "mother", "father", "sibling", "gc_content", "sample_public_name", "sample_taxon_id", "sample_common_name", "sample_description", "sample_strain_att", "sample_type", "sample_ebi_accession_number", "donor_id", "phenotype"]...>, @Items=[#<SampleManifestExcel::Upload::Row:0x00007f9510a80e38 @Number=12, @DaTa=["TB11111110", "sample_1", "SCG--1222_A0", "My reference genome", nil, "1", "1", "Unknown", "United Kingdom", nil, nil, "Cell Line", "Nov-16", "Nov-16", nil, "No", nil, nil, nil, nil, nil, nil, nil, "SCG--1222_A0", "9606", "Homo sapiens", nil, nil, nil, nil, "id", "Unknown"], @columns=<SequencescapeExcel::ColumnList: @columns:["tube_barcode", "sanger_sample_id", "supplier_name", "reference_genome", "cohort", "volume", "concentration", "gender", "country_of_origin", "geographical_region", "ethnicity", "dna_source", "date_of_sample_collection", "date_of_sample_extraction", "sample_extraction_method", "sample_purified", "purification_method", "concentration_determined_by", "sample_storage_conditions", "mother", "father", "sibling", "gc_content", "sample_public_name", "sample_taxon_id", "sample_common_name", "sample_description", "sample_strain_att", "sample_type", "sample_ebi_accession_number", "donor_id", "phenotype"]...>, @cache=#<SampleManifestExcel::Upload::Cache:0x00007f9510a81018 @base=<SampleManifestExcel::Upload::Base: @file=#<Rack::Test::UploadedFile:0x00007f95108d6bf0>, @columns=<SequencescapeExcel::ColumnList: @columns:["tube_barcode", "sanger_sample_id", "supplier_name", "reference_genome", "cohort", "volume", "concentration", "gender", "country_of_origin", "geographical_region", "ethnicity", "dna_source", "date_of_sample_collection", "date_of_sample_extraction", "sample_extraction_method", "sample_purified", "purification_method", "concentration_determined_by", "sample_storage_conditions", "mother", "father", "sibling", "gc_content",

SampleManifestExcel::Upload::Processor#run SampleManifestExcel::Upload::Processor::TubeRack when manifest has no tube rack barcodes will not create any data Failure/Error: return unless row.plate_barcode && row.well_position NameError: undefined local variable or method `row' for #<SampleManifestExcel::Upload::Rows:0x000055bab95afc70 @DaTa=<SampleManifestExcel::Upload::Data: @header_row=["TUBE BARCODE", "SANGER SAMPLE ID", "SUPPLIER SAMPLE NAME", "REFERENCE GENOME", "COHORT", "VOLUME (ul)", "CONC. (ng/ul)", "GENDER", "COUNTRY OF ORIGIN", "GEOGRAPHICAL REGION", "ETHNICITY", "DNA SOURCE", "DATE OF SAMPLE COLLECTION (MM/YY or YYYY only)", "DATE OF DNA EXTRACTION (MM/YY or YYYY only)", "DNA EXTRACTION METHOD", "SAMPLE PURIFIED?", "PURIFICATION METHOD", "CONCENTRATION DETERMINED BY", "DNA STORAGE CONDITIONS", "MOTHER (optional)", "FATHER (optional)", "SIBLING (optional)", "GC CONTENT", "PUBLIC NAME", "TAXON ID", "COMMON NAME", "SAMPLE DESCRIPTION", "STRAIN", "SAMPLE TYPE", "SAMPLE ACCESSION NUMBER (optional)", "DONOR ID (required for EGA)", "PHENOTYPE (required for EGA)"], @DaTa=[["TB11111110", "sample_1", "SCG--1222_A0", "My reference genome", nil, "1", "1", "Unknown", "United Kingdom", nil, nil, "Cell Line", "Nov-16", "Nov-16", nil, "No", nil, nil, nil, nil, nil, nil, nil, "SCG--1222_A0", "9606", "Homo sapiens", nil, nil, nil, nil, "id", "Unknown"], ["TB11111111", "sample_2", "SCG--1222_A0", "My reference genome", nil, "1", "1", "Unknown", "United Kingdom", nil, nil, "Cell Line", "Nov-16", "Nov-16", nil, "No", nil, nil, nil, nil, nil, nil, nil, "SCG--1222_A0", "9606", "Homo sapiens", nil, nil, nil, nil, "id", "Unknown"]], @start_row=10, @file=#<Rack::Test::UploadedFile:0x000055bab912c450>>, @columns=<SequencescapeExcel::ColumnList: @columns:["tube_barcode", "sanger_sample_id", "supplier_name", "reference_genome", "cohort", "volume", "concentration", "gender", "country_of_origin", "geographical_region", "ethnicity", "dna_source", "date_of_sample_collection", "date_of_sample_extraction", "sample_extraction_method", "sample_purified", "purification_method", "concentration_determined_by", "sample_storage_conditions", "mother", "father", "sibling", "gc_content", "sample_public_name", "sample_taxon_id", "sample_common_name", "sample_description", "sample_strain_att", "sample_type", "sample_ebi_accession_number", "donor_id", "phenotype"]...>, @Items=[#<SampleManifestExcel::Upload::Row:0x000055bab95afb08 @Number=11, @DaTa=["TB11111110", "sample_1", "SCG--1222_A0", "My reference genome", nil, "1", "1", "Unknown", "United Kingdom", nil, nil, "Cell Line", "Nov-16", "Nov-16", nil, "No", nil, nil, nil, nil, nil, nil, nil, "SCG--1222_A0", "9606", "Homo sapiens", nil, nil, nil, nil, "id", "Unknown"], @columns=<SequencescapeExcel::ColumnList: @columns:["tube_barcode", "sanger_sample_id", "supplier_name", "reference_genome", "cohort", "volume", "concentration", "gender", "country_of_origin", "geographical_region", "ethnicity", "dna_source", "date_of_sample_collection", "date_of_sample_extraction", "sample_extraction_method", "sample_purified", "purification_method", "concentration_determined_by", "sample_storage_conditions", "mother", "father", "sibling", "gc_content", "sample_public_name", "sample_taxon_id", "sample_common_name", "sample_description", "sample_strain_att", "sample_type", "sample_ebi_accession_number", "donor_id", "phenotype"]...>, @cache=#<SampleManifestExcel::Upload::Cache:0x000055bab95afce8 @base=<SampleManifestExcel::Upload::Base: @file=#<Rack::Test::UploadedFile:0x000055bab912c450>, @columns=<SequencescapeExcel::ColumnList: @columns:["tube_barcode", "sanger_sample_id", "supplier_name", "reference_genome", "cohort", "volume", "concentration", "gender", "country_of_origin", "geographical_region", "ethnicity", "dna_source", "date_of_sample_collection", "date_of_sample_extraction", "sample_extraction_method", "sample_purified", "purification_method", "concentration_determined_by", "sample_storage_conditions", "mother", "father", "sibling", "gc_content", "sample_public_name", "sample_taxon_id", "sample_common_name", "sam

SampleManifestExcel::Upload::Processor#run SampleManifestExcel::Upload::Processor::TubeRack when manifest has no tube rack barcodes will not process Failure/Error: return unless row.plate_barcode && row.well_position NameError: undefined local variable or method `row' for #<SampleManifestExcel::Upload::Rows:0x000055babadaafc8 @DaTa=<SampleManifestExcel::Upload::Data: @header_row=["TUBE BARCODE", "SANGER SAMPLE ID", "SUPPLIER SAMPLE NAME", "REFERENCE GENOME", "COHORT", "VOLUME (ul)", "CONC. (ng/ul)", "GENDER", "COUNTRY OF ORIGIN", "GEOGRAPHICAL REGION", "ETHNICITY", "DNA SOURCE", "DATE OF SAMPLE COLLECTION (MM/YY or YYYY only)", "DATE OF DNA EXTRACTION (MM/YY or YYYY only)", "DNA EXTRACTION METHOD", "SAMPLE PURIFIED?", "PURIFICATION METHOD", "CONCENTRATION DETERMINED BY", "DNA STORAGE CONDITIONS", "MOTHER (optional)", "FATHER (optional)", "SIBLING (optional)", "GC CONTENT", "PUBLIC NAME", "TAXON ID", "COMMON NAME", "SAMPLE DESCRIPTION", "STRAIN", "SAMPLE TYPE", "SAMPLE ACCESSION NUMBER (optional)", "DONOR ID (required for EGA)", "PHENOTYPE (required for EGA)"], @DaTa=[["TB11111110", "sample_1", "SCG--1222_A0", "My reference genome", nil, "1", "1", "Unknown", "United Kingdom", nil, nil, "Cell Line", "Nov-16", "Nov-16", nil, "No", nil, nil, nil, nil, nil, nil, nil, "SCG--1222_A0", "9606", "Homo sapiens", nil, nil, nil, nil, "id", "Unknown"], ["TB11111111", "sample_2", "SCG--1222_A0", "My reference genome", nil, "1", "1", "Unknown", "United Kingdom", nil, nil, "Cell Line", "Nov-16", "Nov-16", nil, "No", nil, nil, nil, nil, nil, nil, nil, "SCG--1222_A0", "9606", "Homo sapiens", nil, nil, nil, nil, "id", "Unknown"]], @start_row=10, @file=#<Rack::Test::UploadedFile:0x00007f9510ad54d8>>, @columns=<SequencescapeExcel::ColumnList: @columns:["tube_barcode", "sanger_sample_id", "supplier_name", "reference_genome", "cohort", "volume", "concentration", "gender", "country_of_origin", "geographical_region", "ethnicity", "dna_source", "date_of_sample_collection", "date_of_sample_extraction", "sample_extraction_method", "sample_purified", "purification_method", "concentration_determined_by", "sample_storage_conditions", "mother", "father", "sibling", "gc_content", "sample_public_name", "sample_taxon_id", "sample_common_name", "sample_description", "sample_strain_att", "sample_type", "sample_ebi_accession_number", "donor_id", "phenotype"]...>, @Items=[#<SampleManifestExcel::Upload::Row:0x000055babadaaed8 @Number=11, @DaTa=["TB11111110", "sample_1", "SCG--1222_A0", "My reference genome", nil, "1", "1", "Unknown", "United Kingdom", nil, nil, "Cell Line", "Nov-16", "Nov-16", nil, "No", nil, nil, nil, nil, nil, nil, nil, "SCG--1222_A0", "9606", "Homo sapiens", nil, nil, nil, nil, "id", "Unknown"], @columns=<SequencescapeExcel::ColumnList: @columns:["tube_barcode", "sanger_sample_id", "supplier_name", "reference_genome", "cohort", "volume", "concentration", "gender", "country_of_origin", "geographical_region", "ethnicity", "dna_source", "date_of_sample_collection", "date_of_sample_extraction", "sample_extraction_method", "sample_purified", "purification_method", "concentration_determined_by", "sample_storage_conditions", "mother", "father", "sibling", "gc_content", "sample_public_name", "sample_taxon_id", "sample_common_name", "sample_description", "sample_strain_att", "sample_type", "sample_ebi_accession_number", "donor_id", "phenotype"]...>, @cache=#<SampleManifestExcel::Upload::Cache:0x000055babadab040 @base=<SampleManifestExcel::Upload::Base: @file=#<Rack::Test::UploadedFile:0x00007f9510ad54d8>, @columns=<SequencescapeExcel::ColumnList: @columns:["tube_barcode", "sanger_sample_id", "supplier_name", "reference_genome", "cohort", "volume", "concentration", "gender", "country_of_origin", "geographical_region", "ethnicity", "dna_source", "date_of_sample_collection", "date_of_sample_extraction", "sample_extraction_method", "sample_purified", "purification_method", "concentration_determined_by", "sample_storage_conditions", "mother", "father", "sibling", "gc_content", "sample_public_name", "sample_taxon_id", "sample_common_name", "sample_desc

The job was canceled because "_3_0" failed.

Sample manifest with tag sequences multiplexed tube sample manifest with tag sequences valid cgap foreign barcodes upload Failure/Error: return unless row.plate_barcode && row.well_position NameError: undefined local variable or method `row' for #<SampleManifestExcel::Upload::Rows:0x00005593b4bd8678 @DaTa=<SampleManifestExcel::Upload::Data: @header_row=["SANGER TUBE ID", "SANGER SAMPLE ID", "i7 TAG SEQUENCE", "i5 TAG SEQUENCE", "LIBRARY TYPE", "REFERENCE GENOME", "INSERT SIZE FROM", "INSERT SIZE TO", "SUPPLIER SAMPLE NAME", "COHORT", "VOLUME (ul)", "CONC. (ng/ul)", "GENDER", "COUNTRY OF ORIGIN", "GEOGRAPHICAL REGION", "ETHNICITY", "DNA SOURCE", "DATE OF SAMPLE COLLECTION (MM/YY or YYYY only)", "DATE OF DNA EXTRACTION (MM/YY or YYYY only)", "DNA EXTRACTION METHOD", "SAMPLE PURIFIED?", "PURIFICATION METHOD", "CONCENTRATION DETERMINED BY", "DNA STORAGE CONDITIONS", "MOTHER (optional)", "FATHER (optional)", "SIBLING (optional)", "GC CONTENT", "PUBLIC NAME", "TAXON ID", "COMMON NAME", "SAMPLE DESCRIPTION", "STRAIN", "SAMPLE TYPE", "SAMPLE ACCESSION NUMBER (optional)", "DONOR ID (required for EGA)", "PHENOTYPE (required for EGA)", "PRIMER PANEL", "CONTROL TYPE"], @DaTa=[["CGAP-11", "sample_1", "AA", "TT", "My personal library type", "My reference genome", "200", "1500", "SCG--1222_A0", nil, "1", "1", "Unknown", "United Kingdom", nil, nil, "Cell Line", "Nov-16", "Nov-16", nil, "No", nil, nil, nil, nil, nil, nil, nil, "SCG--1222_A0", "9606", "Homo sapiens", nil, nil, nil, nil, "id", "Unknown", nil, nil], ["CGAP-22", "sample_2", "AC", "TG", "My personal library type", "My reference genome", "200", "1500", "SCG--1222_A0", nil, "1", "1", "Unknown", "United Kingdom", nil, nil, "Cell Line", "Nov-16", "Nov-16", nil, "No", nil, nil, nil, nil, nil, nil, nil, "SCG--1222_A0", "9606", "Homo sapiens", nil, nil, nil, nil, "id", "Unknown", nil, nil], ["CGAP-33", "sample_3", "AG", "TC", "My personal library type", "My reference genome", "200", "1500", "SCG--1222_A0", nil, "1", "1", "Unknown", "United Kingdom", nil, nil, "Cell Line", "Nov-16", "Nov-16", nil, "No", nil, nil, nil, nil, nil, nil, nil, "SCG--1222_A0", "9606", "Homo sapiens", nil, nil, nil, nil, "id", "Unknown", nil, nil], ["CGAP-44", "sample_4", "AT", "TA", "My personal library type", "My reference genome", "200", "1500", "SCG--1222_A0", nil, "1", "1", "Unknown", "United Kingdom", nil, nil, "Cell Line", "Nov-16", "Nov-16", nil, "No", nil, nil, nil, nil, nil, nil, nil, "SCG--1222_A0", "9606", "Homo sapiens", nil, nil, nil, nil, "id", "Unknown", nil, nil], ["CGAP-55", "sample_5", "CA", "GT", "My personal library type", "My reference genome", "200", "1500", "SCG--1222_A0", nil, "1", "1", "Unknown", "United Kingdom", nil, nil, "Cell Line", "Nov-16", "Nov-16", nil, "No", nil, nil, nil, nil, nil, nil, nil, "SCG--1222_A0", "9606", "Homo sapiens", nil, nil, nil, nil, "id", "Unknown", nil, nil], ["CGAP-66", "sample_6", "CC", "GG", "My personal library type", "My reference genome", "200", "1500", "SCG--1222_A0", nil, "1", "1", "Unknown", "United Kingdom", nil, nil, "Cell Line", "Nov-16", "Nov-16", nil, "No", nil, nil, nil, nil, nil, nil, nil, "SCG--1222_A0", "9606", "Homo sapiens", nil, nil, nil, nil, "id", "Unknown", nil, nil]], @start_row=9, @file=#<ActionDispatch::Http::UploadedFile:0x00005593b490b918>>, @columns=<SequencescapeExcel::ColumnList: @columns:["sanger_tube_id", "sanger_sample_id", "i7", "i5", "library_type", "reference_genome", "insert_size_from", "insert_size_to", "supplier_name", "cohort", "volume", "concentration", "gender", "country_of_origin", "geographical_region", "ethnicity", "dna_source", "date_of_sample_collection", "date_of_sample_extraction", "sample_extraction_method", "sample_purified", "purification_method", "concentration_determined_by", "sample_storage_conditions", "mother", "father", "sibling", "gc_content", "sample_public_name", "sample_taxon_id", "sample_common_name", "bioscan_sample_description", "sample_strain_att", "sample_type", "sample_ebi_accession_number", "donor_id", "phenotype", "primer_panel", "control_type"]...>, @Items=[#<SampleManifestExcel

Sample manifest with tag sequences multiplexed tube sample manifest with tag sequences valid upload and reupload with override Failure/Error: return unless row.plate_barcode && row.well_position NameError: undefined local variable or method `row' for #<SampleManifestExcel::Upload::Rows:0x00005593b40a0be8 @DaTa=<SampleManifestExcel::Upload::Data: @header_row=["SANGER TUBE ID", "SANGER SAMPLE ID", "i7 TAG SEQUENCE", "i5 TAG SEQUENCE", "LIBRARY TYPE", "REFERENCE GENOME", "INSERT SIZE FROM", "INSERT SIZE TO", "SUPPLIER SAMPLE NAME", "COHORT", "VOLUME (ul)", "CONC. (ng/ul)", "GENDER", "COUNTRY OF ORIGIN", "GEOGRAPHICAL REGION", "ETHNICITY", "DNA SOURCE", "DATE OF SAMPLE COLLECTION (MM/YY or YYYY only)", "DATE OF DNA EXTRACTION (MM/YY or YYYY only)", "DNA EXTRACTION METHOD", "SAMPLE PURIFIED?", "PURIFICATION METHOD", "CONCENTRATION DETERMINED BY", "DNA STORAGE CONDITIONS", "MOTHER (optional)", "FATHER (optional)", "SIBLING (optional)", "GC CONTENT", "PUBLIC NAME", "TAXON ID", "COMMON NAME", "SAMPLE DESCRIPTION", "STRAIN", "SAMPLE TYPE", "SAMPLE ACCESSION NUMBER (optional)", "DONOR ID (required for EGA)", "PHENOTYPE (required for EGA)", "PRIMER PANEL", "CONTROL TYPE"], @DaTa=[["NT1O", "sample_1", "AA", "TT", "My personal library type", "My reference genome", "200", "1500", "SCG--1222_A0", nil, "1", "1", "Unknown", "United Kingdom", nil, nil, "Cell Line", "Nov-16", "Nov-16", nil, "No", nil, nil, nil, nil, nil, nil, nil, "SCG--1222_A0", "9606", "Homo sapiens", nil, nil, nil, nil, "id", "Unknown", nil, nil], ["NT2P", "sample_2", "AC", "TG", "My personal library type", "My reference genome", "200", "1500", "SCG--1222_A0", nil, "1", "1", "Unknown", "United Kingdom", nil, nil, "Cell Line", "Nov-16", "Nov-16", nil, "No", nil, nil, nil, nil, nil, nil, nil, "SCG--1222_A0", "9606", "Homo sapiens", nil, nil, nil, nil, "id", "Unknown", nil, nil], ["NT3Q", "sample_3", "AG", "TC", "My personal library type", "My reference genome", "200", "1500", "SCG--1222_A0", nil, "1", "1", "Unknown", "United Kingdom", nil, nil, "Cell Line", "Nov-16", "Nov-16", nil, "No", nil, nil, nil, nil, nil, nil, nil, "SCG--1222_A0", "9606", "Homo sapiens", nil, nil, nil, nil, "id", "Unknown", nil, nil], ["NT4R", "sample_4", "AT", "TA", "My personal library type", "My reference genome", "200", "1500", "SCG--1222_A0", nil, "1", "1", "Unknown", "United Kingdom", nil, nil, "Cell Line", "Nov-16", "Nov-16", nil, "No", nil, nil, nil, nil, nil, nil, nil, "SCG--1222_A0", "9606", "Homo sapiens", nil, nil, nil, nil, "id", "Unknown", nil, nil], ["NT5S", "sample_5", "CA", "GT", "My personal library type", "My reference genome", "200", "1500", "SCG--1222_A0", nil, "1", "1", "Unknown", "United Kingdom", nil, nil, "Cell Line", "Nov-16", "Nov-16", nil, "No", nil, nil, nil, nil, nil, nil, nil, "SCG--1222_A0", "9606", "Homo sapiens", nil, nil, nil, nil, "id", "Unknown", nil, nil], ["NT6T", "sample_6", "CC", "GG", "My personal library type", "My reference genome", "200", "1500", "SCG--1222_A0", nil, "1", "1", "Unknown", "United Kingdom", nil, nil, "Cell Line", "Nov-16", "Nov-16", nil, "No", nil, nil, nil, nil, nil, nil, nil, "SCG--1222_A0", "9606", "Homo sapiens", nil, nil, nil, nil, "id", "Unknown", nil, nil]], @start_row=9, @file=#<ActionDispatch::Http::UploadedFile:0x00005593b3d7aa18>>, @columns=<SequencescapeExcel::ColumnList: @columns:["sanger_tube_id", "sanger_sample_id", "i7", "i5", "library_type", "reference_genome", "insert_size_from", "insert_size_to", "supplier_name", "cohort", "volume", "concentration", "gender", "country_of_origin", "geographical_region", "ethnicity", "dna_source", "date_of_sample_collection", "date_of_sample_extraction", "sample_extraction_method", "sample_purified", "purification_method", "concentration_determined_by", "sample_storage_conditions", "mother", "father", "sibling", "gc_content", "sample_public_name", "sample_taxon_id", "sample_common_name", "bioscan_sample_description", "sample_strain_att", "sample_type", "sample_ebi_accession_number", "donor_id", "phenotype", "primer_panel", "control_type"]...>, @Items=[#<SampleManifestExcel::Upload::Row

Sample manifest with tag sequences multiplexed tube sample manifest with tag sequences invalid with cgap barcodes duplicates Failure/Error: return unless row.plate_barcode && row.well_position NameError: undefined local variable or method `row' for #<SampleManifestExcel::Upload::Rows:0x00005593b189f4f0 @DaTa=<SampleManifestExcel::Upload::Data: @header_row=["SANGER TUBE ID", "SANGER SAMPLE ID", "i7 TAG SEQUENCE", "i5 TAG SEQUENCE", "LIBRARY TYPE", "REFERENCE GENOME", "INSERT SIZE FROM", "INSERT SIZE TO", "SUPPLIER SAMPLE NAME", "COHORT", "VOLUME (ul)", "CONC. (ng/ul)", "GENDER", "COUNTRY OF ORIGIN", "GEOGRAPHICAL REGION", "ETHNICITY", "DNA SOURCE", "DATE OF SAMPLE COLLECTION (MM/YY or YYYY only)", "DATE OF DNA EXTRACTION (MM/YY or YYYY only)", "DNA EXTRACTION METHOD", "SAMPLE PURIFIED?", "PURIFICATION METHOD", "CONCENTRATION DETERMINED BY", "DNA STORAGE CONDITIONS", "MOTHER (optional)", "FATHER (optional)", "SIBLING (optional)", "GC CONTENT", "PUBLIC NAME", "TAXON ID", "COMMON NAME", "SAMPLE DESCRIPTION", "STRAIN", "SAMPLE TYPE", "SAMPLE ACCESSION NUMBER (optional)", "DONOR ID (required for EGA)", "PHENOTYPE (required for EGA)", "PRIMER PANEL", "CONTROL TYPE"], @DaTa=[["CGAP-99999", "sample_1", "AA", "TT", "My personal library type", "My reference genome", "200", "1500", "SCG--1222_A0", nil, "1", "1", "Unknown", "United Kingdom", nil, nil, "Cell Line", "Nov-16", "Nov-16", nil, "No", nil, nil, nil, nil, nil, nil, nil, "SCG--1222_A0", "9606", "Homo sapiens", nil, nil, nil, nil, "id", "Unknown", nil, nil], ["CGAP-99999", "sample_2", "AC", "TG", "My personal library type", "My reference genome", "200", "1500", "SCG--1222_A0", nil, "1", "1", "Unknown", "United Kingdom", nil, nil, "Cell Line", "Nov-16", "Nov-16", nil, "No", nil, nil, nil, nil, nil, nil, nil, "SCG--1222_A0", "9606", "Homo sapiens", nil, nil, nil, nil, "id", "Unknown", nil, nil], ["CGAP-33", "sample_3", "AG", "TC", "My personal library type", "My reference genome", "200", "1500", "SCG--1222_A0", nil, "1", "1", "Unknown", "United Kingdom", nil, nil, "Cell Line", "Nov-16", "Nov-16", nil, "No", nil, nil, nil, nil, nil, nil, nil, "SCG--1222_A0", "9606", "Homo sapiens", nil, nil, nil, nil, "id", "Unknown", nil, nil], ["CGAP-44", "sample_4", "AT", "TA", "My personal library type", "My reference genome", "200", "1500", "SCG--1222_A0", nil, "1", "1", "Unknown", "United Kingdom", nil, nil, "Cell Line", "Nov-16", "Nov-16", nil, "No", nil, nil, nil, nil, nil, nil, nil, "SCG--1222_A0", "9606", "Homo sapiens", nil, nil, nil, nil, "id", "Unknown", nil, nil], ["CGAP-55", "sample_5", "CA", "GT", "My personal library type", "My reference genome", "200", "1500", "SCG--1222_A0", nil, "1", "1", "Unknown", "United Kingdom", nil, nil, "Cell Line", "Nov-16", "Nov-16", nil, "No", nil, nil, nil, nil, nil, nil, nil, "SCG--1222_A0", "9606", "Homo sapiens", nil, nil, nil, nil, "id", "Unknown", nil, nil], ["CGAP-66", "sample_6", "CC", "GG", "My personal library type", "My reference genome", "200", "1500", "SCG--1222_A0", nil, "1", "1", "Unknown", "United Kingdom", nil, nil, "Cell Line", "Nov-16", "Nov-16", nil, "No", nil, nil, nil, nil, nil, nil, nil, "SCG--1222_A0", "9606", "Homo sapiens", nil, nil, nil, nil, "id", "Unknown", nil, nil]], @start_row=9, @file=#<ActionDispatch::Http::UploadedFile:0x00005593b152ff90>>, @columns=<SequencescapeExcel::ColumnList: @columns:["sanger_tube_id", "sanger_sample_id", "i7", "i5", "library_type", "reference_genome", "insert_size_from", "insert_size_to", "supplier_name", "cohort", "volume", "concentration", "gender", "country_of_origin", "geographical_region", "ethnicity", "dna_source", "date_of_sample_collection", "date_of_sample_extraction", "sample_extraction_method", "sample_purified", "purification_method", "concentration_determined_by", "sample_storage_conditions", "mother", "father", "sibling", "gc_content", "sample_public_name", "sample_taxon_id", "sample_common_name", "bioscan_sample_description", "sample_strain_att", "sample_type", "sample_ebi_accession_number", "donor_id", "phenotype", "primer_panel", "control_type"]...>, @Items=[#<SampleMani

Sample manifest with tag sequences multiplexed tube sample manifest with tag sequences invalid with cgap barcodes validation errors Failure/Error: return unless row.plate_barcode && row.well_position NameError: undefined local variable or method `row' for #<SampleManifestExcel::Upload::Rows:0x00005593b000a098 @DaTa=<SampleManifestExcel::Upload::Data: @header_row=["SANGER TUBE ID", "SANGER SAMPLE ID", "i7 TAG SEQUENCE", "i5 TAG SEQUENCE", "LIBRARY TYPE", "REFERENCE GENOME", "INSERT SIZE FROM", "INSERT SIZE TO", "SUPPLIER SAMPLE NAME", "COHORT", "VOLUME (ul)", "CONC. (ng/ul)", "GENDER", "COUNTRY OF ORIGIN", "GEOGRAPHICAL REGION", "ETHNICITY", "DNA SOURCE", "DATE OF SAMPLE COLLECTION (MM/YY or YYYY only)", "DATE OF DNA EXTRACTION (MM/YY or YYYY only)", "DNA EXTRACTION METHOD", "SAMPLE PURIFIED?", "PURIFICATION METHOD", "CONCENTRATION DETERMINED BY", "DNA STORAGE CONDITIONS", "MOTHER (optional)", "FATHER (optional)", "SIBLING (optional)", "GC CONTENT", "PUBLIC NAME", "TAXON ID", "COMMON NAME", "SAMPLE DESCRIPTION", "STRAIN", "SAMPLE TYPE", "SAMPLE ACCESSION NUMBER (optional)", "DONOR ID (required for EGA)", "PHENOTYPE (required for EGA)", "PRIMER PANEL", "CONTROL TYPE"], @DaTa=[["CGAP-11", "ABC", "AA", "TT", "My personal library type", "My reference genome", "200", "1500", "SCG--1222_A0", nil, "1", "1", "Unknown", "United Kingdom", nil, nil, "Cell Line", "Nov-16", "Nov-16", nil, "No", nil, nil, nil, nil, nil, nil, nil, "SCG--1222_A0", "9606", "Homo sapiens", nil, nil, nil, nil, "id", "Unknown", nil, nil], ["CGAP-22", "sample_2", "AC", "TG", "My personal library type", "My reference genome", "200", "1500", "SCG--1222_A0", nil, "1", "1", "Unknown", "United Kingdom", nil, nil, "Cell Line", "Nov-16", "Nov-16", nil, "No", nil, nil, nil, nil, nil, nil, nil, "SCG--1222_A0", "9606", "Homo sapiens", nil, nil, nil, nil, "id", "Unknown", nil, nil], ["CGAP-33", "sample_3", "AG", "TC", "My personal library type", "My reference genome", "200", "1500", "SCG--1222_A0", nil, "1", "1", "Unknown", "United Kingdom", nil, nil, "Cell Line", "Nov-16", "Nov-16", nil, "No", nil, nil, nil, nil, nil, nil, nil, "SCG--1222_A0", "9606", "Homo sapiens", nil, nil, nil, nil, "id", "Unknown", nil, nil], ["CGAP-44", "sample_4", "AT", "TA", "My personal library type", "My reference genome", "200", "1500", "SCG--1222_A0", nil, "1", "1", "Unknown", "United Kingdom", nil, nil, "Cell Line", "Nov-16", "Nov-16", nil, "No", nil, nil, nil, nil, nil, nil, nil, "SCG--1222_A0", "9606", "Homo sapiens", nil, nil, nil, nil, "id", "Unknown", nil, nil], ["CGAP-55", "sample_5", "CA", "GT", "My personal library type", "My reference genome", "200", "1500", "SCG--1222_A0", nil, "1", "1", "Unknown", "United Kingdom", nil, nil, "Cell Line", "Nov-16", "Nov-16", nil, "No", nil, nil, nil, nil, nil, nil, nil, "SCG--1222_A0", "9606", "Homo sapiens", nil, nil, nil, nil, "id", "Unknown", nil, nil], ["CGAP-66", "sample_6", "CC", "GG", "My personal library type", "My reference genome", "200", "1500", "SCG--1222_A0", nil, "1", "1", "Unknown", "United Kingdom", nil, nil, "Cell Line", "Nov-16", "Nov-16", nil, "No", nil, nil, nil, nil, nil, nil, nil, "SCG--1222_A0", "9606", "Homo sapiens", nil, nil, nil, nil, "id", "Unknown", nil, nil]], @start_row=9, @file=#<ActionDispatch::Http::UploadedFile:0x00005593b5706400>>, @columns=<SequencescapeExcel::ColumnList: @columns:["sanger_tube_id", "sanger_sample_id", "i7", "i5", "library_type", "reference_genome", "insert_size_from", "insert_size_to", "supplier_name", "cohort", "volume", "concentration", "gender", "country_of_origin", "geographical_region", "ethnicity", "dna_source", "date_of_sample_collection", "date_of_sample_extraction", "sample_extraction_method", "sample_purified", "purification_method", "concentration_determined_by", "sample_storage_conditions", "mother", "father", "sibling", "gc_content", "sample_public_name", "sample_taxon_id", "sample_common_name", "bioscan_sample_description", "sample_strain_att", "sample_type", "sample_ebi_accession_number", "donor_id", "phenotype", "primer_panel", "control_type"]...>, @Items=[#<SampleManifest

Sample manifest with tag sequences multiplexed tube sample manifest with tag sequences invalid upload validation errors Failure/Error: return unless row.plate_barcode && row.well_position NameError: undefined local variable or method `row' for #<SampleManifestExcel::Upload::Rows:0x00005593b41f0250 @DaTa=<SampleManifestExcel::Upload::Data: @header_row=["SANGER TUBE ID", "SANGER SAMPLE ID", "i7 TAG SEQUENCE", "i5 TAG SEQUENCE", "LIBRARY TYPE", "REFERENCE GENOME", "INSERT SIZE FROM", "INSERT SIZE TO", "SUPPLIER SAMPLE NAME", "COHORT", "VOLUME (ul)", "CONC. (ng/ul)", "GENDER", "COUNTRY OF ORIGIN", "GEOGRAPHICAL REGION", "ETHNICITY", "DNA SOURCE", "DATE OF SAMPLE COLLECTION (MM/YY or YYYY only)", "DATE OF DNA EXTRACTION (MM/YY or YYYY only)", "DNA EXTRACTION METHOD", "SAMPLE PURIFIED?", "PURIFICATION METHOD", "CONCENTRATION DETERMINED BY", "DNA STORAGE CONDITIONS", "MOTHER (optional)", "FATHER (optional)", "SIBLING (optional)", "GC CONTENT", "PUBLIC NAME", "TAXON ID", "COMMON NAME", "SAMPLE DESCRIPTION", "STRAIN", "SAMPLE TYPE", "SAMPLE ACCESSION NUMBER (optional)", "DONOR ID (required for EGA)", "PHENOTYPE (required for EGA)", "PRIMER PANEL", "CONTROL TYPE"], @DaTa=[["NT1O", "sample_1", "AA", "TT", "My personal library type", "My reference genome", "200", "1500", "SCG--1222_A0", nil, "1", "1", "Unknown", "United Kingdom", nil, nil, "Cell Line", "Nov-16", "Nov-16", nil, "No", nil, nil, nil, nil, nil, nil, nil, "SCG--1222_A0", "9606", "Homo sapiens", nil, nil, nil, nil, "id", "Unknown", nil, nil], ["NT2P", "sample_2", "AC", "TG", "My personal library type", "My reference genome", "200", "1500", "SCG--1222_A0", nil, "1", "1", "Unknown", "United Kingdom", nil, nil, "Cell Line", "Nov-16", "Nov-16", nil, "No", nil, nil, nil, nil, nil, nil, nil, "SCG--1222_A0", "9606", "Homo sapiens", nil, nil, nil, nil, "id", "Unknown", nil, nil], ["NT3Q", "sample_3", "AG", "TC", "My personal library type", "My reference genome", "200", "1500", "SCG--1222_A0", nil, "1", "1", "Unknown", "United Kingdom", nil, nil, "Cell Line", "Nov-16", "Nov-16", nil, "No", nil, nil, nil, nil, nil, nil, nil, "SCG--1222_A0", "9606", "Homo sapiens", nil, nil, nil, nil, "id", "Unknown", nil, nil], ["NT4R", "sample_4", "AT", "TA", "My personal library type", "My reference genome", "200", "1500", "SCG--1222_A0", nil, "1", "1", "Unknown", "United Kingdom", nil, nil, "Cell Line", "Nov-16", "Nov-16", nil, "No", nil, nil, nil, nil, nil, nil, nil, "SCG--1222_A0", "9606", "Homo sapiens", nil, nil, nil, nil, "id", "Unknown", nil, nil], ["NT5S", "sample_5", "CA", "GT", "My personal library type", "My reference genome", "200", "1500", "SCG--1222_A0", nil, "1", "1", "Unknown", "United Kingdom", nil, nil, "Cell Line", "Nov-16", "Nov-16", nil, "No", nil, nil, nil, nil, nil, nil, nil, "SCG--1222_A0", "9606", "Homo sapiens", nil, nil, nil, nil, "id", "Unknown", nil, nil], ["NT6T", "sample_6", "AA", "TT", "My personal library type", "My reference genome", "200", "1500", "SCG--1222_A0", nil, "1", "1", "Unknown", "United Kingdom", nil, nil, "Cell Line", "Nov-16", "Nov-16", nil, "No", nil, nil, nil, nil, nil, nil, nil, "SCG--1222_A0", "9606", "Homo sapiens", nil, nil, nil, nil, "id", "Unknown", nil, nil]], @start_row=9, @file=#<ActionDispatch::Http::UploadedFile:0x00005593b3fa2e80>>, @columns=<SequencescapeExcel::ColumnList: @columns:["sanger_tube_id", "sanger_sample_id", "i7", "i5", "library_type", "reference_genome", "insert_size_from", "insert_size_to", "supplier_name", "cohort", "volume", "concentration", "gender", "country_of_origin", "geographical_region", "ethnicity", "dna_source", "date_of_sample_collection", "date_of_sample_extraction", "sample_extraction_method", "sample_purified", "purification_method", "concentration_determined_by", "sample_storage_conditions", "mother", "father", "sibling", "gc_content", "sample_public_name", "sample_taxon_id", "sample_common_name", "bioscan_sample_description", "sample_strain_att", "sample_type", "sample_ebi_accession_number", "donor_id", "phenotype", "primer_panel", "control_type"]...>, @Items=[#<SampleManifestExcel::Upload::Row:0x0000

Sample manifest with tag sequences multiplexed tube sample manifest with tag groups and indexes valid upload and reupload with override Failure/Error: return unless row.plate_barcode && row.well_position NameError: undefined local variable or method `row' for #<SampleManifestExcel::Upload::Rows:0x00005593b1744088 @DaTa=<SampleManifestExcel::Upload::Data: @header_row=["SANGER TUBE ID", "SANGER SAMPLE ID", "TAG GROUP", "TAG INDEX", "TAG2 GROUP (Fill in for dual Index Only)", "TAG2 INDEX (Fill in for dual Index Only)", "LIBRARY TYPE", "INSERT SIZE FROM", "INSERT SIZE TO", "SUPPLIER SAMPLE NAME", "COHORT", "VOLUME (ul)", "CONC. (ng/ul)", "GENDER", "COUNTRY OF ORIGIN", "GEOGRAPHICAL REGION", "ETHNICITY", "DNA SOURCE", "DATE OF SAMPLE COLLECTION (MM/YY or YYYY only)", "DATE OF DNA EXTRACTION (MM/YY or YYYY only)", "DNA EXTRACTION METHOD", "SAMPLE PURIFIED?", "PURIFICATION METHOD", "CONCENTRATION DETERMINED BY", "DNA STORAGE CONDITIONS", "MOTHER (optional)", "FATHER (optional)", "SIBLING (optional)", "GC CONTENT", "PUBLIC NAME", "TAXON ID", "COMMON NAME", "SAMPLE DESCRIPTION", "STRAIN", "SAMPLE TYPE", "SAMPLE ACCESSION NUMBER (optional)", "DONOR ID (required for EGA)", "PHENOTYPE (required for EGA)", "PRIMER PANEL", "CONTROL TYPE"], @DaTa=[["NT1O", "sample_1", "Tag Group 1", "1", "Tag Group 2", "1", "My personal library type", "200", "1500", "SCG--1222_A0", nil, "1", "1", "Unknown", "United Kingdom", nil, nil, "Cell Line", "Nov-16", "Nov-16", nil, "No", nil, nil, nil, nil, nil, nil, nil, "SCG--1222_A0", "9606", "Homo sapiens", nil, nil, nil, nil, "id", "Unknown", nil, nil], ["NT2P", "sample_2", "Tag Group 1", "2", "Tag Group 2", "2", "My personal library type", "200", "1500", "SCG--1222_A0", nil, "1", "1", "Unknown", "United Kingdom", nil, nil, "Cell Line", "Nov-16", "Nov-16", nil, "No", nil, nil, nil, nil, nil, nil, nil, "SCG--1222_A0", "9606", "Homo sapiens", nil, nil, nil, nil, "id", "Unknown", nil, nil], ["NT3Q", "sample_3", "Tag Group 1", "3", "Tag Group 2", "3", "My personal library type", "200", "1500", "SCG--1222_A0", nil, "1", "1", "Unknown", "United Kingdom", nil, nil, "Cell Line", "Nov-16", "Nov-16", nil, "No", nil, nil, nil, nil, nil, nil, nil, "SCG--1222_A0", "9606", "Homo sapiens", nil, nil, nil, nil, "id", "Unknown", nil, nil], ["NT4R", "sample_4", "Tag Group 1", "4", "Tag Group 2", "4", "My personal library type", "200", "1500", "SCG--1222_A0", nil, "1", "1", "Unknown", "United Kingdom", nil, nil, "Cell Line", "Nov-16", "Nov-16", nil, "No", nil, nil, nil, nil, nil, nil, nil, "SCG--1222_A0", "9606", "Homo sapiens", nil, nil, nil, nil, "id", "Unknown", nil, nil], ["NT5S", "sample_5", "Tag Group 1", "5", "Tag Group 2", "5", "My personal library type", "200", "1500", "SCG--1222_A0", nil, "1", "1", "Unknown", "United Kingdom", nil, nil, "Cell Line", "Nov-16", "Nov-16", nil, "No", nil, nil, nil, nil, nil, nil, nil, "SCG--1222_A0", "9606", "Homo sapiens", nil, nil, nil, nil, "id", "Unknown", nil, nil], ["NT6T", "sample_6", "Tag Group 1", "6", "Tag Group 2", "6", "My personal library type", "200", "1500", "SCG--1222_A0", nil, "1", "1", "Unknown", "United Kingdom", nil, nil, "Cell Line", "Nov-16", "Nov-16", nil, "No", nil, nil, nil, nil, nil, nil, nil, "SCG--1222_A0", "9606", "Homo sapiens", nil, nil, nil, nil, "id", "Unknown", nil, nil]], @start_row=9, @file=#<ActionDispatch::Http::UploadedFile:0x00005593b1366ce0>>, @columns=<SequencescapeExcel::ColumnList: @columns:["sanger_tube_id", "sanger_sample_id", "tag_group", "tag_index", "tag2_group", "tag2_index", "library_type", "insert_size_from", "insert_size_to", "supplier_name", "cohort", "volume", "concentration", "gender", "country_of_origin", "geographical_region", "ethnicity", "dna_source", "date_of_sample_collection", "date_of_sample_extraction", "sample_extraction_method", "sample_purified", "purification_method", "concentration_determined_by", "sample_storage_conditions", "mother", "father", "sibling", "gc_content", "sample_public_name", "sample_taxon_id", "sample_common_name", "bioscan_sample_description", "sample_strain_att", "sample_type", "sample_ebi_access

Sample manifest with tag sequences multiplexed tube sample manifest with tag groups and indexes valid cgap foreign barcodes upload Failure/Error: return unless row.plate_barcode && row.well_position NameError: undefined local variable or method `row' for #<SampleManifestExcel::Upload::Rows:0x00005593b553c610 @DaTa=<SampleManifestExcel::Upload::Data: @header_row=["SANGER TUBE ID", "SANGER SAMPLE ID", "TAG GROUP", "TAG INDEX", "TAG2 GROUP (Fill in for dual Index Only)", "TAG2 INDEX (Fill in for dual Index Only)", "LIBRARY TYPE", "INSERT SIZE FROM", "INSERT SIZE TO", "SUPPLIER SAMPLE NAME", "COHORT", "VOLUME (ul)", "CONC. (ng/ul)", "GENDER", "COUNTRY OF ORIGIN", "GEOGRAPHICAL REGION", "ETHNICITY", "DNA SOURCE", "DATE OF SAMPLE COLLECTION (MM/YY or YYYY only)", "DATE OF DNA EXTRACTION (MM/YY or YYYY only)", "DNA EXTRACTION METHOD", "SAMPLE PURIFIED?", "PURIFICATION METHOD", "CONCENTRATION DETERMINED BY", "DNA STORAGE CONDITIONS", "MOTHER (optional)", "FATHER (optional)", "SIBLING (optional)", "GC CONTENT", "PUBLIC NAME", "TAXON ID", "COMMON NAME", "SAMPLE DESCRIPTION", "STRAIN", "SAMPLE TYPE", "SAMPLE ACCESSION NUMBER (optional)", "DONOR ID (required for EGA)", "PHENOTYPE (required for EGA)", "PRIMER PANEL", "CONTROL TYPE"], @DaTa=[["CGAP-11", "sample_1", "Tag Group 1", "1", "Tag Group 2", "1", "My personal library type", "200", "1500", "SCG--1222_A0", nil, "1", "1", "Unknown", "United Kingdom", nil, nil, "Cell Line", "Nov-16", "Nov-16", nil, "No", nil, nil, nil, nil, nil, nil, nil, "SCG--1222_A0", "9606", "Homo sapiens", nil, nil, nil, nil, "id", "Unknown", nil, nil], ["CGAP-22", "sample_2", "Tag Group 1", "2", "Tag Group 2", "2", "My personal library type", "200", "1500", "SCG--1222_A0", nil, "1", "1", "Unknown", "United Kingdom", nil, nil, "Cell Line", "Nov-16", "Nov-16", nil, "No", nil, nil, nil, nil, nil, nil, nil, "SCG--1222_A0", "9606", "Homo sapiens", nil, nil, nil, nil, "id", "Unknown", nil, nil], ["CGAP-33", "sample_3", "Tag Group 1", "3", "Tag Group 2", "3", "My personal library type", "200", "1500", "SCG--1222_A0", nil, "1", "1", "Unknown", "United Kingdom", nil, nil, "Cell Line", "Nov-16", "Nov-16", nil, "No", nil, nil, nil, nil, nil, nil, nil, "SCG--1222_A0", "9606", "Homo sapiens", nil, nil, nil, nil, "id", "Unknown", nil, nil], ["CGAP-44", "sample_4", "Tag Group 1", "4", "Tag Group 2", "4", "My personal library type", "200", "1500", "SCG--1222_A0", nil, "1", "1", "Unknown", "United Kingdom", nil, nil, "Cell Line", "Nov-16", "Nov-16", nil, "No", nil, nil, nil, nil, nil, nil, nil, "SCG--1222_A0", "9606", "Homo sapiens", nil, nil, nil, nil, "id", "Unknown", nil, nil], ["CGAP-55", "sample_5", "Tag Group 1", "5", "Tag Group 2", "5", "My personal library type", "200", "1500", "SCG--1222_A0", nil, "1", "1", "Unknown", "United Kingdom", nil, nil, "Cell Line", "Nov-16", "Nov-16", nil, "No", nil, nil, nil, nil, nil, nil, nil, "SCG--1222_A0", "9606", "Homo sapiens", nil, nil, nil, nil, "id", "Unknown", nil, nil], ["CGAP-66", "sample_6", "Tag Group 1", "6", "Tag Group 2", "6", "My personal library type", "200", "1500", "SCG--1222_A0", nil, "1", "1", "Unknown", "United Kingdom", nil, nil, "Cell Line", "Nov-16", "Nov-16", nil, "No", nil, nil, nil, nil, nil, nil, nil, "SCG--1222_A0", "9606", "Homo sapiens", nil, nil, nil, nil, "id", "Unknown", nil, nil]], @start_row=9, @file=#<ActionDispatch::Http::UploadedFile:0x00005593b52b50b8>>, @columns=<SequencescapeExcel::ColumnList: @columns:["sanger_tube_id", "sanger_sample_id", "tag_group", "tag_index", "tag2_group", "tag2_index", "library_type", "insert_size_from", "insert_size_to", "supplier_name", "cohort", "volume", "concentration", "gender", "country_of_origin", "geographical_region", "ethnicity", "dna_source", "date_of_sample_collection", "date_of_sample_extraction", "sample_extraction_method", "sample_purified", "purification_method", "concentration_determined_by", "sample_storage_conditions", "mother", "father", "sibling", "gc_content", "sample_public_name", "sample_taxon_id", "sample_common_name", "bioscan_sample_description", "sample_strain_att", "sample_type", "samp

Sample manifest with tag sequences multiplexed tube sample manifest with tag groups and indexes invalid with cgap barcodes validation errors Failure/Error: return unless row.plate_barcode && row.well_position NameError: undefined local variable or method `row' for #<SampleManifestExcel::Upload::Rows:0x00005593b486aef0 @DaTa=<SampleManifestExcel::Upload::Data: @header_row=["SANGER TUBE ID", "SANGER SAMPLE ID", "TAG GROUP", "TAG INDEX", "TAG2 GROUP (Fill in for dual Index Only)", "TAG2 INDEX (Fill in for dual Index Only)", "LIBRARY TYPE", "INSERT SIZE FROM", "INSERT SIZE TO", "SUPPLIER SAMPLE NAME", "COHORT", "VOLUME (ul)", "CONC. (ng/ul)", "GENDER", "COUNTRY OF ORIGIN", "GEOGRAPHICAL REGION", "ETHNICITY", "DNA SOURCE", "DATE OF SAMPLE COLLECTION (MM/YY or YYYY only)", "DATE OF DNA EXTRACTION (MM/YY or YYYY only)", "DNA EXTRACTION METHOD", "SAMPLE PURIFIED?", "PURIFICATION METHOD", "CONCENTRATION DETERMINED BY", "DNA STORAGE CONDITIONS", "MOTHER (optional)", "FATHER (optional)", "SIBLING (optional)", "GC CONTENT", "PUBLIC NAME", "TAXON ID", "COMMON NAME", "SAMPLE DESCRIPTION", "STRAIN", "SAMPLE TYPE", "SAMPLE ACCESSION NUMBER (optional)", "DONOR ID (required for EGA)", "PHENOTYPE (required for EGA)", "PRIMER PANEL", "CONTROL TYPE"], @DaTa=[["CGAP-11", "ABC", "Tag Group 1", "1", "Tag Group 2", "1", "My personal library type", "200", "1500", "SCG--1222_A0", nil, "1", "1", "Unknown", "United Kingdom", nil, nil, "Cell Line", "Nov-16", "Nov-16", nil, "No", nil, nil, nil, nil, nil, nil, nil, "SCG--1222_A0", "9606", "Homo sapiens", nil, nil, nil, nil, "id", "Unknown", nil, nil], ["CGAP-22", "sample_2", "Tag Group 1", "2", "Tag Group 2", "2", "My personal library type", "200", "1500", "SCG--1222_A0", nil, "1", "1", "Unknown", "United Kingdom", nil, nil, "Cell Line", "Nov-16", "Nov-16", nil, "No", nil, nil, nil, nil, nil, nil, nil, "SCG--1222_A0", "9606", "Homo sapiens", nil, nil, nil, nil, "id", "Unknown", nil, nil], ["CGAP-33", "sample_3", "Tag Group 1", "3", "Tag Group 2", "3", "My personal library type", "200", "1500", "SCG--1222_A0", nil, "1", "1", "Unknown", "United Kingdom", nil, nil, "Cell Line", "Nov-16", "Nov-16", nil, "No", nil, nil, nil, nil, nil, nil, nil, "SCG--1222_A0", "9606", "Homo sapiens", nil, nil, nil, nil, "id", "Unknown", nil, nil], ["CGAP-44", "sample_4", "Tag Group 1", "4", "Tag Group 2", "4", "My personal library type", "200", "1500", "SCG--1222_A0", nil, "1", "1", "Unknown", "United Kingdom", nil, nil, "Cell Line", "Nov-16", "Nov-16", nil, "No", nil, nil, nil, nil, nil, nil, nil, "SCG--1222_A0", "9606", "Homo sapiens", nil, nil, nil, nil, "id", "Unknown", nil, nil], ["CGAP-55", "sample_5", "Tag Group 1", "5", "Tag Group 2", "5", "My personal library type", "200", "1500", "SCG--1222_A0", nil, "1", "1", "Unknown", "United Kingdom", nil, nil, "Cell Line", "Nov-16", "Nov-16", nil, "No", nil, nil, nil, nil, nil, nil, nil, "SCG--1222_A0", "9606", "Homo sapiens", nil, nil, nil, nil, "id", "Unknown", nil, nil], ["CGAP-66", "sample_6", "Tag Group 1", "6", "Tag Group 2", "6", "My personal library type", "200", "1500", "SCG--1222_A0", nil, "1", "1", "Unknown", "United Kingdom", nil, nil, "Cell Line", "Nov-16", "Nov-16", nil, "No", nil, nil, nil, nil, nil, nil, nil, "SCG--1222_A0", "9606", "Homo sapiens", nil, nil, nil, nil, "id", "Unknown", nil, nil]], @start_row=9, @file=#<ActionDispatch::Http::UploadedFile:0x00005593b45cbb68>>, @columns=<SequencescapeExcel::ColumnList: @columns:["sanger_tube_id", "sanger_sample_id", "tag_group", "tag_index", "tag2_group", "tag2_index", "library_type", "insert_size_from", "insert_size_to", "supplier_name", "cohort", "volume", "concentration", "gender", "country_of_origin", "geographical_region", "ethnicity", "dna_source", "date_of_sample_collection", "date_of_sample_extraction", "sample_extraction_method", "sample_purified", "purification_method", "concentration_determined_by", "sample_storage_conditions", "mother", "father", "sibling", "gc_content", "sample_public_name", "sample_taxon_id", "sample_common_name", "bioscan_sample_description", "sample_strain_att", "sample_type",

Sample manifest with tag sequences multiplexed tube sample manifest with tag groups and indexes invalid upload validation errors Failure/Error: return unless row.plate_barcode && row.well_position NameError: undefined local variable or method `row' for #<SampleManifestExcel::Upload::Rows:0x00005593b3e52198 @DaTa=<SampleManifestExcel::Upload::Data: @header_row=["SANGER TUBE ID", "SANGER SAMPLE ID", "TAG GROUP", "TAG INDEX", "TAG2 GROUP (Fill in for dual Index Only)", "TAG2 INDEX (Fill in for dual Index Only)", "LIBRARY TYPE", "INSERT SIZE FROM", "INSERT SIZE TO", "SUPPLIER SAMPLE NAME", "COHORT", "VOLUME (ul)", "CONC. (ng/ul)", "GENDER", "COUNTRY OF ORIGIN", "GEOGRAPHICAL REGION", "ETHNICITY", "DNA SOURCE", "DATE OF SAMPLE COLLECTION (MM/YY or YYYY only)", "DATE OF DNA EXTRACTION (MM/YY or YYYY only)", "DNA EXTRACTION METHOD", "SAMPLE PURIFIED?", "PURIFICATION METHOD", "CONCENTRATION DETERMINED BY", "DNA STORAGE CONDITIONS", "MOTHER (optional)", "FATHER (optional)", "SIBLING (optional)", "GC CONTENT", "PUBLIC NAME", "TAXON ID", "COMMON NAME", "SAMPLE DESCRIPTION", "STRAIN", "SAMPLE TYPE", "SAMPLE ACCESSION NUMBER (optional)", "DONOR ID (required for EGA)", "PHENOTYPE (required for EGA)", "PRIMER PANEL", "CONTROL TYPE"], @DaTa=[["NT1O", "sample_1", "Tag Group 1", "1", "Tag Group 2", "1", "My personal library type", "200", "1500", "SCG--1222_A0", nil, "1", "1", "Unknown", "United Kingdom", nil, nil, "Cell Line", "Nov-16", "Nov-16", nil, "No", nil, nil, nil, nil, nil, nil, nil, "SCG--1222_A0", "9606", "Homo sapiens", nil, nil, nil, nil, "id", "Unknown", nil, nil], ["NT2P", "sample_2", "Tag Group 1", "2", "Tag Group 2", "2", "My personal library type", "200", "1500", "SCG--1222_A0", nil, "1", "1", "Unknown", "United Kingdom", nil, nil, "Cell Line", "Nov-16", "Nov-16", nil, "No", nil, nil, nil, nil, nil, nil, nil, "SCG--1222_A0", "9606", "Homo sapiens", nil, nil, nil, nil, "id", "Unknown", nil, nil], ["NT3Q", "sample_3", "Tag Group 1", "3", "Tag Group 2", "3", "My personal library type", "200", "1500", "SCG--1222_A0", nil, "1", "1", "Unknown", "United Kingdom", nil, nil, "Cell Line", "Nov-16", "Nov-16", nil, "No", nil, nil, nil, nil, nil, nil, nil, "SCG--1222_A0", "9606", "Homo sapiens", nil, nil, nil, nil, "id", "Unknown", nil, nil], ["NT4R", "sample_4", "Tag Group 1", "4", "Tag Group 2", "4", "My personal library type", "200", "1500", "SCG--1222_A0", nil, "1", "1", "Unknown", "United Kingdom", nil, nil, "Cell Line", "Nov-16", "Nov-16", nil, "No", nil, nil, nil, nil, nil, nil, nil, "SCG--1222_A0", "9606", "Homo sapiens", nil, nil, nil, nil, "id", "Unknown", nil, nil], ["NT5S", "sample_5", "Tag Group 1", "5", "Tag Group 2", "5", "My personal library type", "200", "1500", "SCG--1222_A0", nil, "1", "1", "Unknown", "United Kingdom", nil, nil, "Cell Line", "Nov-16", "Nov-16", nil, "No", nil, nil, nil, nil, nil, nil, nil, "SCG--1222_A0", "9606", "Homo sapiens", nil, nil, nil, nil, "id", "Unknown", nil, nil], ["NT6T", "sample_6", "Tag Group 1", "1", "Tag Group 2", "1", "My personal library type", "200", "1500", "SCG--1222_A0", nil, "1", "1", "Unknown", "United Kingdom", nil, nil, "Cell Line", "Nov-16", "Nov-16", nil, "No", nil, nil, nil, nil, nil, nil, nil, "SCG--1222_A0", "9606", "Homo sapiens", nil, nil, nil, nil, "id", "Unknown", nil, nil]], @start_row=9, @file=#<ActionDispatch::Http::UploadedFile:0x00005593b3bc1ed8>>, @columns=<SequencescapeExcel::ColumnList: @columns:["sanger_tube_id", "sanger_sample_id", "tag_group", "tag_index", "tag2_group", "tag2_index", "library_type", "insert_size_from", "insert_size_to", "supplier_name", "cohort", "volume", "concentration", "gender", "country_of_origin", "geographical_region", "ethnicity", "dna_source", "date_of_sample_collection", "date_of_sample_extraction", "sample_extraction_method", "sample_purified", "purification_method", "concentration_determined_by", "sample_storage_conditions", "mother", "father", "sibling", "gc_content", "sample_public_name", "sample_taxon_id", "sample_common_name", "bioscan_sample_description", "sample_strain_att", "sample_type", "sample_ebi_accession_num

Sample manifest with tag sequences multiplexed tube sample manifest with tag groups and indexes invalid with cgap barcodes duplicates Failure/Error: return unless row.plate_barcode && row.well_position NameError: undefined local variable or method `row' for #<SampleManifestExcel::Upload::Rows:0x00005593b0f91c50 @DaTa=<SampleManifestExcel::Upload::Data: @header_row=["SANGER TUBE ID", "SANGER SAMPLE ID", "TAG GROUP", "TAG INDEX", "TAG2 GROUP (Fill in for dual Index Only)", "TAG2 INDEX (Fill in for dual Index Only)", "LIBRARY TYPE", "INSERT SIZE FROM", "INSERT SIZE TO", "SUPPLIER SAMPLE NAME", "COHORT", "VOLUME (ul)", "CONC. (ng/ul)", "GENDER", "COUNTRY OF ORIGIN", "GEOGRAPHICAL REGION", "ETHNICITY", "DNA SOURCE", "DATE OF SAMPLE COLLECTION (MM/YY or YYYY only)", "DATE OF DNA EXTRACTION (MM/YY or YYYY only)", "DNA EXTRACTION METHOD", "SAMPLE PURIFIED?", "PURIFICATION METHOD", "CONCENTRATION DETERMINED BY", "DNA STORAGE CONDITIONS", "MOTHER (optional)", "FATHER (optional)", "SIBLING (optional)", "GC CONTENT", "PUBLIC NAME", "TAXON ID", "COMMON NAME", "SAMPLE DESCRIPTION", "STRAIN", "SAMPLE TYPE", "SAMPLE ACCESSION NUMBER (optional)", "DONOR ID (required for EGA)", "PHENOTYPE (required for EGA)", "PRIMER PANEL", "CONTROL TYPE"], @DaTa=[["CGAP-99999", "sample_1", "Tag Group 1", "1", "Tag Group 2", "1", "My personal library type", "200", "1500", "SCG--1222_A0", nil, "1", "1", "Unknown", "United Kingdom", nil, nil, "Cell Line", "Nov-16", "Nov-16", nil, "No", nil, nil, nil, nil, nil, nil, nil, "SCG--1222_A0", "9606", "Homo sapiens", nil, nil, nil, nil, "id", "Unknown", nil, nil], ["CGAP-99999", "sample_2", "Tag Group 1", "2", "Tag Group 2", "2", "My personal library type", "200", "1500", "SCG--1222_A0", nil, "1", "1", "Unknown", "United Kingdom", nil, nil, "Cell Line", "Nov-16", "Nov-16", nil, "No", nil, nil, nil, nil, nil, nil, nil, "SCG--1222_A0", "9606", "Homo sapiens", nil, nil, nil, nil, "id", "Unknown", nil, nil], ["CGAP-33", "sample_3", "Tag Group 1", "3", "Tag Group 2", "3", "My personal library type", "200", "1500", "SCG--1222_A0", nil, "1", "1", "Unknown", "United Kingdom", nil, nil, "Cell Line", "Nov-16", "Nov-16", nil, "No", nil, nil, nil, nil, nil, nil, nil, "SCG--1222_A0", "9606", "Homo sapiens", nil, nil, nil, nil, "id", "Unknown", nil, nil], ["CGAP-44", "sample_4", "Tag Group 1", "4", "Tag Group 2", "4", "My personal library type", "200", "1500", "SCG--1222_A0", nil, "1", "1", "Unknown", "United Kingdom", nil, nil, "Cell Line", "Nov-16", "Nov-16", nil, "No", nil, nil, nil, nil, nil, nil, nil, "SCG--1222_A0", "9606", "Homo sapiens", nil, nil, nil, nil, "id", "Unknown", nil, nil], ["CGAP-55", "sample_5", "Tag Group 1", "5", "Tag Group 2", "5", "My personal library type", "200", "1500", "SCG--1222_A0", nil, "1", "1", "Unknown", "United Kingdom", nil, nil, "Cell Line", "Nov-16", "Nov-16", nil, "No", nil, nil, nil, nil, nil, nil, nil, "SCG--1222_A0", "9606", "Homo sapiens", nil, nil, nil, nil, "id", "Unknown", nil, nil], ["CGAP-66", "sample_6", "Tag Group 1", "6", "Tag Group 2", "6", "My personal library type", "200", "1500", "SCG--1222_A0", nil, "1", "1", "Unknown", "United Kingdom", nil, nil, "Cell Line", "Nov-16", "Nov-16", nil, "No", nil, nil, nil, nil, nil, nil, nil, "SCG--1222_A0", "9606", "Homo sapiens", nil, nil, nil, nil, "id", "Unknown", nil, nil]], @start_row=9, @file=#<ActionDispatch::Http::UploadedFile:0x00005593af764d30>>, @columns=<SequencescapeExcel::ColumnList: @columns:["sanger_tube_id", "sanger_sample_id", "tag_group", "tag_index", "tag2_group", "tag2_index", "library_type", "insert_size_from", "insert_size_to", "supplier_name", "cohort", "volume", "concentration", "gender", "country_of_origin", "geographical_region", "ethnicity", "dna_source", "date_of_sample_collection", "date_of_sample_extraction", "sample_extraction_method", "sample_purified", "purification_method", "concentration_determined_by", "sample_storage_conditions", "mother", "father", "sibling", "gc_content", "sample_public_name", "sample_taxon_id", "sample_common_name", "bioscan_sample_description", "sample_strain_att", "sample_typ

Create a manifest then upload an excel file instead of a csv file failed: undefined local variable or method `row' for #<SampleManifestExcel::Upload::Rows:0x000055f12b5773e0 @DaTa=<SampleManifestExcel::Upload::Data: @header_row=[], @DaTa=[], @start_row=, @file=#<ActionDispatch::Http::UploadedFile:0x000055f12b509098>>, @columns=<SequencescapeExcel::ColumnList: @columns:[]...>, @Items=[]>

Upload a manifest that has mismatched welle failed: undefined local variable or method `row' for #<SampleManifestExcel::Upload::Rows:0x000055f12e7f2040 @DaTa=<SampleManifestExcel::Upload::Data: @header_row=["SANGER PLATE ID", "WELL", "SANGER SAMPLE ID", "SUPPLIER SAMPLE NAME", "COHORT", "VOLUME (ul)", "CONC. (ng/ul)", "GENDER", "COUNTRY OF ORIGIN", "GEOGRAPHICAL REGION", "ETHNICITY", "DNA SOURCE", "DATE OF SAMPLE COLLECTION (MM/YY or YYYY only)", "DATE OF DNA EXTRACTION (MM/YY or YYYY only)", "DNA EXTRACTION METHOD", "SAMPLE PURIFIED?", "PURIFICATION METHOD", "CONCENTRATION DETERMINED BY", "DNA STORAGE CONDITIONS", "MOTHER (optional)", "FATHER (optional)", "SIBLING (optional)", "GC CONTENT", "PUBLIC NAME", "TAXON ID", "COMMON NAME", "SAMPLE DESCRIPTION", "STRAIN", "SAMPLE TYPE", "SAMPLE ACCESSION NUMBER (optional)", nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil], @DaTa=[["SQPD-1234567", "A1", "sample_1", "aaaa", nil, "10", "20", "Male", "United Kingdom", nil, nil, "Genomic", "12/12/2022", nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, "Human", "9606", "Human", "Human", nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil], ["SQPD-1234567", "B1", "sample_2", "bbbb", nil, "10", "20", "Male", "United Kingdom", nil, nil, "Genomic", "12/12/2022", nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, "Human", "9607", "Human", "Human", nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, "Any incomplete areas will be", nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil], ["SQPD-1234567", "C1", "sample_3", "Water", nil, "10", "20", "Male", "United Kingdom", nil, nil, "Genomic", "12/12/2022", nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, "Human", "9608", "Human", "Human", nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, "shaded in blue -", nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil], ["SQPD-1234567", "D1", "sample_4", "cccc", nil, "10", "20", "Male", "United Kingdom", nil, nil, "Genomic", "12/12/2022", nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, "Human", "9609", "Human", "Human", nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil], ["SQPD-1234567", "E1", "sample_5", "Blank", nil, "10", "20", "Male", "United Kingdom", nil, nil, "Genomic", "12/12/2022", nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, "Human", "9610", "Human", "Human", nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, "Any incorrect data entries will", nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil], ["SQPD-1234567", "F1", "sample_6", "dddd", nil, "10", "20", "Male", "United Kingdom", nil, nil, "Genomic", "12/12/2022", nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, "Human", "9611", "Human", "Human", nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, "be shaded in red -", nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil], ["SQPD-1234567", "G1", "sample_7", nil, nil, "10", "20", "Male", "United Kingdom", nil, nil, "Genomic", "12/12/2022", nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, "Human", "9612", "Human", "Human", nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil], ["SQPD-1234567", "H1", "sample_8", "eeee", nil, "10", "20", "Male", "United Kingdom", nil, nil, "Genomic", "12/12/2022", nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, "Human", "9613", "Human", "Human", nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil], ["SQPD-1234567", "A2", "sample_9", "EMPTY", nil, "10", "20", "Male", "United Kingdom", nil, nil, "Genomic", "12/12/2022", nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, "Human", "9614", "Human", "Human", nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil], ["SQPD-1234567", "B2"

Upload a manifest that has mismatched plates failed: undefined local variable or method `row' for #<SampleManifestExcel::Upload::Rows:0x000055f13437d630 @DaTa=<SampleManifestExcel::Upload::Data: @header_row=["SANGER PLATE ID", "WELL", "SANGER SAMPLE ID", "SUPPLIER SAMPLE NAME", "COHORT", "VOLUME (ul)", "CONC. (ng/ul)", "GENDER", "COUNTRY OF ORIGIN", "GEOGRAPHICAL REGION", "ETHNICITY", "DNA SOURCE", "DATE OF SAMPLE COLLECTION (MM/YY or YYYY only)", "DATE OF DNA EXTRACTION (MM/YY or YYYY only)", "DNA EXTRACTION METHOD", "SAMPLE PURIFIED?", "PURIFICATION METHOD", "CONCENTRATION DETERMINED BY", "DNA STORAGE CONDITIONS", "MOTHER (optional)", "FATHER (optional)", "SIBLING (optional)", "GC CONTENT", "PUBLIC NAME", "TAXON ID", "COMMON NAME", "SAMPLE DESCRIPTION", "STRAIN", "SAMPLE TYPE", "SAMPLE ACCESSION NUMBER (optional)", nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil], @DaTa=[["DN11111T", "B1", "sample_1", "aaaa", nil, "10", "20", "Male", "United Kingdom", nil, nil, "Genomic", "12/12/2022", nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, "Human", "9606", "Human", "Human", nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil], ["DN11111T", "C1", "sample_2", "bbbb", nil, "10", "20", "Male", "United Kingdom", nil, nil, "Genomic", "13/12/2022", nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, "Human", "9607", "Human", "Human", nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, "Any incomplete areas will be", nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil], ["DN11111T", "D1", "sample_3", "Water", nil, "10", "20", "Male", "United Kingdom", nil, nil, "Genomic", "14/12/2022", nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, "Human", "9608", "Human", "Human", nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, "shaded in blue -", nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil], ["DN11111T", "E1", "sample_4", "cccc", nil, "10", "20", "Male", "United Kingdom", nil, nil, "Genomic", "15/12/2022", nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, "Human", "9609", "Human", "Human", nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil], ["DN11111T", "F1", "sample_5", "Blank", nil, "10", "20", "Male", "United Kingdom", nil, nil, "Genomic", "16/12/2022", nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, "Human", "9610", "Human", "Human", nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, "Any incorrect data entries will", nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil], ["DN11111T", "G1", "sample_6", "dddd", nil, "10", "20", "Male", "United Kingdom", nil, nil, "Genomic", "17/12/2022", nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, "Human", "9611", "Human", "Human", nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, "be shaded in red -", nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil], ["DN11111T", "H1", "sample_7", nil, nil, "10", "20", "Male", "United Kingdom", nil, nil, "Genomic", "18/12/2022", nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, "Human", "9612", "Human", "Human", nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil], ["DN11111T", "A2", "sample_8", "eeee", nil, "10", "20", "Male", "United Kingdom", nil, nil, "Genomic", "19/12/2022", nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, "Human", "9613", "Human", "Human", nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil], ["DN11111T", "B2", "sample_9", "EMPTY", nil, "10", "20", "Male", "United Kingdom", nil, nil, "Genomic", "20/12/2022", nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, "Human", "9614", "Human", "Human", nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil], ["DN11111T", "C2", "sample_10", "ffffff", nil, "10", "20

Upload a csv manifest with empty samples failed: undefined local variable or method `row' for #<SampleManifestExcel::Upload::Rows:0x000055f12e6fbb28 @DaTa=<SampleManifestExcel::Upload::Data: @header_row=["SANGER PLATE ID", "WELL", "SANGER SAMPLE ID", "SUPPLIER SAMPLE NAME", "COHORT", "VOLUME (ul)", "CONC. (ng/ul)", "GENDER", "COUNTRY OF ORIGIN", "GEOGRAPHICAL REGION", "ETHNICITY", "DNA SOURCE", "DATE OF SAMPLE COLLECTION (MM/YY or YYYY only)", "DATE OF DNA EXTRACTION (MM/YY or YYYY only)", "DNA EXTRACTION METHOD", "SAMPLE PURIFIED?", "PURIFICATION METHOD", "CONCENTRATION DETERMINED BY", "DNA STORAGE CONDITIONS", "MOTHER (optional)", "FATHER (optional)", "SIBLING (optional)", "GC CONTENT", "PUBLIC NAME", "TAXON ID", "COMMON NAME", "SAMPLE DESCRIPTION", "STRAIN", "SAMPLE TYPE", "SAMPLE ACCESSION NUMBER (optional)", "DONOR ID (required for cancer samples)", "PHENOTYPE (required for EGA)", nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil], @DaTa=[["SQPD-1234567", "B1", "sample_1", "aaaa", nil, "10", "20", "Male", "United Kingdom", nil, nil, "Genomic", "2022-12-12", nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, "Human", "9606", "Human", "Human", nil, nil, nil, "12345", nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil], ["SQPD-1234567", "C1", "sample_2", "bbbb", nil, "10", "20", "Male", "United Kingdom", nil, nil, "Genomic", "2022-12-12", nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, "Human", "9607", "Human", "Human", nil, nil, nil, "12345", nil, nil, nil, nil, nil, nil, "Any incomplete areas will be", nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil], ["SQPD-1234567", "D1", "sample_3", "Water", nil, "10", "20", "Male", "United Kingdom", nil, nil, "Genomic", "2022-12-12", nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, "Human", "9608", "Human", "Human", nil, nil, nil, "12345", nil, nil, nil, nil, nil, nil, "shaded in blue -", nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil], ["SQPD-1234567", "E1", "sample_4", "cccc", nil, "10", "20", "Male", "United Kingdom", nil, nil, "Genomic", "2022-12-12", nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, "Human", "9609", "Human", "Human", nil, nil, nil, "12345", nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil], ["SQPD-1234567", "F1", "sample_5", "Blank", nil, "10", "20", "Male", "United Kingdom", nil, nil, "Genomic", "2022-12-12", nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, "Human", "9610", "Human", "Human", nil, nil, nil, "12345", nil, nil, nil, nil, nil, nil, "Any incorrect data entries will", nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil], ["SQPD-1234567", "G1", "sample_6", "dddd", nil, "10", "20", "Male", "United Kingdom", nil, nil, "Genomic", "2022-12-12", nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, "Human", "9611", "Human", "Human", nil, nil, nil, "12345", nil, nil, nil, nil, nil, nil, "be shaded in red -", nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil], ["SQPD-1234567", "H1", "sample_7", nil, nil, "10", "20", "Male", "United Kingdom", nil, nil, "Genomic", "2022-12-12", nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, "Human", "9612", "Human", "Human", nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil], ["SQPD-1234567", "A2", "sample_8", "eeee", nil, "10", "20", "Male", "United Kingdom", nil, nil, "Genomic", "2022-12-12", nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, "Human", "9613", "Human", "Human", nil, nil, nil, "12345", nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil], ["SQPD-1234567", "B2", "sample_9", "EMPTY", nil, "10", "20", "Male", "United Kingdom", nil, nil, "Genomic", "2022-12-12", nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, "Human", "9614", "Human", "Human", nil, nil, nil, "12345", nil, nil, nil, nil, nil, nil, nil, nil,

Upload a manifest with invalid cell line failed: undefined local variable or method `row' for #<SampleManifestExcel::Upload::Rows:0x000055f132a906b8 @DaTa=<SampleManifestExcel::Upload::Data: @header_row=["SANGER PLATE ID", "WELL", "SANGER SAMPLE ID", "SUPPLIER SAMPLE NAME", "COHORT", "VOLUME (ul)", "CONC. (ng/ul)", "GENDER", "COUNTRY OF ORIGIN", "GEOGRAPHICAL REGION", "ETHNICITY", "DNA SOURCE", "DATE OF SAMPLE COLLECTION (MM/YY or YYYY only)", "DATE OF DNA EXTRACTION (MM/YY or YYYY only)", "DNA EXTRACTION METHOD", "SAMPLE PURIFIED?", "PURIFICATION METHOD", "CONCENTRATION DETERMINED BY", "DNA STORAGE CONDITIONS", "MOTHER (optional)", "FATHER (optional)", "SIBLING (optional)", "GC CONTENT", "PUBLIC NAME", "TAXON ID", "COMMON NAME", "SAMPLE DESCRIPTION", "STRAIN", "SAMPLE TYPE", "SAMPLE ACCESSION NUMBER (optional)", nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil], @DaTa=[["SQPD-1234567", "B1", "sample_1", "a", nil, "10", "20", nil, "United Kingdom", nil, nil, "Cell line", "2022-12-12", nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil], ["SQPD-1234567", "C1", "sample_2", "b", nil, "10", "20", nil, "United Kingdom", nil, nil, "cell line", "2022-12-12", nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, "Any incomplete areas will be", nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil], ["SQPD-1234567", "D1", "sample_3", "c", nil, "10", "20", nil, "United Kingdom", nil, nil, "blood", "2022-12-12", nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, "shaded in blue -", nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil], ["SQPD-1234567", "E1", "sample_4", "d", nil, "10", "20", nil, "United Kingdom", nil, nil, "genomic", "2022-12-12", nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil], ["SQPD-1234567", "F1", "sample_5", "e", nil, "10", "20", nil, "United Kingdom", nil, nil, "abcdefg", "2022-12-12", nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, "Any incorrect data entries will", nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil], ["SQPD-1234567", "G1", "sample_6", "f", nil, "10", "20", nil, "United Kingdom", nil, nil, "whole genome amplified", "2022-12-12", nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, "be shaded in red -", nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil], ["SQPD-1234567", "H1", "sample_7", "g", nil, "10", "20", nil, "United Kingdom", nil, nil, "Whole genome amplified", "2022-12-12", nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil], [nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil], [nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil], [nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil], [nil, nil, n

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Upload some empty samples, reupload with samples but without override set failed: undefined local variable or method `row' for #<SampleManifestExcel::Upload::Rows:0x000055f1335d1ab8 @DaTa=<SampleManifestExcel::Upload::Data: @header_row=["SANGER PLATE ID", "WELL", "SANGER SAMPLE ID", "SUPPLIER SAMPLE NAME", "COHORT", "VOLUME (ul)", "CONC. (ng/ul)", "GENDER", "COUNTRY OF ORIGIN", "GEOGRAPHICAL REGION", "ETHNICITY", "DNA SOURCE", "DATE OF SAMPLE COLLECTION (MM/YY or YYYY only)", "DATE OF DNA EXTRACTION (MM/YY or YYYY only)", "DNA EXTRACTION METHOD", "SAMPLE PURIFIED?", "PURIFICATION METHOD", "CONCENTRATION DETERMINED BY", "DNA STORAGE CONDITIONS", "MOTHER (optional)", "FATHER (optional)", "SIBLING (optional)", "GC CONTENT", "PUBLIC NAME", "TAXON ID", "COMMON NAME", "SAMPLE DESCRIPTION", "STRAIN", "SAMPLE TYPE", "SAMPLE ACCESSION NUMBER (optional)", "DONOR ID (required for cancer samples)", "PHENOTYPE (required for EGA)", nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil], @DaTa=[["SQPD-1234567", "B1", "sample_1", "aaaa", nil, "10", "20", "Male", "United Kingdom", nil, nil, "Genomic", "2022-12-12", nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, "Human", "9606", "Human", "Human", nil, nil, nil, "12345", nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil], ["SQPD-1234567", "C1", "sample_2", "bbbb", nil, "10", "20", "Male", "United Kingdom", nil, nil, "Genomic", "2022-12-12", nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, "Human", "9607", "Human", "Human", nil, nil, nil, "12345", nil, nil, nil, nil, nil, nil, "Any incomplete areas will be", nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil], ["SQPD-1234567", "D1", "sample_3", "Water", nil, "10", "20", "Male", "United Kingdom", nil, nil, "Genomic", "2022-12-12", nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, "Human", "9608", "Human", "Human", nil, nil, nil, "12345", nil, nil, nil, nil, nil, nil, "shaded in blue -", nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil], ["SQPD-1234567", "E1", "sample_4", "cccc", nil, "10", "20", "Male", "United Kingdom", nil, nil, "Genomic", "2022-12-12", nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, "Human", "9609", "Human", "Human", nil, nil, nil, "12345", nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil], ["SQPD-1234567", "F1", "sample_5", "Blank", nil, "10", "20", "Male", "United Kingdom", nil, nil, "Genomic", "2022-12-12", nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, "Human", "9610", "Human", "Human", nil, nil, nil, "12345", nil, nil, nil, nil, nil, nil, "Any incorrect data entries will", nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil], ["SQPD-1234567", "G1", "sample_6", "dddd", nil, "10", "20", "Male", "United Kingdom", nil, nil, "Genomic", "2022-12-12", nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, "Human", "9611", "Human", "Human", nil, nil, nil, "12345", nil, nil, nil, nil, nil, nil, "be shaded in red -", nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil], ["SQPD-1234567", "H1", "sample_7", nil, nil, "10", "20", "Male", "United Kingdom", nil, nil, "Genomic", "2022-12-12", nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, "Human", "9612", "Human", "Human", nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil], ["SQPD-1234567", "A2", "sample_8", "eeee", nil, "10", "20", "Male", "United Kingdom", nil, nil, "Genomic", "2022-12-12", nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, "Human", "9613", "Human", "Human", nil, nil, nil, "12345", nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil], ["SQPD-1234567", "B2", "sample_9", "EMPTY", nil, "10", "20", "Male", "United Kingdom", nil, nil, "Genomic", "2022-12-12", nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, "Human", "9614", "Human", "Human", nil, nil, nil, "12345", nil, n

Upload some empty samples, reupload with samples but with override set failed: undefined local variable or method `row' for #<SampleManifestExcel::Upload::Rows:0x000055f133efe5f0 @DaTa=<SampleManifestExcel::Upload::Data: @header_row=["SANGER PLATE ID", "WELL", "SANGER SAMPLE ID", "SUPPLIER SAMPLE NAME", "COHORT", "VOLUME (ul)", "CONC. (ng/ul)", "GENDER", "COUNTRY OF ORIGIN", "GEOGRAPHICAL REGION", "ETHNICITY", "DNA SOURCE", "DATE OF SAMPLE COLLECTION (MM/YY or YYYY only)", "DATE OF DNA EXTRACTION (MM/YY or YYYY only)", "DNA EXTRACTION METHOD", "SAMPLE PURIFIED?", "PURIFICATION METHOD", "CONCENTRATION DETERMINED BY", "DNA STORAGE CONDITIONS", "MOTHER (optional)", "FATHER (optional)", "SIBLING (optional)", "GC CONTENT", "PUBLIC NAME", "TAXON ID", "COMMON NAME", "SAMPLE DESCRIPTION", "STRAIN", "SAMPLE TYPE", "SAMPLE ACCESSION NUMBER (optional)", "DONOR ID (required for cancer samples)", "PHENOTYPE (required for EGA)", nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil], @DaTa=[["SQPD-1234567", "B1", "sample_1", "aaaa", nil, "10", "20", "Male", "United Kingdom", nil, nil, "Genomic", "2022-12-12", nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, "Human", "9606", "Human", "Human", nil, nil, nil, "12345", nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil], ["SQPD-1234567", "C1", "sample_2", "bbbb", nil, "10", "20", "Male", "United Kingdom", nil, nil, "Genomic", "2022-12-12", nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, "Human", "9607", "Human", "Human", nil, nil, nil, "12345", nil, nil, nil, nil, nil, nil, "Any incomplete areas will be", nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil], ["SQPD-1234567", "D1", "sample_3", "Water", nil, "10", "20", "Male", "United Kingdom", nil, nil, "Genomic", "2022-12-12", nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, "Human", "9608", "Human", "Human", nil, nil, nil, "12345", nil, nil, nil, nil, nil, nil, "shaded in blue -", nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil], ["SQPD-1234567", "E1", "sample_4", "cccc", nil, "10", "20", "Male", "United Kingdom", nil, nil, "Genomic", "2022-12-12", nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, "Human", "9609", "Human", "Human", nil, nil, nil, "12345", nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil], ["SQPD-1234567", "F1", "sample_5", "Blank", nil, "10", "20", "Male", "United Kingdom", nil, nil, "Genomic", "2022-12-12", nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, "Human", "9610", "Human", "Human", nil, nil, nil, "12345", nil, nil, nil, nil, nil, nil, "Any incorrect data entries will", nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil], ["SQPD-1234567", "G1", "sample_6", "dddd", nil, "10", "20", "Male", "United Kingdom", nil, nil, "Genomic", "2022-12-12", nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, "Human", "9611", "Human", "Human", nil, nil, nil, "12345", nil, nil, nil, nil, nil, nil, "be shaded in red -", nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil], ["SQPD-1234567", "H1", "sample_7", nil, nil, "10", "20", "Male", "United Kingdom", nil, nil, "Genomic", "2022-12-12", nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, "Human", "9612", "Human", "Human", nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil], ["SQPD-1234567", "A2", "sample_8", "eeee", nil, "10", "20", "Male", "United Kingdom", nil, nil, "Genomic", "2022-12-12", nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, "Human", "9613", "Human", "Human", nil, nil, nil, "12345", nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil], ["SQPD-1234567", "B2", "sample_9", "EMPTY", nil, "10", "20", "Male", "United Kingdom", nil, nil, "Genomic", "2022-12-12", nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, "Human", "9614", "Human", "Human", nil, nil, nil, "12345", nil, nil,

Updating of sample accession numbers failed: undefined local variable or method `row' for #<SampleManifestExcel::Upload::Rows:0x000055f12b6afca8 @DaTa=<SampleManifestExcel::Upload::Data: @header_row=["SANGER PLATE ID", "WELL", "SANGER SAMPLE ID", "SUPPLIER SAMPLE NAME", "COHORT", "VOLUME (ul)", "CONC. (ng/ul)", "GENDER", "COUNTRY OF ORIGIN", "GEOGRAPHICAL REGION", "ETHNICITY", "DNA SOURCE", "DATE OF SAMPLE COLLECTION (MM/YY or YYYY only)", "DATE OF DNA EXTRACTION (MM/YY or YYYY only)", "DNA EXTRACTION METHOD", "SAMPLE PURIFIED?", "PURIFICATION METHOD", "CONCENTRATION DETERMINED BY", "DNA STORAGE CONDITIONS", "MOTHER (optional)", "FATHER (optional)", "SIBLING (optional)", "GC CONTENT", "PUBLIC NAME", "TAXON ID", "COMMON NAME", "SAMPLE DESCRIPTION", "STRAIN", "SAMPLE TYPE", "SAMPLE ACCESSION NUMBER (optional)", nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil], @DaTa=[["SQPD-1234567", "B1", "sample_1", "aaaa", nil, "10", "20", "Male", "United Kingdom", nil, nil, "Genomic", "2022-12-01", nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, "Human", "0", "Human", "Human", nil, nil, "12345", nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil], ["SQPD-1234567", "C1", "sample_2", "bbbb", nil, "10", "20", "Male", "United Kingdom", nil, nil, "Genomic", "2022-12-01", nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, "Human", "0", "Human", "Human", nil, nil, "12346", nil, nil, nil, nil, nil, nil, nil, "Any incomplete areas will be", nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil], ["SQPD-1234567", "D1", "sample_3", "cccc", nil, "10", "20", "Male", "United Kingdom", nil, nil, "Genomic", "2022-12-02", nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, "Human", "0", "Human", "Human", nil, nil, "12347", nil, nil, nil, nil, nil, nil, nil, "shaded in blue -", nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil], ["SQPD-1234567", "E1", "sample_4", "dddd", nil, "10", "20", "Male", "United Kingdom", nil, nil, "Genomic", "2022-12-03", nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, "Human", "0", "Human", "Human", nil, nil, "12348", nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil], ["SQPD-1234567", "F1", "sample_5", "eeee", nil, "10", "20", "Male", "United Kingdom", nil, nil, "Genomic", "2022-12-04", nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, "Human", "0", "Human", "Human", nil, nil, "12349", nil, nil, nil, nil, nil, nil, nil, "Any incorrect data entries will", nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil], ["SQPD-1234567", "G1", "sample_6", "ffff", nil, "10", "20", "Male", "United Kingdom", nil, nil, "Genomic", "2022-12-05", nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, "Human", "0", "Human", "Human", nil, nil, "12350", nil, nil, nil, nil, nil, nil, nil, "be shaded in red -", nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil], ["SQPD-1234567", "H1", "sample_7", "gggg", nil, "10", "20", "Male", "United Kingdom", nil, nil, "Genomic", "2022-12-06", nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, "Human", "0", "Human", "Human", nil, nil, "12351", nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil], ["SQPD-1234567", "A2", "sample_8", "hhhh", nil, "10", "20", "Male", "United Kingdom", nil, nil, "Genomic", "2022-12-07", nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, "Human", "0", "Human", "Human", nil, nil, "12352", nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil], ["SQPD-1234567", "B2", "sample_9", "iiii", nil, "10", "20", "Male", "United Kingdom", nil, nil, "Genomic", "2022-12-08", nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, "Human", "0", "Human", "Human", nil, nil, "12353", nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil], ["SQPD-1234567", "C

Updating of sample accession numbers failed: undefined local variable or method `row' for #<SampleManifestExcel::Upload::Rows:0x000055f12f234170 @DaTa=<SampleManifestExcel::Upload::Data: @header_row=["SANGER PLATE ID", "WELL", "SANGER SAMPLE ID", "SUPPLIER SAMPLE NAME", "COHORT", "VOLUME (ul)", "CONC. (ng/ul)", "GENDER", "COUNTRY OF ORIGIN", "GEOGRAPHICAL REGION", "ETHNICITY", "DNA SOURCE", "DATE OF SAMPLE COLLECTION (MM/YY or YYYY only)", "DATE OF DNA EXTRACTION (MM/YY or YYYY only)", "DNA EXTRACTION METHOD", "SAMPLE PURIFIED?", "PURIFICATION METHOD", "CONCENTRATION DETERMINED BY", "DNA STORAGE CONDITIONS", "MOTHER (optional)", "FATHER (optional)", "SIBLING (optional)", "GC CONTENT", "PUBLIC NAME", "TAXON ID", "COMMON NAME", "SAMPLE DESCRIPTION", "STRAIN", "SAMPLE TYPE", "SAMPLE ACCESSION NUMBER (optional)", nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil], @DaTa=[["SQPD-1234567", "B1", "sample_1", "aaaa", nil, "10", "20", "Male", "United Kingdom", nil, nil, "Genomic", "2022-12-01", nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, "Human", "0", "Human", "Human", nil, nil, "12345", nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil], ["SQPD-1234567", "C1", "sample_2", "bbbb", nil, "10", "20", "Male", "United Kingdom", nil, nil, "Genomic", "2022-12-01", nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, "Human", "0", "Human", "Human", nil, nil, "12346", nil, nil, nil, nil, nil, nil, nil, "Any incomplete areas will be", nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil], ["SQPD-1234567", "D1", "sample_3", "cccc", nil, "10", "20", "Male", "United Kingdom", nil, nil, "Genomic", "2022-12-02", nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, "Human", "0", "Human", "Human", nil, nil, "12347", nil, nil, nil, nil, nil, nil, nil, "shaded in blue -", nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil], ["SQPD-1234567", "E1", "sample_4", "dddd", nil, "10", "20", "Male", "United Kingdom", nil, nil, "Genomic", "2022-12-03", nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, "Human", "0", "Human", "Human", nil, nil, "12348", nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil], ["SQPD-1234567", "F1", "sample_5", "eeee", nil, "10", "20", "Male", "United Kingdom", nil, nil, "Genomic", "2022-12-04", nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, "Human", "0", "Human", "Human", nil, nil, "12349", nil, nil, nil, nil, nil, nil, nil, "Any incorrect data entries will", nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil], ["SQPD-1234567", "G1", "sample_6", "ffff", nil, "10", "20", "Male", "United Kingdom", nil, nil, "Genomic", "2022-12-05", nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, "Human", "0", "Human", "Human", nil, nil, "12350", nil, nil, nil, nil, nil, nil, nil, "be shaded in red -", nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil], ["SQPD-1234567", "H1", "sample_7", "gggg", nil, "10", "20", "Male", "United Kingdom", nil, nil, "Genomic", "2022-12-06", nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, "Human", "0", "Human", "Human", nil, nil, "12351", nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil], ["SQPD-1234567", "A2", "sample_8", "hhhh", nil, "10", "20", "Male", "United Kingdom", nil, nil, "Genomic", "2022-12-07", nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, "Human", "0", "Human", "Human", nil, nil, "12352", nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil], ["SQPD-1234567", "B2", "sample_9", "iiii", nil, "10", "20", "Male", "United Kingdom", nil, nil, "Genomic", "2022-12-08", nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, "Human", "0", "Human", "Human", nil, nil, "12353", nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil], ["SQPD-1234567", "C

The job was canceled because "_2_1" failed.

Create a 1D tube manifest without processing the manifest failed: undefined local variable or method `row' for #<SampleManifestExcel::Upload::Rows:0x0000558cf1f6c038 @DaTa=<SampleManifestExcel::Upload::Data: @header_row=["SANGER TUBE ID", "SANGER SAMPLE ID", "SUPPLIER SAMPLE NAME", "COHORT", "VOLUME (ul)", "CONC. (ng/ul)", "GENDER", "COUNTRY OF ORIGIN", "GEOGRAPHICAL REGION", "ETHNICITY", "DNA SOURCE", "DATE OF SAMPLE COLLECTION (MM/YY or YYYY only)", "DATE OF DNA EXTRACTION (MM/YY or YYYY only)", "DNA EXTRACTION METHOD", "SAMPLE PURIFIED?", "PURIFICATION METHOD", "CONCENTRATION DETERMINED BY", "DNA STORAGE CONDITIONS", "MOTHER (optional)", "FATHER (optional)", "SIBLING (optional)", "GC CONTENT", "PUBLIC NAME", "TAXON ID", "COMMON NAME", "SAMPLE DESCRIPTION", "STRAIN", "SAMPLE TYPE", "SAMPLE ACCESSION NUMBER (optional)", nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil], @DaTa=[["NT81M", "sample_0", "aaaa", nil, "50", "100", "Male", "United Kingdom", nil, nil, nil, "2022-12-01", nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, "9606", "Homo Sapien", nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil], ["NT82N", "sample_1", "bbbb", nil, "50", "100", "Male", "United Kingdom", nil, nil, nil, "2022-12-02", nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, "9606", "Homo Sapien", nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, "Any incomplete areas will be", nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil], ["NT83O", "sample_2", "cccc", nil, "50", "100", "Female", "United Kingdom", nil, nil, nil, "2022-12-03", nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, "9606", "Homo Sapien", nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, "shaded in blue - ", nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil], ["NT84P", "sample_3", "dddd", nil, "50", "100", "Female", "United Kingdom", nil, nil, nil, "2022-12-04", nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, "9606", "Homo Sapien", nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil], ["NT85Q", "sample_4", "eeee", nil, "50", "100", "Female", "United Kingdom", nil, nil, nil, "2022-12-05", nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, "9606", "Homo Sapien", nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, "Any incorrect data entries will", nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil], [nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, "be shaded in red - ", nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil], [nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil], [nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil], [nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil], [nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil], [nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil, nil,

The operation was canceled.

Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: actions/checkout@v2, actions/upload-artifact@v2. For more information see: https://github.blog/changelog/2023-09-22-github-actions-transitioning-from-node-16-to-node-20/.

The following actions uses node12 which is deprecated and will be forced to run on node16: actions/checkout@v2, actions/upload-artifact@v2. For more info: https://github.blog/changelog/2023-06-13-github-actions-all-actions-will-run-on-node16-instead-of-node12-by-default/

Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: actions/checkout@v2, actions/setup-node@v2, actions/cache@v2, actions/upload-artifact@v2. For more information see: https://github.blog/changelog/2023-09-22-github-actions-transitioning-from-node-16-to-node-20/.

The following actions uses node12 which is deprecated and will be forced to run on node16: actions/checkout@v2, actions/setup-node@v2, actions/cache@v2, actions/upload-artifact@v2. For more info: https://github.blog/changelog/2023-06-13-github-actions-all-actions-will-run-on-node16-instead-of-node12-by-default/

No files were found with the provided path: tmp/capybara/. No artifacts will be uploaded.

RecordLoader::RequestTypeValidatorsLoader with two_entry_example selected creates two records Skipped: Temporarily skipped with xit

RecordLoader::RequestTypeValidatorsLoader with two_entry_example selected sets attributes on the created records Skipped: Temporarily skipped with xit

RecordLoader::RequestTypeValidatorsLoader with two_entry_example selected is idempotent Skipped: Temporarily skipped with xit

SampleManifest::Generator with rows_per_well set generates a details array with more than one entry per well Skipped: No reason given

SampleManifest::Generator with rows_per_well not set generates a details array with one entry per well Skipped: No reason given

PlatePurpose::AdditionalInput#state_of with no requests is pending Skipped: Temporarily skipped with xit

PlatePurpose::AdditionalInput#state_of with no ancestors with library requests is passed Skipped: Temporarily skipped with xit

PlatePurpose::AdditionalInput#state_of with no ancestors with no library requests is pending Skipped: Temporarily skipped with xit

PlatePurpose::AdditionalInput#state_of with ancestors with library requests is pending Skipped: Temporarily skipped with xit

PlatePurpose::AdditionalInput#state_of with ancestors with no library requests is pending Skipped: Temporarily skipped with xit

No files were found with the provided path: tmp/capybara/. No artifacts will be uploaded.

Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: actions/checkout@v2, actions/setup-node@v3, actions/upload-artifact@v2. For more information see: https://github.blog/changelog/2023-09-22-github-actions-transitioning-from-node-16-to-node-20/.