Build #3396 - sanger/limber

Merge branch 'develop' into y24-267-lcm-triomics-pipeline-configuration-and-integration-test-for-wgs-branch #3396

yoldas authored 49eb6bc4

complete00:00:26

1	git clone	00:00:01
2	codeclimate validate-config	00:00:01	View output
`codeclimate validate-config No errors or warnings found in .codeclimate.json.`
3	codeclimate prepare	00:00:01	View output
`codeclimate prepare`
4	builder pull-engines	00:00:00	View output
`determining required images`
5	structure	00:00:07	View output
12 Parser process id: 12 codeclimate-parser socket not present waiting 1s... W, [2024-10-29T10:07:36.848026 #1] WARN -- : Skipping app/frontend/javascript/shared/transfersLayouts.js due to CC::Parser::Client::HTTPError W, [2024-10-29T10:07:36.848056 #1] WARN -- : Response status: 422 W, [2024-10-29T10:07:37.406200 #1] WARN -- : Skipping app/frontend/javascript/multi-stamp/components/MultiStampLibrarySplitter.js due to CC::Parser::Client::HTTPError W, [2024-10-29T10:07:37.406252 #1] WARN -- : Response status: 422 W, [2024-10-29T10:07:38.931511 #1] WARN -- : Skipping app/models/concerns/presenters/statemachine/state_does_not_allow_child_creation.rb due to CC::Parser::Client::HTTPError W, [2024-10-29T10:07:38.931542 #1] WARN -- : Response status: 422 W, [2024-10-29T10:07:39.000470 #1] WARN -- : Skipping app/models/concerns/presenters/extended_csv.rb due to CC::Parser::Client::HTTPError W, [2024-10-29T10:07:39.000503 #1] WARN -- : Response status: 422 W, [2024-10-29T10:07:39.227256 #1] WARN -- : Skipping app/models/utility/pcr_cycles_csv_file_upload_config_base.rb due to CC::Parser::Client::HTTPError W, [2024-10-29T10:07:39.227284 #1] WARN -- : Response status: 422 W, [2024-10-29T10:07:39.416045 #1] WARN -- : Skipping app/models/presenters/plate_presenter.rb due to CC::Parser::Client::HTTPError W, [2024-10-29T10:07:39.416073 #1] WARN -- : Response status: 422 W, [2024-10-29T10:07:39.845036 #1] WARN -- : Skipping app/models/labware_metadata.rb due to CC::Parser::Client::HTTPError W, [2024-10-29T10:07:39.845063 #1] WARN -- : Response status: 422 W, [2024-10-29T10:07:39.998826 #1] WARN -- : Skipping app/models/sequencescape_submission.rb due to CC::Parser::Client::HTTPError W, [2024-10-29T10:07:39.998862 #1] WARN -- : Response status: 422 W, [2024-10-29T10:07:40.072479 #1] WARN -- : Skipping app/models/labware_creators/final_tube.rb due to CC::Parser::Client::HTTPError W, [2024-10-29T10:07:40.072513 #1] WARN -- : Response status: 422 W, [2024-10-29T10:07:40.344945 #1] WARN -- : Skipping app/models/labware_creators/tagged_plate.rb due to CC::Parser::Client::HTTPError W, [2024-10-29T10:07:40.344975 #1] WARN -- : Response status: 422 W, [2024-10-29T10:07:40.386250 #1] WARN -- : Skipping app/models/labware_creators/quadrant_split_plate.rb due to CC::Parser::Client::HTTPError W, [2024-10-29T10:07:40.386279 #1] WARN -- : Response status: 422 W, [2024-10-29T10:07:40.501251 #1] WARN -- : Skipping app/models/labware_creators/base.rb due to CC::Parser::Client::HTTPError W, [2024-10-29T10:07:40.501289 #1] WARN -- : Response status: 422 W, [2024-10-29T10:07:40.544256 #1] WARN -- : Skipping app/models/labware_creators/custom_tagged_plate.rb due to CC::Parser::Client::HTTPError W, [2024-10-29T10:07:40.544283 #1] WARN -- : Response status: 422 W, [2024-10-29T10:07:40.643577 #1] WARN -- : Skipping app/models/labware_creators/plate_split_to_tube_racks.rb due to CC::Parser::Client::HTTPError W, [2024-10-29T10:07:40.643608 #1] WARN -- : Response status: 422 W, [2024-10-29T10:07:40.733516 #1] WARN -- : Skipping app/models/labware_creators/quadrant_stamp_base.rb due to CC::Parser::Client::HTTPError W, [2024-10-29T10:07:40.733544 #1] WARN -- : Response status: 422 W, [2024-10-29T10:07:40.746053 #1] WARN -- : Skipping app/models/labware_creators/pooled_tubes_by_sample.rb due to CC::Parser::Client::HTTPError W, [2024-10-29T10:07:40.746087 #1] WARN -- : Response status: 422 W, [2024-10-29T10:07:40.859049 #1] WARN -- : Skipping app/helpers/page_helper.rb due to CC::Parser::Client::HTTPError W, [2024-10-29T10:07:40.859082 #1] WARN -- : Response status: 422 W, [2024-10-29T10:07:40.870007 #1] WARN -- : Skipping app/helpers/labware_helper.rb due to CC::Parser::Client::HTTPError W, [2024-10-29T10:07:40.870033 #1] WARN -- : Response status: 422 W, [2024-10-29T10:07:40.873990 #1] WARN -- : Skipping app/helpers/application_helper.rb due to CC::Parser::Client::HTTPError W, [2024-10-29T10:07:40.874015 #1] WARN -- : Response status: 422 W, [2024-10-29T10:07:40.901682 #1] WARN -- : Skipping app/helpers/barcode_labels_helper.rb due to CC::Parser::Client::HTTPError W, [2024-10-29T10:07:40.901710 #1] WARN -- : Response status: 422 W, [2024-10-29T10:07:40.986864 #1] WARN -- : Skipping app/controllers/search_controller.rb due to CC::Parser::Client::HTTPError W, [2024-10-29T10:07:40.986902 #1] WARN -- : Response status: 422 W, [2024-10-29T10:07:41.052368 #1] WARN -- : Skipping app/controllers/labware_controller.rb due to CC::Parser::Client::HTTPError W, [2024-10-29T10:07:41.052396 #1] WARN -- : Response status: 422 W, [2024-10-29T10:07:41.116667 #1] WARN -- : Skipping app/sequencescape/sequencescape/api/v2.rb due to CC::Parser::Client::HTTPError W, [2024-10-29T10:07:41.116693 #1] WARN -- : Response status: 422 W, [2024-10-29T10:07:41.276502 #1] WARN -- : Skipping app/sequencescape/sequencescape/api/v2/shared/has_requests.rb due to CC::Parser::Client::HTTPError W, [2024-10-29T10:07:41.276538 #1] WARN -- : Response status: 422 W, [2024-10-29T10:07:41.417357 #1] WARN -- : Skipping lib/well_helpers.rb due to CC::Parser::Client::HTTPError W, [2024-10-29T10:07:41.417384 #1] WARN -- : Response status: 422 W, [2024-10-29T10:07:41.447930 #1] WARN -- : Skipping lib/robot_configuration.rb due to CC::Parser::Client::HTTPError W, [2024-10-29T10:07:41.447955 #1] WARN -- : Response status: 422
6	duplication	00:00:07	View output
12 Parser process id: 12 codeclimate-parser socket not present waiting 1s... W, [2024-10-29T10:07:45.239334 #1] WARN -- : Skipping app/frontend/javascript/shared/transfersLayouts.js due to CC::Parser::Client::HTTPError W, [2024-10-29T10:07:45.239377 #1] WARN -- : Response status: 422 W, [2024-10-29T10:07:45.908492 #1] WARN -- : Skipping app/frontend/javascript/multi-stamp/components/MultiStampLibrarySplitter.js due to CC::Parser::Client::HTTPError W, [2024-10-29T10:07:45.908593 #1] WARN -- : Response status: 422 I, [2024-10-29T10:07:46.573070 #1] INFO -- : Skipping file ./app/models/concerns/presenters/statemachine/state_does_not_allow_child_creation.rb due to exception (Racc::ParseError): ./app/models/concerns/presenters/statemachine/state_does_not_allow_child_creation.rb:8 :: parse error on value ")" (tRPAREN) I, [2024-10-29T10:07:46.698806 #1] INFO -- : Skipping file ./app/models/concerns/presenters/extended_csv.rb due to exception (RubyParser::SyntaxError): Odd number (2) list for Hash. s(:array, s(:lvar, :index)) I, [2024-10-29T10:07:46.914615 #1] INFO -- : Skipping file ./app/models/utility/pcr_cycles_csv_file_upload_config_base.rb due to exception (RubyParser::SyntaxError): Odd number (2) list for Hash. s(:array, s(:call, nil, :input_amount_desired_min)) I, [2024-10-29T10:07:47.039414 #1] INFO -- : Skipping file ./app/models/presenters/plate_presenter.rb due to exception (Racc::ParseError): ./app/models/presenters/plate_presenter.rb:39 :: parse error on value ":" (tCOLON) I, [2024-10-29T10:07:47.129786 #1] INFO -- : Skipping file ./app/models/labels/tube_label.rb due to exception (RubyParser::SyntaxError): Odd number (2) list for Hash. s(:array, s(:call, nil, :first_line)) I, [2024-10-29T10:07:47.341076 #1] INFO -- : Skipping file ./app/models/labware_metadata.rb due to exception (Racc::ParseError): ./app/models/labware_metadata.rb:8 :: parse error on value ":" (tCOLON) I, [2024-10-29T10:07:47.495077 #1] INFO -- : Skipping file ./app/models/sequencescape_submission.rb due to exception (Racc::ParseError): ./app/models/sequencescape_submission.rb:39 :: parse error on value ":" (tCOLON) I, [2024-10-29T10:07:47.553667 #1] INFO -- : Skipping file ./app/models/labware_creators/final_tube.rb due to exception (RubyParser::SyntaxError): Odd number (2) list for Hash. s(:array, s(:call, nil, :parents)) I, [2024-10-29T10:07:47.631689 #1] INFO -- : Skipping file ./app/models/labware_creators/pcr_cycles_binned_plate/csv_file_base.rb due to exception (Racc::ParseError): ./app/models/labware_creators/pcr_cycles_binned_plate/csv_file_base.rb:18 :: parse error on value ":" (tCOLON) I, [2024-10-29T10:07:47.777491 #1] INFO -- : Skipping file ./app/models/labware_creators/tagged_plate.rb due to exception (RubyParser::SyntaxError): Odd number (2) list for Hash. s(:array, s(:call, nil, :tag_plate)) I, [2024-10-29T10:07:47.843179 #1] INFO -- : Skipping file ./app/models/labware_creators/quadrant_split_plate.rb due to exception (RubyParser::SyntaxError): Odd number (2) list for Hash. s(:array, s(:call, nil, :uuid)) I, [2024-10-29T10:07:47.944122 #1] INFO -- : Skipping file ./app/models/labware_creators/base.rb due to exception (Racc::ParseError): ./app/models/labware_creators/base.rb:21 :: parse error on value "%i[" (error) I, [2024-10-29T10:07:48.022841 #1] INFO -- : Skipping file ./app/models/labware_creators/custom_tagged_plate.rb due to exception (RubyParser::SyntaxError): Odd number (2) list for Hash. s(:array, s(:call, nil, :tag_plate)) I, [2024-10-29T10:07:48.184034 #1] INFO -- : Skipping file ./app/models/labware_creators/plate_split_to_tube_racks.rb due to exception (Racc::ParseError): ./app/models/labware_creators/plate_split_to_tube_racks.rb:48 :: parse error on value "%i[" (error) I, [2024-10-29T10:07:48.245658 #1] INFO -- : Skipping file ./app/models/labware_creators/custom_pooled_tubes/csv_file.rb due to exception (Racc::ParseError): ./app/models/labware_creators/custom_pooled_tubes/csv_file.rb:12 :: parse error on value ":" (tCOLON) I, [2024-10-29T10:07:48.320713 #1] INFO -- : Skipping file ./app/models/labware_creators/quadrant_stamp_base.rb due to exception (RubyParser::SyntaxError): Odd number (2) list for Hash. s(:array, s(:call, nil, :transfers)) I, [2024-10-29T10:07:48.397943 #1] INFO -- : Skipping file ./app/models/labware_creators/pooled_tubes_by_sample.rb due to exception (Racc::ParseError): ./app/models/labware_creators/pooled_tubes_by_sample.rb:20 :: parse error on value ":" (tCOLON) I, [2024-10-29T10:07:48.461396 #1] INFO -- : Skipping file ./app/models/labware_creators/common_file_handling/csv_file_for_tube_rack.rb due to exception (Racc::ParseError): ./app/models/labware_creators/common_file_handling/csv_file_for_tube_rack.rb:54 :: parse error on value "]" (tRBRACK) I, [2024-10-29T10:07:48.481186 #1] INFO -- : Skipping file ./app/models/labware_creators/common_file_handling/csv_file_for_tube_rack_with_rack_barcode.rb due to exception (Racc::ParseError): ./app/models/labware_creators/common_file_handling/csv_file_for_tube_rack_with_rack_barcode.rb:31 :: parse error on value "]" (tRBRACK) I, [2024-10-29T10:07:48.494420 #1] INFO -- : Skipping file ./app/helpers/page_helper.rb due to exception (Racc::ParseError): ./app/helpers/page_helper.rb:5 :: parse error on value ":" (tCOLON) I, [2024-10-29T10:07:48.521690 #1] INFO -- : Skipping file ./app/helpers/labware_helper.rb due to exception (Racc::ParseError): ./app/helpers/labware_helper.rb:5 :: parse error on value ":" (tCOLON) I, [2024-10-29T10:07:48.534355 #1] INFO -- : Skipping file ./app/helpers/application_helper.rb due to exception (Racc::ParseError): ./app/helpers/application_helper.rb:30 :: parse error on value ")" (tRPAREN) I, [2024-10-29T10:07:48.584227 #1] INFO -- : Skipping file ./app/helpers/barcode_labels_helper.rb due to exception (Racc::ParseError): ./app/helpers/barcode_labels_helper.rb:5 :: parse error on value ":" (tSYMBEG) I, [2024-10-29T10:07:48.742306 #1] INFO -- : Skipping file ./app/controllers/search_controller.rb due to exception (Racc::ParseError): ./app/controllers/search_controller.rb:8 :: parse error on value ":" (tCOLON) I, [2024-10-29T10:07:48.868283 #1] INFO -- : Skipping file ./app/controllers/labware_controller.rb due to exception (Racc::ParseError): ./app/controllers/labware_controller.rb:11 :: parse error on value ":" (tCOLON) I, [2024-10-29T10:07:48.906799 #1] INFO -- : Skipping file ./app/controllers/robots_controller.rb due to exception (Racc::ParseError): ./app/controllers/robots_controller.rb:14 :: parse error on value ":" (tCOLON) I, [2024-10-29T10:07:48.929589 #1] INFO -- : Skipping file ./app/sequencescape/sequencescape/api/v2.rb due to exception (RubyParser::SyntaxError): Odd number (2) list for Hash. s(:array, s(:call, nil, :child_plates)) I, [2024-10-29T10:07:49.083346 #1] INFO -- : Skipping file ./app/sequencescape/sequencescape/api/v2/shared/has_requests.rb due to exception (Racc::ParseError): ./app/sequencescape/sequencescape/api/v2/shared/has_requests.rb:44 :: parse error on value "&." (error) I, [2024-10-29T10:07:49.224315 #1] INFO -- : Skipping file ./lib/well_helpers.rb due to exception (Racc::ParseError): ./lib/well_helpers.rb:9 :: parse error on value ":" (tCOLON) I, [2024-10-29T10:07:49.292969 #1] INFO -- : Skipping file ./lib/robot_configuration.rb due to exception (Racc::ParseError): ./lib/robot_configuration.rb:9 :: parse error on value ":" (tCOLON)