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4409 y24 379 study setup fields to align to the ena database fields improvement #9564

4409 y24 379 study setup fields to align to the ena database fields improvement

4409 y24 379 study setup fields to align to the ena database fields improvement #9564

Triggered via pull request February 11, 2025 21:33
Status Failure
Total duration 10m 37s
Artifacts 2

ruby_test.yml

on: pull_request
Matrix: cucumber_tests
Matrix: rspec_tests
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27 errors
cucumber_tests (2, 0): features/5976844_add_question_on_study_for_ethical_approvals.feature#L34
A study is created and it appears in Pending ethical approval true failed: Couldn't find Study with [WHERE `studies`.`name` = ?]
cucumber_tests (2, 0): features/5976844_add_question_on_study_for_ethical_approvals.feature#L35
A study is created and it appears in Pending ethical approval true failed: Couldn't find Study with [WHERE `studies`.`name` = ?]
cucumber_tests (2, 0): features/5976844_add_question_on_study_for_ethical_approvals.feature#L36
A study is created and it appears in Pending ethical approval true failed: Couldn't find Study with [WHERE `studies`.`name` = ?]
cucumber_tests (2, 0): features/5976844_add_question_on_study_for_ethical_approvals.feature#L37
A study is created and it appears in Pending ethical approval true failed: Couldn't find Study with [WHERE `studies`.`name` = ?]
cucumber_tests (2, 0): features/5976844_add_question_on_study_for_ethical_approvals.feature#L38
A study is created and it appears in Pending ethical approval true failed: Couldn't find Study with [WHERE `studies`.`name` = ?]
cucumber_tests (2, 0): features/5976844_add_question_on_study_for_ethical_approvals.feature#L39
A study is created and it appears in Pending ethical approval true failed: Couldn't find Study with [WHERE `studies`.`name` = ?]
cucumber_tests (2, 0): features/5976844_add_question_on_study_for_ethical_approvals.feature#L40
A study is created and it appears in Pending ethical approval true failed: Couldn't find Study with [WHERE `studies`.`name` = ?]
cucumber_tests (2, 0): features/5976844_add_question_on_study_for_ethical_approvals.feature#L41
A study is created and it appears in Pending ethical approval true failed: Couldn't find Study with [WHERE `studies`.`name` = ?]
cucumber_tests (2, 0): features/studies/8447221_data_release_help_text.feature#L40
Delaying for 3 months should have the same questions as all other delays (4044273) failed: Couldn't find Study with [WHERE `studies`.`name` = ?]
cucumber_tests (2, 0): features/studies/8447221_data_release_help_text.feature#L41
Delaying for 3 months should have the same questions as all other delays (4044273) failed: Couldn't find Study with [WHERE `studies`.`name` = ?]
cucumber_tests (2, 1)
The job was canceled because "_2_0" failed.
cucumber_tests (2, 1): features/studies/data_release_timings.feature#L18
When the data release is standard failed: Couldn't find Study with [WHERE `studies`.`name` = ?]
cucumber_tests (2, 1): features/studies/data_release_timings.feature#L25
When the data release is immediate failed: Couldn't find Study with [WHERE `studies`.`name` = ?]
cucumber_tests (2, 1): features/studies/data_release_timings.feature#L34
When the data release is delayed for PhD study failed: Couldn't find Study with [WHERE `studies`.`name` = ?]
cucumber_tests (2, 1): features/studies/data_release_timings.feature#L54
When the data release is never and the prevention other comment is supplied failed: Couldn't find Study with [WHERE `studies`.`name` = ?]
cucumber_tests (2, 1): features/studies/data_release_timings.feature#L63
When the data release is never and the prevention comment is supplied failed: Couldn't find Study with [WHERE `studies`.`name` = ?]
cucumber_tests (2, 1): features/studies/release_agreement.feature#L19
Using the standard WTSI agreement failed: Couldn't find Study with [WHERE `studies`.`name` = ?]
cucumber_tests (2, 1): features/studies/release_agreement.feature#L35
Using a non-standard agreement with a file uploaded failed: Couldn't find Study with [WHERE `studies`.`name` = ?]
cucumber_tests (2, 1): features/administration/11184645_faculty_sponsor_management.feature#L44
List the studies associated with a Faculty Sponsor failed: Tables were not identical:
cucumber_tests (2, 1): features/administration/11184645_faculty_sponsor_management.feature#L75
Create a sponsor and use it to create a study failed: expected to find text "Your study has been created" in "Cucumber\nStudies Projects Admin UAT Pipelines Batches Labwhere Reception Lab View Lab search Report Fails\nBarcode Project Study Sample Labware AssetGroup Request Supplier Submission All\nJohn Doe Edit profile\nLogout\nProblems creating your new study\nStudy Create\nTo register a new study, complete the form below. Required fields are marked with .\nYour study has not been created.\nStudy metadata ebi library strategy can't be blank\nStudy metadata ebi library source can't be blank\nStudy metadata ebi library selection can't be blank\nStudy name\nStudy owner name\nSelect an owner...\nProperties\nFaculty Sponsor\nJohn Doe UAT Faculty Sponsor\nProgram\nGeneral UAT\nNumber of gigabases per sample (minimum 0.15)\nPrelim ID\nPrelim ID\nReference genome\nNot suitable for alignment\nStudy Type\nCancer Genomics Clone Sequencing Epigenetics Exome Sequencing Forensic or Paleo-genomics Gene Regulation Study Metagenomics Pooled Clone Sequencing Population Genomics Resequencing Synthetic Genomics TraDIS Transcriptome Analysis UAT Whole Genome Sequencing\nTitleENA requirement\nTitle of the study as would be used in a publication.\nStudy descriptionENA requirement\nsome description\nAbstractENA requirement\nBriefly describes the goals, purpose, and scope of the Study. This need not be listed if it can be inherited from a referenced publication. For managed access studies, please bear in mind it’s this text in the Abstract section that will be publicly visible on the EGA website.\nStudy Visibility\nStudy VisibilityENA requirement\nHold\nPublic\nMake this ENA project public immediately.\nEBI Library Strategy\nENA requirement\nPlease select... RNA-Seq ChIP-Seq WGS WXS AMPLICON CLONE POOLCLONE CLONEEND Bisulfite-Seq MNase-Seq DNase-Hypersensitivity FAIRE-seq SELEX RIP-Seq ChIA-PET OTHER\nEBI Library Source\nENA requirement\nPlease select... GENOMIC TRANSCRIPTOMIC METAGENOMIC METATRANSCRIPTOMIC SYNTHETIC VIRAL RNA OTHER\nEBI Library Selection\nENA requirement\nPlease select... RANDOM PCR RANDOM PCR RT-PCR HMPR MF CF-S CF-M CF-T MDA MSLL cDNA ChIP MNase DNAse Hybrid Selection Reduced Representation Restriction Digest 5-methylcytidine antibody MBD2 protein methyl-CpG binding domain\nDo any of the samples in this study contain human DNA?\nDo any of the samples in this study contain human DNA?\nYes\nNo\nIf they do, you will be required to upload the relevant documents. This does not apply to samples that are going to have the Human DNA removed prior to analysis.\nDoes this study contain samples that are contaminated with human DNA which must be removed prior to analysis?\nDoes this study contain samples that are contaminated with human DNA which must be removed prior to analysis?\nYes\nNo\nUsually only applicable to pathogen research when human DNA will not be sequenced and therefore does not require ethical approval.\nAre all the samples to be used in this study commercially available, unlinked anonymised cell-lines?\nAre all the samples to be used in this study commercially available, unlinked anonymised cell-lines?\nYes\nNo\nAre all the samples to be used in this study commercially available, anonymised cell-lines or DNA/RNA from commercially available, anonymised cell-lines?\nDoes this study require the removal of X chromosome and autosome sequence?\nDoes this study require the removal of X chromosome and autosome sequence?\nYes\nNo\nApplicable for studies where only mtDNA and Y-chromosomal data will be submitted to EGA.\nDoes this study require y chromosome data to be separated from x and autosomal data before archival?\nApplicable for studies where Y-chromosome data will not be submitted to the EGA, or will be submitted separately from autosomal sequence.\nENA Project IDENA (see help)\nThe required PROJECT_ID accession is generated by the Genome Project database at NCBI and will be valid also at the other archival institutions. Enter 0 if the project id is unknown or not assigned.\nENA Study Accession Numbersee help\nData Release
cucumber_tests (2, 1)
The operation was canceled.
rspec_tests (3, 1): spec/features/studies/create_study_spec.rb#L72
Create a study create open study Failure/Error: expect(page).to have_content('Your study has been created') expected to find text "Your study has been created" in "Test\nStudies\nProjects\nAdmin\nUAT\nPipelines\nBatches\nLabwhere Reception\nLab View\nLab search\nReport Fails\nBarcode\nProject\nStudy\nSample\nLabware\nAssetGroup\nRequest\nSupplier\nSubmission\nAll\nProblems creating your new study\nStudy Create\nTo register a new study, complete the form below. Required fields are marked with .\nYour study has not been created.\nStudy metadata ebi library strategy can't be blank\nStudy metadata ebi library source can't be blank\nStudy metadata ebi library selection can't be blank\nStudy name\nStudy owner name\nSelect an owner...\nSelect an owner...\nProperties\nFaculty Sponsor\nJack Sponsor\nJack Sponsor\nProgram\nProgram1\nProgram1\nNumber of gigabases per sample (minimum 0.15)\nPrelim ID\nPrelim ID\nReference genome\nStudy Type\nStudy Type 1\nStudy Type 1\nTitleENA requirement\nTitle of the study as would be used in a publication.\nStudy descriptionENA requirement\nwriting cukes\nAbstractENA requirement\nBriefly describes the goals, purpose, and scope of the Study. This need not be listed if it can be inherited from a referenced publication. For managed access studies, please bear in mind it’s this text in the Abstract section that will be publicly visible on the EGA website.\nStudy Visibility\nStudy VisibilityENA requirement\nHold\nPublic\nMake this ENA project public immediately.\nEBI Library Strategy\nENA requirement\nPlease select...\nRNA-Seq\nChIP-Seq\nWGS\nWXS\nAMPLICON\nCLONE\nPOOLCLONE\nCLONEEND\nBisulfite-Seq\nMNase-Seq\nDNase-Hypersensitivity\nFAIRE-seq\nSELEX\nRIP-Seq\nChIA-PET\nOTHER\nPlease select...\nEBI Library Source\nENA requirement\nPlease select...\nGENOMIC\nTRANSCRIPTOMIC\nMETAGENOMIC\nMETATRANSCRIPTOMIC\nSYNTHETIC\nVIRAL RNA\nOTHER\nPlease select...\nEBI Library Selection\nENA requirement\nPlease select...\nRANDOM\nPCR\nRANDOM PCR\nRT-PCR\nHMPR\nMF\nCF-S\nCF-M\nCF-T\nMDA\nMSLL\ncDNA\nChIP\nMNase\nDNAse\nHybrid Selection\nReduced Representation\nRestriction Digest\n5-methylcytidine antibody\nMBD2 protein methyl-CpG binding domain\nPlease select...\nDo any of the samples in this study contain human DNA?\nDo any of the samples in this study contain human DNA?\nYes\nNo\nIf they do, you will be required to upload the relevant documents. This does not apply to samples that are going to have the Human DNA removed prior to analysis.\nDoes this study contain samples that are contaminated with human DNA which must be removed prior to analysis?\nDoes this study contain samples that are contaminated with human DNA which must be removed prior to analysis?\nYes\nNo\nUsually only applicable to pathogen research when human DNA will not be sequenced and therefore does not require ethical approval.\nAre all the samples to be used in this study commercially available, unlinked anonymised cell-lines?\nAre all the samples to be used in this study commercially available, unlinked anonymised cell-lines?\nYes\nNo\nAre all the samples to be used in this study commercially available, anonymised cell-lines or DNA/RNA from commercially available, anonymised cell-lines?\nDoes this study require the removal of X chromosome and autosome sequence?\nDoes this study require the removal of X chromosome and autosome sequence?\nYes\nNo\nApplicable for studies where only mtDNA and Y-chromosomal data will be submitted to EGA.\nDoes this study require y chromosome data to be separated from x and autosomal data before archival?\nApplicable for studies where Y-chromosome data will not be submitted to the EGA, or will be submitted separately from autosomal sequence.\nENA Project IDENA (see help)\nThe required PROJECT_ID accession is generated by the Genome Project database at NCBI and will be valid also at the other archival institutions. Enter 0 if the project id is unknown or not assigned.\nENA Study Accession Numbersee help\nData Release accession Number. Will be filled automatically during submission process. Provide ONLY if the proje
rspec_tests (3, 1)
Process completed with exit code 1.
rspec_tests (3, 0)
The job was canceled because "_3_1" failed.
rspec_tests (3, 0)
The operation was canceled.
rspec_tests (3, 2)
The job was canceled because "_3_1" failed.
rspec_tests (3, 2)
The operation was canceled.

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