From 0a12975215d7941eebae1877e17fb959cf0f242c Mon Sep 17 00:00:00 2001 From: "brynn.zalmanek@pnnl.gov" Date: Wed, 16 Aug 2023 13:19:09 -0700 Subject: [PATCH] update invalid study file for database root class --- src/data/invalid/Study-include-abstract.yaml | 149 ++++++++++--------- 1 file changed, 75 insertions(+), 74 deletions(-) diff --git a/src/data/invalid/Study-include-abstract.yaml b/src/data/invalid/Study-include-abstract.yaml index ab3e0501d2..2eebc747e2 100755 --- a/src/data/invalid/Study-include-abstract.yaml +++ b/src/data/invalid/Study-include-abstract.yaml @@ -1,68 +1,27 @@ -id: nmdc:sty-11-ab -name: see also description, title, objective, various alternatives -abstract: This study is about a thing. -description: see also name, title, objective, various alternatives -alternative_identifiers: - - generic:abc1 -related_identifiers: any string R1 -#emsl_proposal_identifier: -# - generic:abc1 -#emsl_proposal_doi: any string -gold_study_identifiers: - - GOLD:Gs12345 - - GOLD:Gs90909 -mgnify_project_identifiers: - - mgnify.proj:ABC123 -ecosystem: unconstrained text. should be validated against the controlled vocabulary, - by the sample's environmental package. would also be nice to align the CV with MIxS - environmental triads -ecosystem_category: unconstrained text -ecosystem_type: unconstrained text -ecosystem_subtype: unconstrained text -specific_ecosystem: unconstrained text -principal_investigator: - has_raw_value: Craig Venter - was_generated_by: nmdc:any_string_1 - orcid: ORCID:0000-0002-7086-765X - profile_image_url: https://en.wikipedia.org/wiki/Craig_Venter#/media/File:Craigventer2.jpg - email: jcventer@jcvi.org - name: J. Craig Venter - websites: - - https://www.jcvi.org/ - - https://www.jcvi.org/about/j-craig-venter -title: Sample Exhaustive Biosample instance. Although all of these values should pass - validation, that does not mean that any Biosample of any type would necessarily - have this particular combination of values. -alternative_titles: - - any string 1 - - any string 2 -alternative_descriptions: - - any string 1 - - any string 2 -alternative_names: - - any string 1 - - any string 2 -objective: This record, an instance of class Study from the nmdc-schema was had authored, - so that the NMDC team would have at least one instance, using all slots, with a - mixture of reasonable values and minimally compliant values. -websites: - - https://w3id.org/nmdc - - https://w3id.org/linkml -publications: - - any string 1 - - any string 2 -ess_dive_datasets: - - any string 1 - - any string 2 -type: any string -relevant_protocols: - - any string 1 - - any string 2 -funding_sources: - - any string 1 - - any string 2 -has_credit_associations: - - applies_to_person: +study_set: + - id: nmdc:sty-11-ab + name: see also description, title, objective, various alternatives + abstract: This study is about a thing. + description: see also name, title, objective, various alternatives + alternative_identifiers: + - generic:abc1 + related_identifiers: any string R1 + #emsl_proposal_identifier: + # - generic:abc1 + #emsl_proposal_doi: any string + gold_study_identifiers: + - GOLD:Gs12345 + - GOLD:Gs90909 + mgnify_project_identifiers: + - mgnify.proj:ABC123 + ecosystem: unconstrained text. should be validated against the controlled vocabulary, + by the sample's environmental package. would also be nice to align the CV with MIxS + environmental triads + ecosystem_category: unconstrained text + ecosystem_type: unconstrained text + ecosystem_subtype: unconstrained text + specific_ecosystem: unconstrained text + principal_investigator: has_raw_value: Craig Venter was_generated_by: nmdc:any_string_1 orcid: ORCID:0000-0002-7086-765X @@ -72,13 +31,55 @@ has_credit_associations: websites: - https://www.jcvi.org/ - https://www.jcvi.org/about/j-craig-venter - applied_roles: - - Supervision - - Conceptualization - applied_role: Funding acquisition + title: Sample Exhaustive Biosample instance. Although all of these values should pass + validation, that does not mean that any Biosample of any type would necessarily + have this particular combination of values. + alternative_titles: + - any string 1 + - any string 2 + alternative_descriptions: + - any string 1 + - any string 2 + alternative_names: + - any string 1 + - any string 2 + objective: This record, an instance of class Study from the nmdc-schema was had authored, + so that the NMDC team would have at least one instance, using all slots, with a + mixture of reasonable values and minimally compliant values. + websites: + - https://w3id.org/nmdc + - https://w3id.org/linkml + publications: + - any string 1 + - any string 2 + ess_dive_datasets: + - any string 1 + - any string 2 type: any string - - applies_to_person: - name: Tanja Davidsen - applied_roles: - - Investigation - - Supervision + relevant_protocols: + - any string 1 + - any string 2 + funding_sources: + - any string 1 + - any string 2 + has_credit_associations: + - applies_to_person: + has_raw_value: Craig Venter + was_generated_by: nmdc:any_string_1 + orcid: ORCID:0000-0002-7086-765X + profile_image_url: https://en.wikipedia.org/wiki/Craig_Venter#/media/File:Craigventer2.jpg + email: jcventer@jcvi.org + name: J. Craig Venter + websites: + - https://www.jcvi.org/ + - https://www.jcvi.org/about/j-craig-venter + applied_roles: + - Supervision + - Conceptualization + applied_role: Funding acquisition + type: any string + - applies_to_person: + name: Tanja Davidsen + applied_roles: + - Investigation + - Supervision