feat: UMCU profile for Resources (#4490)

apps/central/src/components/SchemaCreateModal.vue

@@ -141,6 +141,7 @@ export default {
         "DATA_CATALOGUE",
         "DATA_CATALOGUE_COHORT_STAGING",
         "DATA_CATALOGUE_NETWORK_STAGING",
+        "UMCU_COHORTS_STAGING",
         "RD3",
         "JRC_COMMON_DATA_ELEMENTS",
         "FAIR_GENOMES",

backend/molgenis-emx2-datamodels/src/main/java/org/molgenis/emx2/datamodels/DataModels.java

@@ -13,6 +13,7 @@ public enum Profile {
     DATA_CATALOGUE_NETWORK_STAGING("_profiles/NetworksStaging.yaml"),
     DATA_CATALOGUE_AGGREGATES("_profiles/DataCatalogueAggregates.yaml"),
     DATA_CATALOGUE("_profiles/DataCatalogue.yaml"),
+    UMCU_COHORTS_STAGING("_profiles/UMCUCohorts.yaml"),
     FAIR_DATA_HUB("_profiles/FAIRDataHub.yaml"),
     RD3("_profiles/RD3.yaml"),
     JRC_COMMON_DATA_ELEMENTS("_profiles/JRC-CDE.yaml"),

data/_models/shared/Collection events.csv

@@ -1,16 +1,16 @@
 tableName,tableExtends,columnName,columnType,key,required,refSchema,refTable,refLink,refBack,validation,semantics,description,profiles,visible
-Collection events,,,,,,,,,,,dct:PeriodOfTime,Definition of a collection event for a resource,"DataCatalogueFlat,CohortsStaging,UMCGCohortsStaging,StudiesStaging,NetworksStaging",
-Collection events,,resource,ref,1,TRUE,,Resources,,,,"dct:isPartOf,dct:inSeries",Resource this collection event is part of,"DataCatalogueFlat,CohortsStaging,UMCGCohortsStaging,StudiesStaging,NetworksStaging",
-Collection events,,name,,1,TRUE,,,,,,"dct:title,dct:identifier",Name of the collection event,"DataCatalogueFlat,CohortsStaging,UMCGCohortsStaging,StudiesStaging,NetworksStaging",
-Collection events,,description,text,,,,,,,,dct:description,Description of the collection event,"DataCatalogueFlat,CohortsStaging,UMCGCohortsStaging,StudiesStaging,NetworksStaging",
-Collection events,,subpopulations,ref_array,,,,Subpopulations,resource,,,dct:references,Subpopulations that are targetted by this collection event,"DataCatalogueFlat,CohortsStaging,UMCGCohortsStaging",
-Collection events,,start date,date,,,,,,,,dcat:startDate,Start date of data collection,"DataCatalogueFlat,CohortsStaging,UMCGCohortsStaging,StudiesStaging",
-Collection events,,end date,date,,,,,,,,dcat:endDate,End date of data collection. Leave empty if collection is ongoing,"DataCatalogueFlat,CohortsStaging,UMCGCohortsStaging,StudiesStaging",
-Collection events,,age groups,ontology_array,,,CatalogueOntologies,Age groups,,,,,Age groups included in this data collection event,"DataCatalogueFlat,CohortsStaging,UMCGCohortsStaging,StudiesStaging,NetworksStaging",
-Collection events,,number of participants,int,,,,,,,,,Number of participants sampled in this data collection event,"DataCatalogueFlat,CohortsStaging,UMCGCohortsStaging,StudiesStaging",
-Collection events,,areas of information,ontology_array,,,CatalogueOntologies,Areas of information cohorts,,,,,Areas of information that were extracted in this data collection event,"DataCatalogueFlat,CohortsStaging,UMCGCohortsStaging,StudiesStaging",
-Collection events,,data categories,ontology_array,,,CatalogueOntologies,Data categories,,,,dcat:theme,Methods of data collection used in this collection event,"DataCatalogueFlat,CohortsStaging,UMCGCohortsStaging,StudiesStaging",
-Collection events,,sample categories,ontology_array,,,CatalogueOntologies,Sample categories,,,,dcat:theme,Samples that were collected in this collection event,"DataCatalogueFlat,CohortsStaging,UMCGCohortsStaging,StudiesStaging",
-Collection events,,standardized tools,ontology_array,,,CatalogueOntologies,Standardized tools,,,,,"Standardized tools, e.g. surveys, questionnaires, instruments used to collect data for this collection event","DataCatalogueFlat,CohortsStaging,UMCGCohortsStaging,StudiesStaging",
-Collection events,,standardized tools other,,,,,,,,,,"If 'other', please specify","DataCatalogueFlat,CohortsStaging,UMCGCohortsStaging,StudiesStaging",
-Collection events,,core variables,string_array,,,,,,,,,Name 10-20 relevant variables that were collected in this collection event,"DataCatalogueFlat,CohortsStaging,UMCGCohortsStaging,StudiesStaging",
+Collection events,,,,,,,,,,,dct:PeriodOfTime,Definition of a collection event for a resource,"DataCatalogueFlat,CohortsStaging,UMCGCohortsStaging,StudiesStaging,NetworksStaging,UMCUCohorts",
+Collection events,,resource,ref,1,TRUE,,Resources,,,,"dct:isPartOf,dct:inSeries",Resource this collection event is part of,"DataCatalogueFlat,CohortsStaging,UMCGCohortsStaging,StudiesStaging,NetworksStaging,UMCUCohorts",
+Collection events,,name,,1,TRUE,,,,,,"dct:title,dct:identifier",Name of the collection event,"DataCatalogueFlat,CohortsStaging,UMCGCohortsStaging,StudiesStaging,NetworksStaging,UMCUCohorts",
+Collection events,,description,text,,,,,,,,dct:description,Description of the collection event,"DataCatalogueFlat,CohortsStaging,UMCGCohortsStaging,StudiesStaging,NetworksStaging,UMCUCohorts",
+Collection events,,subpopulations,ref_array,,,,Subpopulations,resource,,,dct:references,Subpopulations that are targetted by this collection event,"DataCatalogueFlat,CohortsStaging,UMCGCohortsStaging,UMCUCohorts",
+Collection events,,start date,date,,,,,,,,dcat:startDate,Start date of data collection,"DataCatalogueFlat,CohortsStaging,UMCGCohortsStaging,StudiesStaging,UMCUCohorts",
+Collection events,,end date,date,,,,,,,,dcat:endDate,End date of data collection. Leave empty if collection is ongoing,"DataCatalogueFlat,CohortsStaging,UMCGCohortsStaging,StudiesStaging,UMCUCohorts",
+Collection events,,age groups,ontology_array,,,CatalogueOntologies,Age groups,,,,,Age groups included in this data collection event,"DataCatalogueFlat,CohortsStaging,UMCGCohortsStaging,StudiesStaging,NetworksStaging,UMCUCohorts",
+Collection events,,number of participants,int,,,,,,,,,Number of participants sampled in this data collection event,"DataCatalogueFlat,CohortsStaging,UMCGCohortsStaging,StudiesStaging,UMCUCohorts",
+Collection events,,areas of information,ontology_array,,,CatalogueOntologies,Areas of information cohorts,,,,,Areas of information that were extracted in this data collection event,"DataCatalogueFlat,CohortsStaging,UMCGCohortsStaging,StudiesStaging,UMCUCohorts",
+Collection events,,data categories,ontology_array,,,CatalogueOntologies,Data categories,,,,dcat:theme,Methods of data collection used in this collection event,"DataCatalogueFlat,CohortsStaging,UMCGCohortsStaging,StudiesStaging,UMCUCohorts",
+Collection events,,sample categories,ontology_array,,,CatalogueOntologies,Sample categories,,,,dcat:theme,Samples that were collected in this collection event,"DataCatalogueFlat,CohortsStaging,UMCGCohortsStaging,StudiesStaging,UMCUCohorts",
+Collection events,,standardized tools,ontology_array,,,CatalogueOntologies,Standardized tools,,,,,"Standardized tools, e.g. surveys, questionnaires, instruments used to collect data for this collection event","DataCatalogueFlat,CohortsStaging,UMCGCohortsStaging,StudiesStaging,UMCUCohorts",
+Collection events,,standardized tools other,,,,,,,,,,"If 'other', please specify","DataCatalogueFlat,CohortsStaging,UMCGCohortsStaging,StudiesStaging,UMCUCohorts",
+Collection events,,core variables,string_array,,,,,,,,,Name 10-20 relevant variables that were collected in this collection event,"DataCatalogueFlat,CohortsStaging,UMCGCohortsStaging,StudiesStaging,UMCUCohorts",

data/_models/shared/Contacts.csv

@@ -1,19 +1,19 @@
 tableName,tableExtends,columnName,columnType,key,required,refSchema,refTable,refLink,refBack,validation,semantics,description,profiles,visible,computed
-Contacts,,,,,,,,,,,vcard:Kind,Listing of contact persons per resource,"DataCatalogueFlat,EMA,CohortsStaging,RWEStaging,NetworksStaging,StudiesStaging,UMCGCohortsStaging",,
-Contacts,,resource,ref,1,TRUE,,Resources,,,,,Resource the contact is affiliated with,"DataCatalogueFlat,EMA,CohortsStaging,RWEStaging,NetworksStaging,StudiesStaging,UMCGCohortsStaging",,
-Contacts,,role,ontology_array,,,CatalogueOntologies,Contribution types,,,,vcard:hasRole,Type(s) of contribution or role in the resource,"DataCatalogueFlat,EMA,CohortsStaging,RWEStaging,NetworksStaging,StudiesStaging,UMCGCohortsStaging",,
-Contacts,,role description,text,,,,,,,,,Description of the role,"DataCatalogueFlat,CohortsStaging,RWEStaging,NetworksStaging,StudiesStaging",,
-Contacts,,first name,,1,TRUE,,,,,,foaf:firstName,First name of the contact person,"DataCatalogueFlat,EMA,CohortsStaging,RWEStaging,NetworksStaging,StudiesStaging,UMCGCohortsStaging",,
-Contacts,,last name,,1,TRUE,,,,,,foaf:familyName,Last name of the contact person,"DataCatalogueFlat,EMA,CohortsStaging,RWEStaging,NetworksStaging,StudiesStaging,UMCGCohortsStaging",,
+Contacts,,,,,,,,,,,vcard:Kind,Listing of contact persons per resource,"DataCatalogueFlat,EMA,CohortsStaging,RWEStaging,NetworksStaging,StudiesStaging,UMCGCohortsStaging,UMCUCohorts",,
+Contacts,,resource,ref,1,TRUE,,Resources,,,,,Resource the contact is affiliated with,"DataCatalogueFlat,EMA,CohortsStaging,RWEStaging,NetworksStaging,StudiesStaging,UMCGCohortsStaging,UMCUCohorts",,
+Contacts,,role,ontology_array,,,CatalogueOntologies,Contribution types,,,,vcard:hasRole,Type(s) of contribution or role in the resource,"DataCatalogueFlat,EMA,CohortsStaging,RWEStaging,NetworksStaging,StudiesStaging,UMCGCohortsStaging,UMCUCohorts",,
+Contacts,,role description,text,,,,,,,,,Description of the role,"DataCatalogueFlat,CohortsStaging,RWEStaging,NetworksStaging,StudiesStaging,UMCUCohorts",,
+Contacts,,first name,,1,TRUE,,,,,,foaf:firstName,First name of the contact person,"DataCatalogueFlat,EMA,CohortsStaging,RWEStaging,NetworksStaging,StudiesStaging,UMCGCohortsStaging,UMCUCohorts",,
+Contacts,,last name,,1,TRUE,,,,,,foaf:familyName,Last name of the contact person,"DataCatalogueFlat,EMA,CohortsStaging,RWEStaging,NetworksStaging,StudiesStaging,UMCGCohortsStaging,UMCUCohorts",,
 Contacts,,display name,,,TRUE,,,,,,"foaf:name,vcard:hasName",Display name of the contact person,DataCatalogueFlat,FALSE,firstName+' '+lastName
 Contacts,,statement of consent personal data,bool,,TRUE,,,,,,,"Indicate whether this person consents to display the following personal data in the catalogue (which is openly accessible): title, name, photo, orcid ID, institute, department, expertise, discipline and role within the resource. These data-items may partly be extracted from the UMCG and/or RUG employee pages. The consent also includes future linkages with other national and international catalogues and platforms to increase visibility and findability (e.g. BBMRI-ERIC, NARCIS) of UMCG-resources. Contributors without a positive statement of consent will not be shown in the UMCG Research Data Catalogue",UMCGCohortsStaging,,
-Contacts,,prefix,,,,,,,,,,"Surname prefix, if applicable","DataCatalogueFlat,CohortsStaging,RWEStaging,NetworksStaging,StudiesStaging,UMCGCohortsStaging",,
-Contacts,,initials,,,,,,,,,,Initials of the contact person,"DataCatalogueFlat,CohortsStaging,RWEStaging,NetworksStaging,StudiesStaging,UMCGCohortsStaging",,
-Contacts,,title,ontology,,,CatalogueOntologies,Titles,,,,foaf:title,Title of the contact person,"DataCatalogueFlat,EMA,CohortsStaging,RWEStaging,NetworksStaging,StudiesStaging,UMCGCohortsStaging",,
-Contacts,,organisation,ref,,,,Organisations,resource,,,foaf:Organization,Affiliated organisation of the contact person,"DataCatalogueFlat,EMA,CohortsStaging,RWEStaging,NetworksStaging,StudiesStaging,UMCGCohortsStaging",,
-Contacts,,email,,,,,,,,,"vcard:hasEmail,foaf:mbox",Contact's email address,"DataCatalogueFlat,CohortsStaging,RWEStaging,NetworksStaging,StudiesStaging,UMCGCohortsStaging",,
+Contacts,,prefix,,,,,,,,,,"Surname prefix, if applicable","DataCatalogueFlat,CohortsStaging,RWEStaging,NetworksStaging,StudiesStaging,UMCGCohortsStaging,UMCUCohorts",,
+Contacts,,initials,,,,,,,,,,Initials of the contact person,"DataCatalogueFlat,CohortsStaging,RWEStaging,NetworksStaging,StudiesStaging,UMCGCohortsStaging,UMCUCohorts",,
+Contacts,,title,ontology,,,CatalogueOntologies,Titles,,,,foaf:title,Title of the contact person,"DataCatalogueFlat,EMA,CohortsStaging,RWEStaging,NetworksStaging,StudiesStaging,UMCGCohortsStaging,UMCUCohorts",,
+Contacts,,organisation,ref,,,,Organisations,resource,,,foaf:Organization,Affiliated organisation of the contact person,"DataCatalogueFlat,EMA,CohortsStaging,RWEStaging,NetworksStaging,StudiesStaging,UMCGCohortsStaging,UMCUCohorts",,
+Contacts,,email,,,,,,,,,"vcard:hasEmail,foaf:mbox",Contact's email address,"DataCatalogueFlat,CohortsStaging,RWEStaging,NetworksStaging,StudiesStaging,UMCGCohortsStaging,UMCUCohorts",,
 Contacts,,statement of consent email,bool,,TRUE,,,,,,,"Indicate whether this person consents to display their email address in the catalogue (which is openly accessible). The consent also includes future linkages with other national and international catalogues and platforms to increase visibility and findability (e.g. BBMRI-ERIC, NARCIS) of UMCG-resources. Contributors without a positive statement of consent for their email address will be shown without their email address in the UMCG Research Data Catalogue",UMCGCohortsStaging,,
-Contacts,,orcid,,,,,,,,,,Orcid of the contact person,"DataCatalogueFlat,CohortsStaging,RWEStaging,NetworksStaging,StudiesStaging,UMCGCohortsStaging",,
+Contacts,,orcid,,,,,,,,,,Orcid of the contact person,"DataCatalogueFlat,CohortsStaging,RWEStaging,NetworksStaging,StudiesStaging,UMCGCohortsStaging,UMCUCohorts",,
 Contacts,,homepage,,,,,,,,,foaf:workplaceHomepage,Link to contact's homepage,"DataCatalogueFlat,CohortsStaging,RWEStaging,NetworksStaging,StudiesStaging,UMCGCohortsStaging",,
 Contacts,,photo,file,,,,,,,,foaf:img,Contact's photograph,"DataCatalogueFlat,CohortsStaging,RWEStaging,NetworksStaging,StudiesStaging,UMCGCohortsStaging",,
 Contacts,,expertise,,,,,,,,,,Description of contact's expertise,"DataCatalogueFlat,CohortsStaging,RWEStaging,NetworksStaging,StudiesStaging,UMCGCohortsStaging",,

data/_models/shared/Documentation.csv

@@ -1,8 +1,8 @@
 tableName,tableExtends,columnName,columnType,key,required,refSchema,refTable,refLink,refBack,validation,semantics,description,profiles,visible
-Documentation,,,,,,,,,,,,Documentation attached to a resource,"DataCatalogueFlat,CohortsStaging,RWEStaging,NetworksStaging,StudiesStaging,UMCGCohortsStaging",
-Documentation,,resource,ref,1,true,,Resources,,,,,The resource this documentation is for,"DataCatalogueFlat,EMA,CohortsStaging,RWEStaging,NetworksStaging,StudiesStaging,UMCGCohortsStaging",
-Documentation,,name,,1,true,,,,,,,Document name,"DataCatalogueFlat,EMA,CohortsStaging,RWEStaging,NetworksStaging,StudiesStaging,UMCGCohortsStaging",
-Documentation,,type,ontology,,,CatalogueOntologies,Document types,,,,,Type of documentation,"DataCatalogueFlat,EMA,CohortsStaging,RWEStaging,NetworksStaging,StudiesStaging,UMCGCohortsStaging",
-Documentation,,description,text,,,,,,,,,Description of the document,"DataCatalogueFlat,CohortsStaging,RWEStaging,NetworksStaging,StudiesStaging,UMCGCohortsStaging",
-Documentation,,url,hyperlink,,,,,,,,,Hyperlink to the source of the documentation,"DataCatalogueFlat,EMA,CohortsStaging,RWEStaging,NetworksStaging,StudiesStaging,UMCGCohortsStaging",
-Documentation,,file,file,,,,,,,,,Optional file attachment containing the documentation,"DataCatalogueFlat,EMA,CohortsStaging,RWEStaging,NetworksStaging,StudiesStaging,UMCGCohortsStaging",
+Documentation,,,,,,,,,,,,Documentation attached to a resource,"DataCatalogueFlat,CohortsStaging,RWEStaging,NetworksStaging,StudiesStaging,UMCGCohortsStaging,UMCUCohorts",
+Documentation,,resource,ref,1,TRUE,,Resources,,,,,The resource this documentation is for,"DataCatalogueFlat,EMA,CohortsStaging,RWEStaging,NetworksStaging,StudiesStaging,UMCGCohortsStaging,UMCUCohorts",
+Documentation,,name,,1,TRUE,,,,,,,Document name,"DataCatalogueFlat,EMA,CohortsStaging,RWEStaging,NetworksStaging,StudiesStaging,UMCGCohortsStaging,UMCUCohorts",
+Documentation,,type,ontology,,,CatalogueOntologies,Document types,,,,,Type of documentation,"DataCatalogueFlat,EMA,CohortsStaging,RWEStaging,NetworksStaging,StudiesStaging,UMCGCohortsStaging,UMCUCohorts",
+Documentation,,description,text,,,,,,,,,Description of the document,"DataCatalogueFlat,CohortsStaging,RWEStaging,NetworksStaging,StudiesStaging,UMCGCohortsStaging,UMCUCohorts",
+Documentation,,url,hyperlink,,,,,,,,,Hyperlink to the source of the documentation,"DataCatalogueFlat,EMA,CohortsStaging,RWEStaging,NetworksStaging,StudiesStaging,UMCGCohortsStaging,UMCUCohorts",
+Documentation,,file,file,,,,,,,,,Optional file attachment containing the documentation,"DataCatalogueFlat,EMA,CohortsStaging,RWEStaging,NetworksStaging,StudiesStaging,UMCGCohortsStaging,UMCUCohorts",

data/_models/shared/External identifiers.csv

@@ -1,6 +1,6 @@
 tableName,tableExtends,columnName,columnType,key,required,refSchema,refTable,refLink,refBack,validation,semantics,description,profiles,visible
-External identifiers,,,,,,,,,,,,External identifier(s) for this resource,"DataCatalogueFlat,EMA,CohortsStaging,RWEStaging,NetworksStaging,StudiesStaging,UMCGCohortsStaging",
-External identifiers,,resource,ref,1,TRUE,,Resources,,,,,Resource that this external identifier belongs to,"DataCatalogueFlat,EMA,CohortsStaging,RWEStaging,NetworksStaging,StudiesStaging,UMCGCohortsStaging",
-External identifiers,,identifier,text,1,TRUE,,,,,,,External identifier,"DataCatalogueFlat,EMA,CohortsStaging,RWEStaging,NetworksStaging,StudiesStaging,UMCGCohortsStaging",
-External identifiers,,external identifier type,ontology,,,CatalogueOntologies,External identifier types,,,,,External identifier type,"DataCatalogueFlat,EMA,CohortsStaging,RWEStaging,NetworksStaging,StudiesStaging,UMCGCohortsStaging",
-External identifiers,,external identifier type other,text,,,,,,,,,"If 'other', enter external identifier type","DataCatalogueFlat,CohortsStaging,RWEStaging,NetworksStaging,StudiesStaging,UMCGCohortsStaging",
+External identifiers,,,,,,,,,,,,External identifier(s) for this resource,"DataCatalogueFlat,EMA,CohortsStaging,RWEStaging,NetworksStaging,StudiesStaging,UMCGCohortsStaging,UMCUCohorts",
+External identifiers,,resource,ref,1,TRUE,,Resources,,,,,Resource that this external identifier belongs to,"DataCatalogueFlat,EMA,CohortsStaging,RWEStaging,NetworksStaging,StudiesStaging,UMCGCohortsStaging,UMCUCohorts",
+External identifiers,,identifier,text,1,TRUE,,,,,,,External identifier,"DataCatalogueFlat,EMA,CohortsStaging,RWEStaging,NetworksStaging,StudiesStaging,UMCGCohortsStaging,UMCUCohorts",
+External identifiers,,external identifier type,ontology,,,CatalogueOntologies,External identifier types,,,,,External identifier type,"DataCatalogueFlat,EMA,CohortsStaging,RWEStaging,NetworksStaging,StudiesStaging,UMCGCohortsStaging,UMCUCohorts",
+External identifiers,,external identifier type other,text,,,,,,,,,"If 'other', enter external identifier type","DataCatalogueFlat,CohortsStaging,RWEStaging,NetworksStaging,StudiesStaging,UMCGCohortsStaging,UMCUCohorts",