From a1a5b2db96c315c784a8a77d8b2ce0db4c009f89 Mon Sep 17 00:00:00 2001
From: lltommy
Date: Mon, 20 Apr 2020 10:13:16 +0200
Subject: Making collection date and collection location MANDATORY fields,
 turning orcid into IRI

---
 bh20sequploader/bh20seq-schema.yml | 6 ++++--
 example/metadata.yaml              | 2 +-
 example/minimal_example.yaml       | 2 ++
 3 files changed, 7 insertions(+), 3 deletions(-)

diff --git a/bh20sequploader/bh20seq-schema.yml b/bh20sequploader/bh20seq-schema.yml
index 5000f08..64008f2 100644
--- a/bh20sequploader/bh20seq-schema.yml
+++ b/bh20sequploader/bh20seq-schema.yml
@@ -87,12 +87,12 @@ $graph:
           _type: "@id"
     collection_date:
       doc: Date when the sample was taken
-      type: string?
+      type: string
       jsonldPredicate:
           _id: http://ncicb.nci.nih.gov/xml/owl/EVS/Thesaurus.owl#C25164
     collection_location:
       doc: Geographical location where the sample was collected as wikidata reference, e.g. http://www.wikidata.org/entity/Q148 (China)
-      type: string?
+      type: string
       jsonldPredicate:
         _id: http://purl.obolibrary.org/obo/GAZ_00000448
         _type: "@id"
@@ -214,6 +214,8 @@ $graph:
       type: string?
       jsonldPredicate:
           _id: http://semanticscience.org/resource/SIO_000115
+          _type: "@id"
+          noLinkCheck: true
 
 - name: MainSchema
   type: record
diff --git a/example/metadata.yaml b/example/metadata.yaml
index 1e7f29c..8bbf980 100644
--- a/example/metadata.yaml
+++ b/example/metadata.yaml
@@ -17,7 +17,7 @@ sample:
     collecting_institution: Institute that was responsible of sampeling
     specimen_source: http://purl.obolibrary.org/obo/NCIT_C155831
     specimen_source2: http://purl.obolibrary.org/obo/NCIT_C155835
-    collection_date: Date when the sample was taken
+    collection_date: 2020-01-01
     collection_location: http://www.wikidata.org/entity/Q148
     sample_storage_conditions: XXX
     additional_collection_information: XXX
diff --git a/example/minimal_example.yaml b/example/minimal_example.yaml
index f4118d1..ed578e2 100644
--- a/example/minimal_example.yaml
+++ b/example/minimal_example.yaml
@@ -8,6 +8,8 @@ sample:
     sample_id: XX
     collector_name: John Doe
     collecting_institution: Doe university
+    collection_date: 2020-01
+    collection_location: http://www.wikidata.org/entity/Q148
 
 virus:
     virus_species: http://purl.obolibrary.org/obo/NCBITaxon_2697049
-- 
cgit v1.2.3