From b106dc843cdc60902b0c6d423291584086fd2868 Mon Sep 17 00:00:00 2001
From: lltommy
Date: Tue, 14 Apr 2020 22:56:33 +0200
Subject: Updated yaml schema and examples - plus ShEX shape to go along with
 it. Still work in progress but getting better and better I guess

---
 bh20sequploader/bh20seq-schema.yml | 15 ++++++++-------
 1 file changed, 8 insertions(+), 7 deletions(-)

(limited to 'bh20sequploader/bh20seq-schema.yml')

diff --git a/bh20sequploader/bh20seq-schema.yml b/bh20sequploader/bh20seq-schema.yml
index 2d2e4c9..a901be0 100644
--- a/bh20sequploader/bh20seq-schema.yml
+++ b/bh20sequploader/bh20seq-schema.yml
@@ -23,11 +23,12 @@ $graph:
         type: string
         jsonldPredicate:
           _id: http://semanticscience.org/resource/SIO_000115
-    host_common_name:
-        doc: Text label for the host species (e.g. homo sapiens)
-        type: string?
-        jsonldPredicate:
-          _id: http://purl.obolibrary.org/obo/NOMEN_0000037
+# Removed_common_name. Not necessary since we turned species into IRI
+#    host_common_name:
+#        doc: Text label for the host species (e.g. homo sapiens)
+#        type: string?
+#        jsonldPredicate:
+#          _id: http://purl.obolibrary.org/obo/NOMEN_0000037
     host_sex:
         doc: Sex of the host as define in NCIT, IRI expected (http://purl.obolibrary.org/obo/C20197 (Male), http://purl.obolibrary.org/obo/NCIT_C27993 (Female) or unkown (http://purl.obolibrary.org/obo/NCIT_C17998))
         type: string
@@ -120,7 +121,7 @@ $graph:
   fields:
     virus_species:
       doc: The name of a taxon from the NCBI taxonomy database
-      type: string?
+      type: string
       jsonldPredicate:
           _id: http://edamontology.org/data_1875
           _type: "@id"
@@ -145,7 +146,7 @@ $graph:
         _id: http://www.ebi.ac.uk/efo/EFO_0002699
     sequencing_coverage:
       doc: Sequence coverage defined as the average number of reads representing a given nucleotide (e.g. 100x)
-      type: string?
+      type: int?
       jsonldPredicate:
         _id: http://purl.obolibrary.org/obo/FLU_0000848
 
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