Update example BCO files

- check extension formats - update etags Changes to be committed: modified: HCV1a.json modified: HIVE_metagenomics.json modified: UVP.json modified: glycosylation-sites-UniCarbKB.json
biocompute-objects · Feb 18, 2021 · 75d2c56 · 75d2c56
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commit 75d2c56
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Showing 4 changed files with 22 additions and 19 deletions.
diff --git a/examples/HCV1a.json b/examples/HCV1a.json
@@ -1,6 +1,6 @@
 {
-    "object_id": "https://w3id.org/biocompute/1.3.0/examples/HCV1a.json",
-    "etag": "8e03f6f65e2caae86770a64a9ebef3e0651d4675a96687e5b148fda181c9cdc0",
+    "object_id": "https://raw.githubusercontent.com/biocompute-objects/BCO_Specification/1.4.2/examples/HCV1a.json",
+    "etag": "11ee4c3b8a04ad16dcca19a6f478c0870d3fe668ed6454096ab7165deb1ab8ea",
     "spec_version": "https://w3id.org/ieee/ieee-2791-schema/",
     "provenance_domain": {
         "name": "HCV1a ledipasvir resistance SNP detection",
@@ -71,7 +71,7 @@
     ],
     "extension_domain": [
         {
-            "extension_schema": "https://raw.githubusercontent.com/biocompute-objects/extension_domain/master/FHIR/fhir_extension.json",
+            "extension_schema": "https://raw.githubusercontent.com/biocompute-objects/extension_domain/1.1.0/fhir/fhir_extension.json",
             "fhir_extension": [
                 {
                     "fhir_endpoint": "http://fhirtest.uhn.ca/baseDstu3",
@@ -102,7 +102,7 @@
             ]
         }, 
         {
-            "extension_schema": "https://raw.githubusercontent.com/biocompute-objects/extension_domain/master/SCM/scm_extension.json",
+            "extension_schema": "https://raw.githubusercontent.com/biocompute-objects/extension_domain/1.1.0/scm/scm_extension.json",
             "scm_extension": {
                 "scm_repository": "https://github.com/example/repo1",
                 "scm_type": "git",

diff --git a/examples/HIVE_metagenomics.json b/examples/HIVE_metagenomics.json
@@ -1,6 +1,6 @@
 {
-    "object_id": "https://w3id.org/biocompute/1.3.0/examples/HIVE_metagenomics.json",
-    "etag": "09d55a44601184330b05dae6c3d49e9c3821f528a93f958edec92504fef41970",
+    "object_id": "https://raw.githubusercontent.com/biocompute-objects/BCO_Specification/1.4.2/examples/HIVE_metagenomics.json",
+    "etag": "caed07395b6afb58c8810d174a315260124f687740bc3bb14387de5e84c7e3d4",
     "spec_version" : "https://w3id.org/ieee/ieee-2791-schema/",
     "provenance_domain": {
         "name": "Healthy human fecal metagenomic diversity", 
@@ -50,7 +50,7 @@
     ],
     "extension_domain":[
         {
-            "extension_schema": "https://raw.githubusercontent.com/biocompute-objects/extension_domain/master/SCM/scm_extension.json",
+            "extension_schema": "https://raw.githubusercontent.com/biocompute-objects/extension_domain/1.1.0/scm/scm_extension.json",
             "scm_extension": {
                 "scm_repository": "https://github.com/biocompute-objects/HIVE_metagenomics",
                 "scm_type": "git",

diff --git a/examples/UVP.json b/examples/UVP.json
@@ -1,6 +1,6 @@
 {
     "object_id": "https://w3id.org/biocompute/1.3.0/examples/UVP_BCO.json",
-    "checksum": "e07ad61a2e13272437dc052de7502d8af8a122dc2865ff0f382f459983c0bccc",
+    "etag": "39fb1c62f43ff72ac95f91a433d5e425fb08bc07ec0f719ecfd27fb3cd3a3635",
     "spec_version": "https://w3id.org/biocompute/1.3.0/",
     "provenance_domain": {
         "name": "Lineage assignment for an isolate of M. tuberculosis based on its single nucleotide polymorphism (SNP) profile based on UVC v1.0.",
@@ -110,14 +110,17 @@
     "usability_domain": [
         "Lineage assignment for an isolate of M. tuberculosis[taxonomy:1773] based on its single nucleotide polymorphism [so:0000694] (SNP) profile."
     ],
-    "extension_domain": {
-        "scm_extension": {
-            "scm_repository": "https://github.com/CPTR-ReSeqTB/UVP",
-            "scm_type": "git",
-            "scm_commit": "9e8f588b3cd3f5eebde29f7d2879e1a1e1c1aed3",
-            "scm_path": "UVP/scripts/UVP.py"
+    "extension_domain": [
+        {
+            "extension_schema": "https://raw.githubusercontent.com/biocompute-objects/extension_domain/1.1.0/scm/scm_extension.json",
+            "scm_extension": {
+                "scm_repository": "https://github.com/CPTR-ReSeqTB/UVP",
+                "scm_type": "git",
+                "scm_commit": "9e8f588b3cd3f5eebde29f7d2879e1a1e1c1aed3",
+                "scm_path": "UVP/scripts/UVP.py"
+            }
         }
-    },
+    ],
     "description_domain": {
         "keywords": [
             "Mycobacterium tuberculosis",

diff --git a/examples/glycosylation-sites-UniCarbKB.json b/examples/glycosylation-sites-UniCarbKB.json
@@ -1,6 +1,6 @@
 {
-    "object_id": "https://w3id.org/biocompute/1.3.0/examples/glycosylation-sites-UniCarbKB",
-    "etag": "c0b41938a47f7b7689a34f5d89707f039e210f3cc22857b80070f73cbcd2e669",
+    "object_id": "https://raw.githubusercontent.com/biocompute-objects/BCO_Specification/1.4.2glycosylation-sites-UniCarbKB",
+    "etag": "5741d66ddf7881db33f7075ce8b64b941bd7cc001965f31682e5da9966c7f3ba",
     "spec_version" : "https://w3id.org/ieee/ieee-2791-schema/",
     "provenance_domain":{
         "name": "glycosylation-sites-UniCarbKB",
@@ -46,15 +46,15 @@
     ],
     "extension_domain":[
         {
-            "extension_schema": "https://raw.githubusercontent.com/biocompute-objects/extension_domain/master/License/license_extension.json",
+            "extension_schema": "https://raw.githubusercontent.com/biocompute-objects/extension_domain/1.1.0/license/license_extension.json",
             "license_extension":{
                 "data_license": "https://creativecommons.org/licenses/by/4.0/",
                 "scripts_license": "https://www.gnu.org/licenses/gpl-3.0.en.html"
             }
         },
         {
 
-            "extension_schema": "https://raw.githubusercontent.com/biocompute-objects/extension_domain/master/SCM/scm_extension.json",
+            "extension_schema": "https://raw.githubusercontent.com/biocompute-objects/extension_domain/1.1.0/scm/scm_extension.json",
             "scm_extension":{  
                 "scm_repository": "https://github.com/GW-HIVE/glygen-backend-integration/",
                 "scm_type": "git",