#428 - Read document ids from downloaded files in github integration …

…tests

- use grep/awk to extract the first id from an ontology and a codeable_concept file to use for checks

.github/scripts/post-elastic-test-queries.sh

@@ -2,6 +2,42 @@
 
 curl "$ELASTIC_HOST/_cat/indices"
 
+onto_example_id=$(grep '"_id":' ./elastic/onto_es__ontology_* | awk -F'"_id": "' '{print $2}' | awk -F'"' '{print $1}' | head -n 1)
+cc_example_id=$(grep '"_id":' ./elastic/onto_es__codeable_concept_* | awk -F'"_id": "' '{print $2}' | awk -F'"' '{print $1}' | head -n 1)
+
+response=$(curl -s -w "%{http_code}" -o response_body "$ELASTIC_HOST/ontology/_doc/$onto_example_id")
+http_code="${response: -3}"
+json_body=$(cat response_body)
+
+if [ "$http_code" -eq 200 ]; then
+    if echo "$json_body" | jq '.found == true' | grep -q true; then
+        echo "Ontology Document with id $onto_example_id found in elastic search"
+    else
+        echo "Empty or nonexistent response from elastic search for ontology document with id $onto_example_id"
+        exit 1
+    fi
+else
+    echo "Response code $http_code"
+    exit 1
+fi
+
+
+response=$(curl -s -w "%{http_code}" -o response_body "$ELASTIC_HOST/codeable_concept/_doc/$cc_example_id")
+http_code="${response: -3}"
+json_body=$(cat response_body)
+
+if [ "$http_code" -eq 200 ]; then
+    if echo "$json_body" | jq '.found == true' | grep -q true; then
+        echo "Codeable Concept Document with id $cc_example_id found in elastic search"
+    else
+        echo "Empty or nonexistent response from elastic search for codeable_concept document with id $cc_example_id"
+        exit 1
+    fi
+else
+    echo "Response code $http_code"
+    exit 1
+fi
+
 access_token="$(curl -s --request POST \
   --url http://localhost:8083/auth/realms/dataportal/protocol/openid-connect/token \
   --header 'Content-Type: application/x-www-form-urlencoded' \
@@ -17,9 +53,25 @@ json_body=$(cat response_body)
 
 if [ "$http_code" -eq 200 ]; then
     if echo "$json_body" | jq '.totalHits > 0' | grep -q true; then
-        echo "OK response with non-empty array"
+        echo "OK response with non-empty array on onto search with searchterm"
+    else
+        echo "Empty or nonexistent response on onto search with searchterm"
+        exit 1
+    fi
+else
+    echo "Response code $http_code"
+    exit 1
+fi
+
+response=$(curl -s -w "%{http_code}" --header "Authorization: Bearer $access_token" -o response_body "http://localhost:8091/api/v4/terminology/entry/$onto_example_id")
+http_code="${response: -3}"
+json_body=$(cat response_body)
+
+if [ "$http_code" -eq 200 ]; then
+    if echo "$json_body" | jq -e '.termcode and .termcode != ""' | grep -q true; then
+        echo "OK response with non-empty array on get onto by id"
     else
-        echo "Empty or nonexistent response"
+        echo "Empty or nonexistent response on get onto by id"
         exit 1
     fi
 else
@@ -33,9 +85,25 @@ json_body=$(cat response_body)
 
 if [ "$http_code" -eq 200 ]; then
     if echo "$json_body" | jq '.totalHits > 0' | grep -q true; then
-        echo "OK response with non-empty array"
+        echo "OK response with non-empty array on cc search with searchterm"
+    else
+        echo "Empty or nonexistent response on cc search with searchterm"
+        exit 1
+    fi
+else
+    echo "Response code $http_code"
+    exit 1
+fi
+
+response=$(curl -s -w "%{http_code}" --header "Authorization: Bearer $access_token" -o response_body "http://localhost:8091/api/v4/codeable-concept/entry/$cc_example_id")
+http_code="${response: -3}"
+json_body=$(cat response_body)
+
+if [ "$http_code" -eq 200 ]; then
+    if echo "$json_body" | jq -e '.termCode.code and .termCode.code != ""' | grep -q true; then
+        echo "OK response with non-empty array on get cc by id"
     else
-        echo "Empty or nonexistent response"
+        echo "Empty or nonexistent response on get cc by id"
         exit 1
     fi
 else