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Merge pull request #521 from samply/release-0.13.1
Release v0.13.1
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| Original file line number | Diff line number | Diff line change |
|---|---|---|
| @@ -0,0 +1,142 @@ | ||
| #!/usr/bin/env bash | ||
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| # Usage: ./evaluate-measure-subject-list.sh -f <query>.cql <expected-count> | ||
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| # Takes a CQL file, creates a Library resource from it, references that from a | ||
| # Measure resource and calls $evaluate-measure with reportType subject-list on it. | ||
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| library() { | ||
| cat <<END | ||
| { | ||
| "resourceType": "Library", | ||
| "status": "active", | ||
| "type" : { | ||
| "coding" : [ | ||
| { | ||
| "system": "http://terminology.hl7.org/CodeSystem/library-type", | ||
| "code" : "logic-library" | ||
| } | ||
| ] | ||
| }, | ||
| "content": [ | ||
| { | ||
| "contentType": "text/cql" | ||
| } | ||
| ] | ||
| } | ||
| END | ||
| } | ||
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| measure() { | ||
| cat <<END | ||
| { | ||
| "resourceType": "Measure", | ||
| "status": "active", | ||
| "scoring": { | ||
| "coding": [ | ||
| { | ||
| "system": "http://terminology.hl7.org/CodeSystem/measure-scoring", | ||
| "code": "cohort" | ||
| } | ||
| ] | ||
| }, | ||
| "group": [ | ||
| { | ||
| "population": [ | ||
| { | ||
| "code": { | ||
| "coding": [ | ||
| { | ||
| "system": "http://terminology.hl7.org/CodeSystem/measure-population", | ||
| "code": "initial-population" | ||
| } | ||
| ] | ||
| }, | ||
| "criteria": { | ||
| "language": "text/cql", | ||
| "expression": "InInitialPopulation" | ||
| } | ||
| } | ||
| ] | ||
| } | ||
| ] | ||
| } | ||
| END | ||
| } | ||
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| parameters() { | ||
| cat <<END | ||
| { | ||
| "resourceType": "Parameters", | ||
| "parameter": [ | ||
| { | ||
| "name": "periodStart", | ||
| "value": "2000" | ||
| }, | ||
| { | ||
| "name": "periodEnd", | ||
| "value": "2030" | ||
| }, | ||
| { | ||
| "name": "reportType", | ||
| "value": "subject-list" | ||
| } | ||
| ] | ||
| } | ||
| END | ||
| } | ||
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| create-library() { | ||
| library | jq -cM ".url = \"urn:uuid:$1\" | .content[0].data = \"$2\"" | ||
| } | ||
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| create-measure() { | ||
| measure | jq -cM ".url = \"urn:uuid:$1\" | .library[0] = \"urn:uuid:$2\"" | ||
| } | ||
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| post() { | ||
| curl -sH "Content-Type: application/fhir+json" -d @- "http://localhost:8080/fhir/$1" | ||
| } | ||
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| evaluate-measure() { | ||
| parameters | curl -sH "Content-Type: application/fhir+json" -d @- "http://localhost:8080/fhir/Measure/$1/\$evaluate-measure" | ||
| } | ||
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| fetch-patients() { | ||
| curl -s "http://localhost:8080/fhir/Patient?_list=$1&_count=100" | ||
| } | ||
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| FILE=$1 | ||
| EXPECTED_COUNT=$2 | ||
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| DATA=$(base64 "$FILE" | tr -d '\n') | ||
| LIBRARY_URI=$(uuidgen | tr '[:upper:]' '[:lower:]') | ||
| MEASURE_URI=$(uuidgen | tr '[:upper:]' '[:lower:]') | ||
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| create-library "$LIBRARY_URI" "$DATA" | post "Library" > /dev/null | ||
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| MEASURE_ID=$(create-measure "$MEASURE_URI" "$LIBRARY_URI" | post "Measure" | jq -r .id) | ||
| REPORT=$(evaluate-measure "$MEASURE_ID") | ||
| COUNT=$(echo "$REPORT" | jq -r ".group[0].population[0].count") | ||
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| if [ "$COUNT" = "$EXPECTED_COUNT" ]; then | ||
| echo "Success: count ($COUNT) equals the expected count" | ||
| else | ||
| echo "Fail: count ($COUNT) != $EXPECTED_COUNT" | ||
| echo "Report:" | ||
| echo "$REPORT" | jq . | ||
| exit 1 | ||
| fi | ||
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| LIST_ID=$(echo "$REPORT" | jq -r '.group[0].population[0].subjectResults.reference | split("/")[1]') | ||
| PATIENT_BUNDLE=$(fetch-patients "$LIST_ID") | ||
| ID_COUNT=$(echo "$PATIENT_BUNDLE" | jq -r ".entry[].resource.id" | sort -u | wc -l | xargs | cut -d ' ' -f1) | ||
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| if [ "$ID_COUNT" = "$EXPECTED_COUNT" ]; then | ||
| echo "Success: downloaded patient count ($ID_COUNT) equals the expected count" | ||
| else | ||
| echo "Fail: downloaded patient count ($ID_COUNT) != $EXPECTED_COUNT" | ||
| echo "Patient bundle:" | ||
| echo "$PATIENT_BUNDLE" | jq . | ||
| exit 1 | ||
| fi |
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