Merge pull request #69 from samply/develop

Obfuscating procedures and medicationStatements

README.md

@@ -40,6 +40,8 @@ OBFUSCATE_BELOW_10_MODE = "1" # The mode of obfuscating values below 10: 0 - ret
 DELTA_PATIENT = "1." # Sensitivity parameter for obfuscating the counts in the Patient stratifier, has no effect if OBFUSCATE = "no", default value: 1
 DELTA_SPECIMEN = "20." # Sensitivity parameter for obfuscating the counts in the Specimen stratifier, has no effect if OBFUSCATE = "no", default value: 20
 DELTA_DIAGNOSIS = "3." # Sensitivity parameter for obfuscating the counts in the Diagnosis stratifier, has no effect if OBFUSCATE = "no", default value: 3
+DELTA_PROCEDURES = "1.7" # Sensitivity parameter for obfuscating the counts in the Procedures stratifier, has no effect if OBFUSCATE = "no", default value: 1.7
+DELTA_MEDICATION_STATEMENTS = "2.1" # Sensitivity parameter for obfuscating the counts in the Medication Statements stratifier, has no effect if OBFUSCATE = "no", default value: 2.1
 EPSILON = "0.1" # Privacy budget parameter for obfuscating the counts in the stratifiers, has no effect if OBFUSCATE = "no", default value: 0.1
 ROUNDING_STEP = "10" # The granularity of the rounding of the obfuscated values, has no effect if OBFUSCATE = "no", default value: 10
 QUERIES_TO_CACHE_FILE_PATH = "resources/bbmri" # The path to the file containing BASE64 encoded queries whose results are to be cached, if not set, no results are cached

resources/measure_report_bbmri.json

@@ -0,0 +1 @@
+{"date": "2023-03-03T15:54:21.740195064Z", "extension": [{"url": "https://samply.github.io/blaze/fhir/StructureDefinition/eval-duration", "valueQuantity": {"code": "s", "system": "http://unitsofmeasure.org", "unit": "s", "value": 0.050495759}}], "group": [{"code": {"text": "patients"}, "population": [{"code": {"coding": [{"code": "initial-population", "system": "http://terminology.hl7.org/CodeSystem/measure-population"}]}, "count": 74}], "stratifier": [{"code": [{"text": "Gender"}], "stratum": [{"population": [{"code": {"coding": [{"code": "initial-population", "system": "http://terminology.hl7.org/CodeSystem/measure-population"}]}, "count": 31}], "value": {"text": "female"}}, {"population": [{"code": {"coding": [{"code": "initial-population", "system": "http://terminology.hl7.org/CodeSystem/measure-population"}]}, "count": 43}], "value": {"text": "male"}}]}, {"code": [{"text": "Age"}], "stratum": [{"population": [{"code": {"coding": [{"code": "initial-population", "system": "http://terminology.hl7.org/CodeSystem/measure-population"}]}, "count": 5}], "value": {"text": "40"}}, {"population": [{"code": {"coding": [{"code": "initial-population", "system": "http://terminology.hl7.org/CodeSystem/measure-population"}]}, "count": 4}], "value": {"text": "50"}}, {"population": [{"code": {"coding": [{"code": "initial-population", "system": "http://terminology.hl7.org/CodeSystem/measure-population"}]}, "count": 14}], "value": {"text": "60"}}, {"population": [{"code": {"coding": [{"code": "initial-population", "system": "http://terminology.hl7.org/CodeSystem/measure-population"}]}, "count": 4}], "value": {"text": "80"}}]}, {"code": [{"text": "Custodian"}], "stratum": [{"population": [{"code": {"coding": [{"code": "initial-population", "system": "http://terminology.hl7.org/CodeSystem/measure-population"}]}, "count": 31}], "value": {"text": "bbmri-eric:ID:CZ_CUNI_PILS:collection:serum_plasma"}}, {"population": [{"code": {"coding": [{"code": "initial-population", "system": "http://terminology.hl7.org/CodeSystem/measure-population"}]}, "count": 43}], "value": {"text": "null"}}]}]}, {"code": {"text": "diagnosis"}, "population": [{"code": {"coding": [{"code": "initial-population", "system": "http://terminology.hl7.org/CodeSystem/measure-population"}]}, "count": 324}], "stratifier": [{"code": [{"text": "diagnosis"}], "stratum": [{"population": [{"code": {"coding": [{"code": "initial-population", "system": "http://terminology.hl7.org/CodeSystem/measure-population"}]}, "count": 26}], "value": {"text": "C34.0"}}, {"population": [{"code": {"coding": [{"code": "initial-population", "system": "http://terminology.hl7.org/CodeSystem/measure-population"}]}, "count": 28}], "value": {"text": "C34.2"}}, {"population": [{"code": {"coding": [{"code": "initial-population", "system": "http://terminology.hl7.org/CodeSystem/measure-population"}]}, "count": 25}], "value": {"text": "C34.8"}}, {"population": [{"code": {"coding": [{"code": "initial-population", "system": "http://terminology.hl7.org/CodeSystem/measure-population"}]}, "count": 27}], "value": {"text": "C78.0"}}, {"population": [{"code": {"coding": [{"code": "initial-population", "system": "http://terminology.hl7.org/CodeSystem/measure-population"}]}, "count": 25}], "value": {"text": "D38.6"}}, {"population": [{"code": {"coding": [{"code": "initial-population", "system": "http://terminology.hl7.org/CodeSystem/measure-population"}]}, "count": 25}], "value": {"text": "R91"}}]}]}, {"code": {"text": "specimen"}, "population": [{"code": {"coding": [{"code": "initial-population", "system": "http://terminology.hl7.org/CodeSystem/measure-population"}]}, "count": 124}], "stratifier": [{"code": [{"text": "sample_kind"}], "stratum": [{"population": [{"code": {"coding": [{"code": "initial-population", "system": "http://terminology.hl7.org/CodeSystem/measure-population"}]}, "count": 62}], "value": {"text": "blood-plasma"}}, {"population": [{"code": {"coding": [{"code": "initial-population", "system": "http://terminology.hl7.org/CodeSystem/measure-population"}]}, "count": 62}], "value": {"text": "blood-serum"}}]}]}], "measure": "urn:uuid:fe7e5bf7-d792-4368-b1d2-5798930db13e", "period": {"end": "2030", "start": "2000"}, "resourceType": "MeasureReport", "status": "complete", "type": "summary", "meta": {"lastUpdated": "2023-06-27T13:12:56.719Z", "versionId": "11"}, "id": "DCH47RNHPKH6TC3W"}