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db.collection.update({"referencedGeneralPractitioner.id":"id1"},{$set:{"referencedGeneralPractitioner.$[elem]":{"resourceType":"practitioner","id":"id1","cachedIdentifier":[{"system":{"value":"urn:oid:1.3.6.1.4.1.19126.3"},"value":{"value":"INCOMING"}}]}}},{"multi":true,"arrayFilters":[{"elem.id":{$eq:"id1"}}]})