diff --git a/config/default.json b/config/default.json index 98f55f6e..8bf43b06 100644 --- a/config/default.json +++ b/config/default.json @@ -2,7 +2,8 @@ "server": { "hostname": "0.0.0.0", "publicFhirBase": "http://localhost:3447/fhir", - "port": 3447 + "port": 3447, + "fhirVersion": "dstu2" }, "mongodb": { "url": "mongodb://localhost/hearth" @@ -31,5 +32,11 @@ "matchingQueue": { "numberOfWorkers": 2, "pollingInterval": 1000 + }, + "validation": { + "enabled": false, + "additionProfilePaths": [ + "lib/fhir/profiles/mhd" + ] } } diff --git a/lib/fhir/profile-loader.js b/lib/fhir/profile-loader.js new file mode 100644 index 00000000..1f7f2e26 --- /dev/null +++ b/lib/fhir/profile-loader.js @@ -0,0 +1,34 @@ +/** +* Copyright (c) 2017-present, Jembi Health Systems NPC. +* All rights reserved. +* +* This source code is licensed under the BSD-style license found in the +* LICENSE file in the root directory of this source tree. +*/ + +'use strict' + +const fs = require('fs') +const path = require('path') + +const profiles = {} + +module.exports = () => { + return { + loadProfiles: (paths) => { + paths.forEach((profilePath) => { + if (!profilePath.startsWith('/')) { + profilePath = `${global.appRoot}/${profilePath}` + } + fs.readdirSync(path.resolve(profilePath)).filter((file) => file.endsWith('.json')).forEach((file) => { + const profile = require(`${profilePath}/${file}`) + profiles[profile.type] = profile + }) + }) + }, + + getProfiles: () => { + return profiles + } + } +} diff --git a/lib/fhir/profiles/mhd/IHEMHDDocumentManifest.json b/lib/fhir/profiles/mhd/IHEMHDDocumentManifest.json new file mode 100644 index 00000000..cf2a851d --- /dev/null +++ b/lib/fhir/profiles/mhd/IHEMHDDocumentManifest.json @@ -0,0 +1,138 @@ +{ + "resourceType": "StructureDefinition", + "id": "IHE.MHD.DocumentManifest", + "text": { + "status": "additional", + "div": "
\r\n\tStructureDefinition for DocumentManifest as represented in the Provide and Query interactions in the \r\n IHE IT Infrastructure Technical Framework Supplement Mobile access to Health Documents (MHD) Rev. 2.3
" + }, + "url": "http://ihe.net/fhir/StructureDefinition/IHE.MHD.DocumentManifest", + "name": "IHE.MHD.DocumentManifest", + "title": "IHE MHD Profile on DocumentManifest (SubmissionSet)", + "status": "draft", + "experimental": false, + "date": "2017-12-21", + "publisher": "Integrating the Healthcare Enterprise (IHE)", + "contact": [ + { + "name": "IHE", + "telecom": [ + { + "system": "url", + "value": "http://ihe.net" + } + ] + }, + { + "name": "John Moehrke", + "telecom": [ + { + "system": "email", + "value": "JohnMoehrke@gmail.com" + } + ] + } + ], + "description": "Profile on DocumentManifest based on IHE IT Infrastructure Technical Framework Supplement - Mobile access to Health Documents (MHD) Rev. 2.3. See http://wiki.ihe.net/index.php/Mobile_access_to_Health_Documents_(MHD)", + "copyright": "IHE http://www.ihe.net/Governance/#Intellectual_Property", + "fhirVersion": "3.0.1", + "kind": "resource", + "abstract": false, + "type": "DocumentManifest", + "baseDefinition": "http://hl7.org/fhir/StructureDefinition/DocumentManifest", + "derivation": "constraint", + "differential": { + "element": [ + { + "id": "DocumentManifest.masterIdentifier", + "path": "DocumentManifest.masterIdentifier", + "min": 1 + }, + { + "id": "DocumentManifest.identifier", + "path": "DocumentManifest.identifier", + "min": 1 + }, + { + "id": "DocumentManifest.status", + "path": "DocumentManifest.status", + "comment": "approved -> status=current\r\ndeprecated -> status=superseded" + }, + { + "id": "DocumentManifest.type", + "path": "DocumentManifest.type", + "min": 1 + }, + { + "id": "DocumentManifest.subject", + "path": "DocumentManifest.subject", + "comment": "Not a contained resource. URL Points to an existing Patient resource representing Affinity Domain Patient", + "min": 1, + "type": [ + { + "code": "Reference", + "targetProfile": "http://hl7.org/fhir/StructureDefinition/Patient" + } + ] + }, + { + "id": "DocumentManifest.created", + "path": "DocumentManifest.created", + "min": 1 + }, + { + "id": "DocumentManifest.author", + "path": "DocumentManifest.author", + "comment": "Contained author resource of type Practitioner with:\r\n* authorInstitution: Organization\r\n* authorPerson: Practitioner.identifier and Practitioner.name\r\n* authorRole:—Not supported in STU3\r\n* authorSpecialty: Practitioner.qualification\r\n* authorTelecommunication: Practitioner.telecom", + "type": [ + { + "code": "Reference", + "targetProfile": "http://hl7.org/fhir/StructureDefinition/Practitioner" + }, + { + "code": "Reference", + "targetProfile": "http://hl7.org/fhir/StructureDefinition/Organization" + } + ], + "mustSupport": true + }, + { + "id": "DocumentManifest.source", + "path": "DocumentManifest.source", + "min": 1 + }, + { + "id": "DocumentManifest.content.p[x]:pReference", + "path": "DocumentManifest.content.pReference", + "sliceName": "pReference", + "type": [ + { + "code": "Reference", + "targetProfile": "http://ihe.net/fhir/StructureDefinition/IHE.MHD.ProvideDocumentBundle.Minimal" + }, + { + "code": "Reference", + "targetProfile": "http://ihe.net/fhir/StructureDefinition/IHE.MHD.ProvideDocumentBundle.Comprehensive" + }, + { + "code": "Reference", + "targetProfile": "http://ihe.net/fhir/StructureDefinition/IHE.MHD.Query.Minimal.DocumentReference" + }, + { + "code": "Reference", + "targetProfile": "http://ihe.net/fhir/StructureDefinition/IHE.MHD.Query.Comprehensive.DocumentReference" + }, + { + "code": "Reference", + "targetProfile": "http://hl7.org/fhir/StructureDefinition/DocumentReference" + } + ] + }, + { + "id": "DocumentManifest.related", + "path": "DocumentManifest.related", + "comment": "These HL7 FHIR STU3 elements are not used in XDS, therefore would not be present. Document Consumers should be robust to these elements holding values.", + "max": "0" + } + ] + } +} \ No newline at end of file diff --git a/lib/fhir/profiles/mhd/IHEMHDList.json b/lib/fhir/profiles/mhd/IHEMHDList.json new file mode 100644 index 00000000..4e7ec999 --- /dev/null +++ b/lib/fhir/profiles/mhd/IHEMHDList.json @@ -0,0 +1,124 @@ +{ + "resourceType": "StructureDefinition", + "id": "IHE.MHD.List", + "text": { + "status": "additional", + "div": "
\r\n\tStructureDefinition for List Resource supporting XDS Folders in the \r\n IHE IT Infrastructure Technical Framework Supplement Mobile access to Health Documents (MHD) Rev. 2.3
" + }, + "url": "http://ihe.net/fhir/StructureDefinition/IHE.MHD.List", + "name": "IHE.MHD.List", + "title": "IHE MHD Profile on List (Folder)", + "status": "draft", + "experimental": false, + "date": "2017-12-18", + "publisher": "Integrating the Healthcare Enterprise (IHE)", + "contact": [ + { + "name": "IHE", + "telecom": [ + { + "system": "url", + "value": "http://ihe.net" + } + ] + }, + { + "name": "John Moehrke", + "telecom": [ + { + "system": "email", + "value": "JohnMoehrke@gmail.com" + } + ] + } + ], + "description": "Profile on List for use as a Document Folder based on IHE IT Infrastructure Technical Framework Supplement - Mobile access to Health Documents (MHD) Rev. 2.3. See http://wiki.ihe.net/index.php/Mobile_access_to_Health_Documents_(MHD)", + "copyright": "IHE http://www.ihe.net/Governance/#Intellectual_Property", + "fhirVersion": "3.0.1", + "kind": "resource", + "abstract": false, + "type": "List", + "baseDefinition": "http://hl7.org/fhir/StructureDefinition/List", + "derivation": "constraint", + "differential": { + "element": [ + { + "id": "List.identifier", + "path": "List.identifier", + "comment": "When the List.identifier carries the entryUUID then the List.identifier.use shall be ‘official’; and the uniqueId then the List.identifier.use shall be\r\n‘usual’.", + "min": 1 + }, + { + "id": "List.mode", + "path": "List.mode", + "comment": "shall be ‘working’", + "fixedCode": "working" + }, + { + "id": "List.title", + "path": "List.title", + "min": 1 + }, + { + "id": "List.code", + "path": "List.code", + "comment": "code.coding is [0..*] so may contain many.", + "min": 1 + }, + { + "id": "List.subject", + "path": "List.subject", + "comment": "URL Points to an existing Patient resource representing Affinity Domain Patient.", + "min": 1, + "type": [ + { + "code": "Reference", + "targetProfile": "http://hl7.org/fhir/StructureDefinition/Patient" + } + ] + }, + { + "id": "List.encounter", + "path": "List.encounter", + "comment": "These HL7 FHIR STU3 elements are not used in XDS, therefore would not be present. Document Consumers should be robust to these elements holding values.", + "max": "0" + }, + { + "id": "List.source", + "path": "List.source", + "comment": "These HL7 FHIR STU3 elements are not used in XDS, therefore would not be present. Document Consumers should be robust to these elements holding values.", + "max": "0" + }, + { + "id": "List.orderedBy", + "path": "List.orderedBy", + "comment": "These HL7 FHIR STU3 elements are not used in XDS, therefore would not be present. Document Consumers should be robust to these elements holding values.", + "max": "0" + }, + { + "id": "List.entry.flag", + "path": "List.entry.flag", + "comment": "These HL7 FHIR STU3 elements are not used in XDS, therefore would not be present. Document Consumers should be robust to these elements holding values.", + "max": "0" + }, + { + "id": "List.entry.deleted", + "path": "List.entry.deleted", + "comment": "These HL7 FHIR STU3 elements are not used in XDS, therefore would not be present. Document Consumers should be robust to these elements holding values.", + "max": "0" + }, + { + "id": "List.entry.date", + "path": "List.entry.date", + "comment": "These HL7 FHIR STU3 elements are not used in XDS, therefore would not be present. Document Consumers should be robust to these elements holding values.", + "max": "0" + }, + { + "id": "List.emptyReason", + "path": "List.emptyReason", + "comment": "These HL7 FHIR STU3 elements are not used in XDS, therefore would not be present. Document Consumers should be robust to these elements holding values.", + "max": "0" + } + ] + } +} \ No newline at end of file diff --git a/lib/fhir/profiles/mhd/IHEMHDProvideComprehensiveDocumentReference.json b/lib/fhir/profiles/mhd/IHEMHDProvideComprehensiveDocumentReference.json new file mode 100644 index 00000000..3b8834b9 --- /dev/null +++ b/lib/fhir/profiles/mhd/IHEMHDProvideComprehensiveDocumentReference.json @@ -0,0 +1,207 @@ +{ + "resourceType": "StructureDefinition", + "id": "IHE.MHD.ProvideDocumentBundle.Comprehensive", + "text": { + "status": "additional", + "div": "
\r\n\tStructureDefinition for Provide Document Bundle (ITI-65) transaction between the MHD Document Source and the MHD Document Recipient with Comprehensive (XDS-on-FHIR) metadata compliance in the \r\n IHE IT Infrastructure Technical Framework Supplement Mobile access to Health Documents (MHD) Rev. 2.3
" + }, + "url": "http://ihe.net/fhir/StructureDefinition/IHE.MHD.ProvideDocumentBundle.Comprehensive", + "name": "IHE.MHD.ProvideDocumentBundle.Comprehensive", + "title": "IHE MHD profile on Provide Document Bundle (ITI-65) transaction with Comprehensive Metadata", + "status": "draft", + "experimental": false, + "date": "2017-12-22", + "publisher": "Integrating the Healthcare Enterprise (IHE)", + "contact": [ + { + "name": "IHE", + "telecom": [ + { + "system": "url", + "value": "http://ihe.net" + } + ] + }, + { + "name": "John Moehrke", + "telecom": [ + { + "system": "email", + "value": "JohnMoehrke@gmail.com" + } + ] + } + ], + "description": "Profile on Transaction Bundle based on IHE IT Infrastructure Technical Framework Supplement - Mobile access to Health Documents (MHD) Rev. 2.3. See http://wiki.ihe.net/index.php/Mobile_access_to_Health_Documents_(MHD)", + "copyright": "IHE http://www.ihe.net/Governance/#Intellectual_Property", + "fhirVersion": "3.0.1", + "kind": "resource", + "abstract": false, + "type": "Bundle", + "baseDefinition": "http://hl7.org/fhir/StructureDefinition/Bundle", + "derivation": "constraint", + "differential": { + "element": [ + { + "id": "Bundle.meta.profile", + "path": "Bundle.meta.profile", + "short": "ITI-65", + "definition": "IHE MHD Provide Document Bundle transaction", + "min": 1, + "max": "1", + "fixedUri": "http://ihe.net/fhir/tag/iti-65" + }, + { + "id": "Bundle.type", + "path": "Bundle.type", + "short": "transaction", + "fixedCode": "transaction " + }, + { + "id": "Bundle.entry", + "path": "Bundle.entry", + "slicing": { + "discriminator": [ + { + "type": "value", + "path": "fullUrl" + } + ], + "rules": "open" + } + }, + { + "id": "Bundle.entry:DocumentManifest", + "path": "Bundle.entry", + "sliceName": "DocumentManifest", + "short": "DocumentManifest", + "min": 1, + "max": "1" + }, + { + "id": "Bundle.entry:DocumentManifest.fullUrl", + "path": "Bundle.entry.fullUrl", + "min": 1 + }, + { + "id": "Bundle.entry:DocumentManifest.resource", + "path": "Bundle.entry.resource", + "min": 1, + "type": [ + { + "code": "Resource", + "profile": "http://ihe.net/fhir/StructureDefinition/IHE.MHD.DocumentManifest" + } + ] + }, + { + "id": "Bundle.entry:DocumentManifest.request", + "path": "Bundle.entry.request", + "min": 1 + }, + { + "id": "Bundle.entry:DocumentManifest.request.method", + "path": "Bundle.entry.request.method", + "fixedCode": "POST" + }, + { + "id": "Bundle.entry:DocumentReference", + "path": "Bundle.entry", + "sliceName": "DocumentReference", + "short": "DocumentReference", + "min": 1 + }, + { + "id": "Bundle.entry:DocumentReference.fullUrl", + "path": "Bundle.entry.fullUrl", + "min": 1 + }, + { + "id": "Bundle.entry:DocumentReference.resource", + "path": "Bundle.entry.resource", + "min": 1, + "type": [ + { + "code": "Resource", + "profile": "http://ihe.net/fhir/StructureDefinition/IHE.MHD.Provide.Comprehensive.DocumentReference" + } + ] + }, + { + "id": "Bundle.entry:DocumentReference.request", + "path": "Bundle.entry.request", + "min": 1 + }, + { + "id": "Bundle.entry:DocumentReference.request.method", + "path": "Bundle.entry.request.method", + "fixedCode": "POST" + }, + { + "id": "Bundle.entry:List", + "path": "Bundle.entry", + "sliceName": "List", + "short": "List" + }, + { + "id": "Bundle.entry:List.fullUrl", + "path": "Bundle.entry.fullUrl", + "min": 1 + }, + { + "id": "Bundle.entry:List.resource", + "path": "Bundle.entry.resource", + "min": 1, + "type": [ + { + "code": "Resource", + "profile": "http://ihe.net/fhir/StructureDefinition/IHE.MHD.List" + } + ] + }, + { + "id": "Bundle.entry:List.request", + "path": "Bundle.entry.request", + "min": 1 + }, + { + "id": "Bundle.entry:List.request.method", + "path": "Bundle.entry.request.method", + "fixedCode": "POST" + }, + { + "id": "Bundle.entry:Binary", + "path": "Bundle.entry", + "sliceName": "Binary", + "short": "Binary", + "definition": "Entry for the actual document in a Binary resource." + }, + { + "id": "Bundle.entry:Binary.fullUrl", + "path": "Bundle.entry.fullUrl", + "min": 1 + }, + { + "id": "Bundle.entry:Binary.resource", + "path": "Bundle.entry.resource", + "min": 1, + "type": [ + { + "code": "Resource", + "profile": "http://hl7.org/fhir/StructureDefinition/Binary" + } + ] + }, + { + "id": "Bundle.entry:Binary.request", + "path": "Bundle.entry.request", + "min": 1 + }, + { + "id": "Bundle.entry:Binary.request.method", + "path": "Bundle.entry.request.method", + "fixedCode": "POST" + } + ] + } +} \ No newline at end of file diff --git a/lib/fhir/profiles/mhd/IHEMHDProvideMinimalDocumentReference.json b/lib/fhir/profiles/mhd/IHEMHDProvideMinimalDocumentReference.json new file mode 100644 index 00000000..1b8c5492 --- /dev/null +++ b/lib/fhir/profiles/mhd/IHEMHDProvideMinimalDocumentReference.json @@ -0,0 +1,207 @@ +{ + "resourceType": "StructureDefinition", + "id": "IHE.MHD.ProvideDocumentBundle.Minimal", + "text": { + "status": "additional", + "div": "
\r\n\tStructureDefinition for Provide Document Bundle (ITI-65) transaction between the MHD Document Source and the MHD Document Recipient with Minimal metadata compliance in the \r\n IHE IT Infrastructure Technical Framework Supplement Mobile access to Health Documents (MHD) Rev. 2.3
" + }, + "url": "http://ihe.net/fhir/StructureDefinition/IHE.MHD.ProvideDocumentBundle.Minimal", + "name": "IHE.MHD.ProvideDocumentBundle.Minimal", + "title": "IHE MHD profile on Provide Document Bundle (ITI-65) transaction with Minimal Metadata", + "status": "draft", + "experimental": false, + "date": "2017-12-22", + "publisher": "Integrating the Healthcare Enterprise (IHE)", + "contact": [ + { + "name": "IHE", + "telecom": [ + { + "system": "url", + "value": "http://ihe.net" + } + ] + }, + { + "name": "John Moehrke", + "telecom": [ + { + "system": "email", + "value": "JohnMoehrke@gmail.com" + } + ] + } + ], + "description": "Profile on Transaction Bundle based on IHE IT Infrastructure Technical Framework Supplement - Mobile access to Health Documents (MHD) Rev. 2.3. See http://wiki.ihe.net/index.php/Mobile_access_to_Health_Documents_(MHD)", + "copyright": "IHE http://www.ihe.net/Governance/#Intellectual_Property", + "fhirVersion": "3.0.1", + "kind": "resource", + "abstract": false, + "type": "Bundle", + "baseDefinition": "http://hl7.org/fhir/StructureDefinition/Bundle", + "derivation": "constraint", + "differential": { + "element": [ + { + "id": "Bundle.meta.profile", + "path": "Bundle.meta.profile", + "short": "ITI-65", + "definition": "IHE MHD Provide Document Bundle transaction", + "min": 1, + "max": "1", + "fixedUri": "http://ihe.net/fhir/tag/iti-65" + }, + { + "id": "Bundle.type", + "path": "Bundle.type", + "short": "transaction", + "fixedCode": "transaction " + }, + { + "id": "Bundle.entry", + "path": "Bundle.entry", + "slicing": { + "discriminator": [ + { + "type": "value", + "path": "fullUrl" + } + ], + "rules": "open" + } + }, + { + "id": "Bundle.entry:DocumentManifest", + "path": "Bundle.entry", + "sliceName": "DocumentManifest", + "short": "DocumentManifest", + "min": 1, + "max": "1" + }, + { + "id": "Bundle.entry:DocumentManifest.fullUrl", + "path": "Bundle.entry.fullUrl", + "min": 1 + }, + { + "id": "Bundle.entry:DocumentManifest.resource", + "path": "Bundle.entry.resource", + "min": 1, + "type": [ + { + "code": "Resource", + "profile": "http://ihe.net/fhir/StructureDefinition/IHE.MHD.DocumentManifest" + } + ] + }, + { + "id": "Bundle.entry:DocumentManifest.request", + "path": "Bundle.entry.request", + "min": 1 + }, + { + "id": "Bundle.entry:DocumentManifest.request.method", + "path": "Bundle.entry.request.method", + "fixedCode": "POST" + }, + { + "id": "Bundle.entry:DocumentReference", + "path": "Bundle.entry", + "sliceName": "DocumentReference", + "short": "DocumentReference", + "min": 1 + }, + { + "id": "Bundle.entry:DocumentReference.fullUrl", + "path": "Bundle.entry.fullUrl", + "min": 1 + }, + { + "id": "Bundle.entry:DocumentReference.resource", + "path": "Bundle.entry.resource", + "min": 1, + "type": [ + { + "code": "Resource", + "profile": "http://ihe.net/fhir/StructureDefinition/IHE.MHD.Provide.Minimal.DocumentReference" + } + ] + }, + { + "id": "Bundle.entry:DocumentReference.request", + "path": "Bundle.entry.request", + "min": 1 + }, + { + "id": "Bundle.entry:DocumentReference.request.method", + "path": "Bundle.entry.request.method", + "fixedCode": "POST" + }, + { + "id": "Bundle.entry:List", + "path": "Bundle.entry", + "sliceName": "List", + "short": "List" + }, + { + "id": "Bundle.entry:List.fullUrl", + "path": "Bundle.entry.fullUrl", + "min": 1 + }, + { + "id": "Bundle.entry:List.resource", + "path": "Bundle.entry.resource", + "min": 1, + "type": [ + { + "code": "Resource", + "profile": "http://ihe.net/fhir/StructureDefinition/IHE.MHD.List" + } + ] + }, + { + "id": "Bundle.entry:List.request", + "path": "Bundle.entry.request", + "min": 1 + }, + { + "id": "Bundle.entry:List.request.method", + "path": "Bundle.entry.request.method", + "fixedCode": "POST" + }, + { + "id": "Bundle.entry:Binary", + "path": "Bundle.entry", + "sliceName": "Binary", + "short": "Binary", + "definition": "Entry for the actual document in a Binary resource." + }, + { + "id": "Bundle.entry:Binary.fullUrl", + "path": "Bundle.entry.fullUrl", + "min": 1 + }, + { + "id": "Bundle.entry:Binary.resource", + "path": "Bundle.entry.resource", + "min": 1, + "type": [ + { + "code": "Resource", + "profile": "http://hl7.org/fhir/StructureDefinition/Binary" + } + ] + }, + { + "id": "Bundle.entry:Binary.request", + "path": "Bundle.entry.request", + "min": 1 + }, + { + "id": "Bundle.entry:Binary.request.method", + "path": "Bundle.entry.request.method", + "fixedCode": "POST" + } + ] + } +} \ No newline at end of file diff --git a/lib/fhir/profiles/mhd/IHEMHDQueryComprenensiveDocumentReference.json b/lib/fhir/profiles/mhd/IHEMHDQueryComprenensiveDocumentReference.json new file mode 100644 index 00000000..dcee6132 --- /dev/null +++ b/lib/fhir/profiles/mhd/IHEMHDQueryComprenensiveDocumentReference.json @@ -0,0 +1,287 @@ +{ + "resourceType": "StructureDefinition", + "id": "IHE.MHD.Query.Comprehensive.DocumentReference", + "text": { + "status": "additional", + "div": "
\r\n\tStructureDefinition for Provide DocumentResource resource within the Provide Document Bundle transaction with Minimal metadata compliance in the \r\n IHE IT Infrastructure Technical Framework Supplement Mobile access to Health Documents (MHD) Rev. 2.3
" + }, + "url": "http://ihe.net/fhir/StructureDefinition/IHE.MHD.Query.Comprenensive.DocumentReference", + "name": "IHE.MHD.Query.Comprehensive.DocumentReference", + "title": "IHE MHD Profile on DocumentReference (DocumentEntry) from a Query with Comprehensive Metadata (aka XDS-on-FHIR), see Table 3:4.3.2.1-3.", + "status": "draft", + "experimental": false, + "date": "2017-12-18", + "publisher": "Integrating the Healthcare Enterprise (IHE)", + "contact": [ + { + "name": "IHE", + "telecom": [ + { + "system": "url", + "value": "http://ihe.net" + } + ] + }, + { + "name": "John Moehrke", + "telecom": [ + { + "system": "email", + "value": "JohnMoehrke@gmail.com" + } + ] + } + ], + "description": "Profile on DocumentReference based on IHE IT Infrastructure Technical Framework Supplement - Mobile access to Health Documents (MHD) Rev. 2.3. See http://wiki.ihe.net/index.php/Mobile_access_to_Health_Documents_(MHD)", + "copyright": "IHE http://www.ihe.net/Governance/#Intellectual_Property", + "fhirVersion": "3.0.1", + "kind": "resource", + "abstract": false, + "type": "DocumentReference", + "baseDefinition": "http://hl7.org/fhir/StructureDefinition/DocumentReference", + "derivation": "constraint", + "differential": { + "element": [ + { + "id": "DocumentReference.masterIdentifier", + "path": "DocumentReference.masterIdentifier", + "comment": "See ITI TF-2x: Z.9.1.1 Identifier and CDA root plus extension.", + "min": 1, + "mustSupport": false + }, + { + "id": "DocumentReference.identifier", + "path": "DocumentReference.identifier", + "comment": "When the DocumentReference.identifier carries the entryUUID then the DocumentReference.identifier use shall be ‘official’.", + "min": 1, + "mustSupport": false + }, + { + "id": "DocumentReference.status", + "path": "DocumentReference.status", + "comment": "approved -> status=current\r\ndeprecated -> status=superseded", + "mustSupport": false + }, + { + "id": "DocumentReference.docStatus", + "path": "DocumentReference.docStatus", + "comment": "These HL7 FHIR STU3 elements are not used in XDS, therefore would not be present. Document Consumers\r\nshould be robust to these elements holding values", + "max": "0" + }, + { + "id": "DocumentReference.class", + "path": "DocumentReference.class", + "min": 1, + "mustSupport": false + }, + { + "id": "DocumentReference.subject", + "path": "DocumentReference.subject", + "comment": "Not a contained resource. URL Points to an existing Patient Resource representing the XDS Affinity Domain Patient.", + "min": 1, + "type": [ + { + "code": "Reference", + "targetProfile": "http://hl7.org/fhir/StructureDefinition/Patient" + } + ], + "mustSupport": false + }, + { + "id": "DocumentReference.created", + "path": "DocumentReference.created", + "max": "0" + }, + { + "id": "DocumentReference.indexed", + "path": "DocumentReference.indexed", + "mustSupport": false + }, + { + "id": "DocumentReference.author", + "path": "DocumentReference.author", + "comment": "Contained resource of type Practitioner with:\r\n* authorInstitution: Organization\r\n* authorPerson: Practitioner.identifier and Practitioner.name\r\n* authorRole: — Not supported in STU3\r\n* authorSpecialty: Practitioner.qualification\r\n* authorTelecommunication: Practitioner.telecom", + "type": [ + { + "code": "Reference", + "targetProfile": "http://hl7.org/fhir/StructureDefinition/Practitioner" + }, + { + "code": "Reference", + "targetProfile": "http://hl7.org/fhir/StructureDefinition/Organization" + } + ], + "mustSupport": true + }, + { + "id": "DocumentReference.authenticator", + "path": "DocumentReference.authenticator", + "comment": "Contained resource ", + "mustSupport": false + }, + { + "id": "DocumentReference.custodian", + "path": "DocumentReference.custodian", + "comment": "These HL7 FHIR STU3 elements are not used in XDS, therefore would not be present. Document Consumers should be robust to these elements holding values.", + "max": "0" + }, + { + "id": "DocumentReference.relatesTo", + "path": "DocumentReference.relatesTo", + "comment": "See ITI TF-2c: 3.65.4.1.2.3", + "mustSupport": false + }, + { + "id": "DocumentReference.description", + "path": "DocumentReference.description", + "mustSupport": false + }, + { + "id": "DocumentReference.securityLabel", + "path": "DocumentReference.securityLabel", + "comment": "Note: This is NOT the DocumentReference.meta, as that holds the meta tags for the DocumentReference itself.", + "min": 1, + "mustSupport": false + }, + { + "id": "DocumentReference.content", + "path": "DocumentReference.content", + "max": "1", + "mustSupport": false + }, + { + "id": "DocumentReference.content.attachment", + "path": "DocumentReference.content.attachment", + "mustSupport": false + }, + { + "id": "DocumentReference.content.attachment.contentType", + "path": "DocumentReference.content.attachment.contentType", + "min": 1, + "mustSupport": false + }, + { + "id": "DocumentReference.content.attachment.language", + "path": "DocumentReference.content.attachment.language", + "min": 1, + "mustSupport": false + }, + { + "id": "DocumentReference.content.attachment.data", + "path": "DocumentReference.content.attachment.data", + "comment": "These HL7 FHIR STU3 elements are not used in XDS, therefore would not be present. Document Consumers should be robust to these elements holding values.", + "max": "0" + }, + { + "id": "DocumentReference.content.attachment.url", + "path": "DocumentReference.content.attachment.url", + "min": 1, + "mustSupport": false + }, + { + "id": "DocumentReference.content.attachment.size", + "path": "DocumentReference.content.attachment.size", + "comment": "The size is calculated on the data prior to base64 encoding, if the data is base64 encoded.", + "min": 1, + "mustSupport": false + }, + { + "id": "DocumentReference.content.attachment.hash", + "path": "DocumentReference.content.attachment.hash", + "comment": "The IHE Document Sharing metadata element hash holds the SHA1 hash of the document. The hash is encoded in FHIR in base64Binary, whereas in XDS hexbinary is used. The hash is calculated on the data prior to base64 encoding, if the data is base64 encoded.", + "min": 1, + "mustSupport": false + }, + { + "id": "DocumentReference.content.attachment.title", + "extension": [ + { + "url": "http://hl7.org/fhir/StructureDefinition/elementdefinition-translatable", + "valueBoolean": true + } + ], + "path": "DocumentReference.content.attachment.title", + "mustSupport": false + }, + { + "id": "DocumentReference.content.attachment.creation", + "path": "DocumentReference.content.attachment.creation", + "comment": "These HL7 FHIR STU3 elements are not used in XDS, therefore would not be present. Document Consumers should be robust to these elements holding values.", + "max": "0" + }, + { + "id": "DocumentReference.content.format", + "path": "DocumentReference.content.format", + "min": 1, + "mustSupport": false, + "binding": { + "extension": [ + { + "url": "http://hl7.org/fhir/StructureDefinition/elementdefinition-bindingName", + "valueString": "DocumentFormat" + } + ], + "strength": "preferred", + "valueSetReference": { + "reference": "http://ihe.net/fhir/ValueSet/IHE.formatcode.vs" + } + } + }, + { + "id": "DocumentReference.context", + "path": "DocumentReference.context", + "mustSupport": false + }, + { + "id": "DocumentReference.context.encounter", + "path": "DocumentReference.context.encounter", + "comment": "When referenceIdList contains an encounter, and a FHIR Encounter is available, it may be referenced.", + "mustSupport": false + }, + { + "id": "DocumentReference.context.event", + "path": "DocumentReference.context.event", + "mustSupport": false + }, + { + "id": "DocumentReference.context.period", + "path": "DocumentReference.context.period", + "mustSupport": true + }, + { + "id": "DocumentReference.context.facilityType", + "path": "DocumentReference.context.facilityType", + "min": 1, + "mustSupport": false + }, + { + "id": "DocumentReference.context.practiceSetting", + "path": "DocumentReference.context.practiceSetting", + "min": 1, + "mustSupport": false + }, + { + "id": "DocumentReference.context.sourcePatientInfo", + "path": "DocumentReference.context.sourcePatientInfo", + "comment": "Contained Patient resource with Patient.identifier.use element set to ‘usual’.\r\n\r\nIndicates that the data within the XDS document entry be represented as a contained resource. See Section 4.5.4.4.7", + "min": 1, + "mustSupport": false + }, + { + "id": "DocumentReference.context.related", + "path": "DocumentReference.context.related", + "mustSupport": false + }, + { + "id": "DocumentReference.context.related.identifier", + "path": "DocumentReference.context.related.identifier", + "comment": "See ITI TF-2x: Appendix E.3.1 on CXi mapping to FHIR Identifier" + }, + { + "id": "DocumentReference.context.related.ref", + "path": "DocumentReference.context.related.ref", + "comment": "May be filled with URL pointers to Resources found in referenceIdList" + } + ] + } +} \ No newline at end of file diff --git a/lib/fhir/profiles/mhd/IHEMHDQueryMinimalDocumentReference.json b/lib/fhir/profiles/mhd/IHEMHDQueryMinimalDocumentReference.json new file mode 100644 index 00000000..d0158126 --- /dev/null +++ b/lib/fhir/profiles/mhd/IHEMHDQueryMinimalDocumentReference.json @@ -0,0 +1,281 @@ +{ + "resourceType": "StructureDefinition", + "id": "IHE.MHD.Query.Minimal.DocumentReference", + "text": { + "status": "additional", + "div": "
\r\n\tStructureDefinition for DocumentReference Query (ITI-67) transaction between the MHD Document Responder and the MHD Document Consumer with Minimal metadata compliance in the \r\n IHE IT Infrastructure Technical Framework Supplement Mobile access to Health Documents (MHD) Rev. 2.3
" + }, + "url": "http://ihe.net/fhir/StructureDefinition/IHE.MHD.Query.Minimal.DocumentReference", + "name": "IHE.MHD.Query.Minimal.DocumentReference", + "title": "IHE MHD Profile on DocumentReference (DocumentEntry) from a Query with Minimal Metadata, see Table 3:4.3.2.1-3.", + "status": "draft", + "experimental": false, + "date": "2017-12-18", + "publisher": "Integrating the Healthcare Enterprise (IHE)", + "contact": [ + { + "name": "IHE", + "telecom": [ + { + "system": "url", + "value": "http://ihe.net" + } + ] + }, + { + "name": "John Moehrke", + "telecom": [ + { + "system": "email", + "value": "JohnMoehrke@gmail.com" + } + ] + } + ], + "description": "Profile on DocumentReference based on IHE IT Infrastructure Technical Framework Supplement - Mobile access to Health Documents (MHD) Rev. 2.3. See http://wiki.ihe.net/index.php/Mobile_access_to_Health_Documents_(MHD)", + "copyright": "IHE http://www.ihe.net/Governance/#Intellectual_Property", + "fhirVersion": "3.0.1", + "kind": "resource", + "abstract": false, + "type": "DocumentReference", + "baseDefinition": "http://hl7.org/fhir/StructureDefinition/DocumentReference", + "derivation": "constraint", + "differential": { + "element": [ + { + "id": "DocumentReference.masterIdentifier", + "path": "DocumentReference.masterIdentifier", + "comment": "See ITI TF-2x: Z.9.1.1 Identifier and CDA root plus extension.", + "min": 1, + "mustSupport": true + }, + { + "id": "DocumentReference.identifier", + "path": "DocumentReference.identifier", + "comment": "When the DocumentReference.identifier carries the entryUUID then the DocumentReference.identifier use shall be ‘official’.", + "mustSupport": true + }, + { + "id": "DocumentReference.status", + "path": "DocumentReference.status", + "comment": "approved -> status=current\r\ndeprecated -> status=superseded", + "mustSupport": false + }, + { + "id": "DocumentReference.docStatus", + "path": "DocumentReference.docStatus", + "comment": "These HL7 FHIR STU3 elements are not used in XDS, therefore would not be present. Document Consumers\r\nshould be robust to these elements holding values", + "max": "0" + }, + { + "id": "DocumentReference.type", + "path": "DocumentReference.type", + "mustSupport": true + }, + { + "id": "DocumentReference.class", + "path": "DocumentReference.class", + "mustSupport": true + }, + { + "id": "DocumentReference.subject", + "path": "DocumentReference.subject", + "comment": "Not a contained resource. URL Points to an existing Patient Resource representing the XDS Affinity Domain Patient.", + "type": [ + { + "code": "Reference", + "targetProfile": "http://hl7.org/fhir/StructureDefinition/Patient" + } + ], + "mustSupport": true + }, + { + "id": "DocumentReference.created", + "path": "DocumentReference.created", + "max": "0" + }, + { + "id": "DocumentReference.indexed", + "path": "DocumentReference.indexed", + "mustSupport": true + }, + { + "id": "DocumentReference.author", + "path": "DocumentReference.author", + "comment": "Contained resource of type Practitioner with:\r\n* authorInstitution: Organization\r\n* authorPerson: Practitioner.identifier and Practitioner.name\r\n* authorRole: — Not supported in STU3\r\n* authorSpecialty: Practitioner.qualification\r\n* authorTelecommunication: Practitioner.telecom", + "type": [ + { + "code": "Reference", + "targetProfile": "http://hl7.org/fhir/StructureDefinition/Practitioner" + }, + { + "code": "Reference", + "targetProfile": "http://hl7.org/fhir/StructureDefinition/Organization" + } + ], + "mustSupport": true + }, + { + "id": "DocumentReference.authenticator", + "path": "DocumentReference.authenticator", + "comment": "Contained resource ", + "mustSupport": false + }, + { + "id": "DocumentReference.custodian", + "path": "DocumentReference.custodian", + "comment": "These HL7 FHIR STU3 elements are not used in XDS, therefore would not be present. Document Consumers should be robust to these elements holding values.", + "max": "0" + }, + { + "id": "DocumentReference.relatesTo", + "path": "DocumentReference.relatesTo", + "comment": "See ITI TF-2c: 3.65.4.1.2.3", + "mustSupport": true + }, + { + "id": "DocumentReference.description", + "path": "DocumentReference.description", + "mustSupport": false + }, + { + "id": "DocumentReference.securityLabel", + "path": "DocumentReference.securityLabel", + "comment": "Note: This is NOT the DocumentReference.meta, as that holds the meta tags for the DocumentReference itself.", + "mustSupport": true + }, + { + "id": "DocumentReference.content", + "path": "DocumentReference.content", + "max": "1", + "mustSupport": true + }, + { + "id": "DocumentReference.content.attachment", + "path": "DocumentReference.content.attachment", + "mustSupport": true + }, + { + "id": "DocumentReference.content.attachment.contentType", + "path": "DocumentReference.content.attachment.contentType", + "min": 1, + "mustSupport": false + }, + { + "id": "DocumentReference.content.attachment.language", + "path": "DocumentReference.content.attachment.language", + "mustSupport": true + }, + { + "id": "DocumentReference.content.attachment.data", + "path": "DocumentReference.content.attachment.data", + "comment": "These HL7 FHIR STU3 elements are not used in XDS, therefore would not be present. Document Consumers should be robust to these elements holding values.", + "max": "0" + }, + { + "id": "DocumentReference.content.attachment.url", + "path": "DocumentReference.content.attachment.url", + "min": 1, + "mustSupport": true + }, + { + "id": "DocumentReference.content.attachment.size", + "path": "DocumentReference.content.attachment.size", + "comment": "The size is calculated on the data prior to base64 encoding, if the data is base64 encoded.", + "mustSupport": false + }, + { + "id": "DocumentReference.content.attachment.hash", + "path": "DocumentReference.content.attachment.hash", + "comment": "The IHE Document Sharing metadata element hash holds the SHA1 hash of the document. The hash is encoded in FHIR in base64Binary, whereas in XDS hexbinary is used. The hash is calculated on the data prior to base64 encoding, if the data is base64 encoded.", + "mustSupport": false + }, + { + "id": "DocumentReference.content.attachment.title", + "extension": [ + { + "url": "http://hl7.org/fhir/StructureDefinition/elementdefinition-translatable", + "valueBoolean": true + } + ], + "path": "DocumentReference.content.attachment.title", + "mustSupport": false + }, + { + "id": "DocumentReference.content.attachment.creation", + "path": "DocumentReference.content.attachment.creation", + "comment": "These HL7 FHIR STU3 elements are not used in XDS, therefore would not be present. Document Consumers should be robust to these elements holding values.", + "max": "0" + }, + { + "id": "DocumentReference.content.format", + "path": "DocumentReference.content.format", + "mustSupport": true, + "binding": { + "extension": [ + { + "url": "http://hl7.org/fhir/StructureDefinition/elementdefinition-bindingName", + "valueString": "DocumentFormat" + } + ], + "strength": "preferred", + "valueSetReference": { + "reference": "http://ihe.net/fhir/ValueSet/IHE.formatcode.vs" + } + } + }, + { + "id": "DocumentReference.context", + "path": "DocumentReference.context", + "mustSupport": true + }, + { + "id": "DocumentReference.context.encounter", + "path": "DocumentReference.context.encounter", + "comment": "When referenceIdList contains an encounter, and a FHIR Encounter is available, it may be referenced.", + "mustSupport": true + }, + { + "id": "DocumentReference.context.event", + "path": "DocumentReference.context.event", + "mustSupport": false + }, + { + "id": "DocumentReference.context.period", + "path": "DocumentReference.context.period", + "mustSupport": true + }, + { + "id": "DocumentReference.context.facilityType", + "path": "DocumentReference.context.facilityType", + "mustSupport": true + }, + { + "id": "DocumentReference.context.practiceSetting", + "path": "DocumentReference.context.practiceSetting", + "mustSupport": true + }, + { + "id": "DocumentReference.context.sourcePatientInfo", + "path": "DocumentReference.context.sourcePatientInfo", + "comment": "Contained Patient resource with Patient.identifier.use element set to ‘usual’.\r\n\r\nIndicates that the data within the XDS document entry be represented as a contained resource. See Section 4.5.4.4.7", + "mustSupport": true + }, + { + "id": "DocumentReference.context.related", + "path": "DocumentReference.context.related", + "mustSupport": true + }, + { + "id": "DocumentReference.context.related.identifier", + "path": "DocumentReference.context.related.identifier", + "comment": "See ITI TF-2x: Appendix E.3.1 on CXi mapping to FHIR Identifier" + }, + { + "id": "DocumentReference.context.related.ref", + "path": "DocumentReference.context.related.ref", + "comment": "May be filled with URL pointers to Resources found in referenceIdList" + } + ] + } +} \ No newline at end of file diff --git a/lib/fhir/query-utils.js b/lib/fhir/query-utils.js index 39faaff8..d115c315 100644 --- a/lib/fhir/query-utils.js +++ b/lib/fhir/query-utils.js @@ -116,6 +116,41 @@ module.exports = (mongo) => { */ transformDate: transformDate, + tokenToSystemValue: (fieldToMatch, token) => { + const match = (fieldToMatch, token) => { + const clause = {} + const multipleDomains = token.split(',') + if (multipleDomains.length > 1) { + return { + $and: multipleDomains.map((domain) => { + return match(fieldToMatch, domain) + }) + } + } + + const split = token.split('|') + if (split.length > 1) { + split[0] = split[0] ? split[0] : { $exists: false } + split[1] = split[1] ? split[1] : { $exists: true } + + clause[`${fieldToMatch}.system`] = split[0] + clause[`${fieldToMatch}.value`] = split[1] + } else { + clause[`${fieldToMatch}.value`] = split[0] + } + return clause + } + + if (Array.isArray(token)) { + return { + $and: token.map((t) => { + return match(fieldToMatch, t) + }) + } + } + return match(fieldToMatch, token) + }, + tokenToSystemValueElemMatch: (fieldToMatch, token) => { const match = (fieldToMatch, token) => { const clause = {} @@ -442,47 +477,77 @@ module.exports = (mongo) => { * @param {String} baseParam the string name of first parameter in the * chained * @param {String} chainedParam the string name of the next parameter - * in the chain - * @param {Object} chainedModule an instanciated FHIR module for the - * chained parameter's type + * in the chain + * @param {Array} chainedModules an array of objects containing the instanciated + * FHIR module and query path parameter * @param {Function} callback a node style callback (err, query) where * query is a mongo query string for the * chained parameters */ - genChainedParamQuery: (value, baseParam, chainedParam, chainedModule, callback) => { - const ctx = { query: {} } - ctx.query[chainedParam] = value - // fetch the referenced filters using reference FHIR module - chainedModule.searchFilters(ctx, (err, badRequest, filters) => { - if (err) { return callback(err) } - if (badRequest) { return callback(new Error(`Bad request made to ${chainedModule.name} module while chaining parameters`)) } - mongo.getDB((err, db) => { + genChainedParamQuery: (value, baseParam, chainedModules, callback) => { + const fetchReferencedFilters = (chainedParam, chainedModule, callback) => { + const ctx = { query: {} } + ctx.query[chainedParam] = value + + // fetch the referenced filters using reference FHIR module + chainedModule.searchFilters(ctx, (err, badRequest, filters) => { if (err) { return callback(err) } - const c = db.collection(chainedModule.name) - // find patients in question - c.find(filters).project({ id: 1 }).toArray((err, results) => { + if (badRequest) { return callback(new Error(`Bad request made to ${chainedModule.name} module while chaining parameters`)) } + mongo.getDB((err, db) => { if (err) { return callback(err) } - if (results.length === 0) { - // return query to a non-existant resource so an empty result set is returned - const query = {} - query[baseParam] = `${chainedModule.name}/_none` - return callback(null, query) - } - - // build up a query that finds docs for each matching resource - const clauses = [] - results.forEach((resource) => { - const clause = {} - clause[baseParam] = `${chainedModule.name}/${resource.id}` - clauses.push(clause) + const c = db.collection(chainedModule.name) + // find patients in question + c.find(filters).project({ id: 1 }).toArray((err, results) => { + if (err) { return callback(err) } + if (results.length === 0) { + // return query to a non-existant resource so an empty result set is returned + const query = {} + query[baseParam] = `${chainedModule.name}/_none` + return callback(null, query) + } + + // build up a query that finds docs for each matching resource + const clauses = [] + results.forEach((resource) => { + const clause = {} + clause[baseParam] = `${chainedModule.name}/${resource.id}` + clauses.push(clause) + }) + if (clauses.length > 1) { + callback(null, { '$or': clauses }) + } else { + callback(null, clauses[0]) + } }) - if (clauses.length > 1) { - callback(null, { '$or': clauses }) - } else { - callback(null, clauses[0]) - } }) }) + } + + const promises = [] + + for (const moduleIdx in chainedModules) { + let param = chainedModules[moduleIdx].param + let module = chainedModules[moduleIdx].module + + promises.push(new Promise((resolve, reject) => { + fetchReferencedFilters(param, module, (err, clauses) => { + if (err) { + return reject(err) + } + + resolve(clauses) + }) + })) + } + + Promise.all(promises).then((clauses) => { + if (clauses.length > 1) { + callback(null, { '$or': clauses }) + } else { + callback(null, clauses[0]) + } + }).catch((err) => { + callback(err) }) }, diff --git a/lib/fhir/resources/binary.js b/lib/fhir/resources/binary.js index ce8102a9..04540dc8 100644 --- a/lib/fhir/resources/binary.js +++ b/lib/fhir/resources/binary.js @@ -30,6 +30,14 @@ module.exports = (mongo) => { if (err) { return callback(err) } + + // return in requested format if it matches the defined contentType + if (ctx.headers['content-type'] === data.contentType) { + const buf = Buffer.from(data.content, 'base64') + + return callback(null, null, buf) + } + callback(null, null, data) }) } diff --git a/lib/fhir/resources/doc-manifest.js b/lib/fhir/resources/doc-manifest.js index 2bfb1358..836f7444 100644 --- a/lib/fhir/resources/doc-manifest.js +++ b/lib/fhir/resources/doc-manifest.js @@ -10,6 +10,7 @@ const Patient = require('./patient') const Practitioner = require('./practitioner') +const RelatedPerson = require('./related-person') const constants = require('../../constants') const FhirCommon = require('../common') const QueryUtils = require('../query-utils') @@ -17,6 +18,7 @@ const QueryUtils = require('../query-utils') module.exports = (mongo) => { const patient = Patient(mongo) const practitioner = Practitioner(mongo) + const relatedPerson = RelatedPerson(mongo) const fhirCommon = FhirCommon(mongo) const queryUtils = QueryUtils(mongo) @@ -40,13 +42,22 @@ module.exports = (mongo) => { searchFilters: (ctx, callback) => { const queryParams = ctx.query const supportedParams = { - patient: {}, - 'patient.identifier': {}, + author: {}, + 'content-ref': {}, created: {}, - 'author.given': {}, - 'author.family': {}, - type: {}, + description: {}, + identifier: { allowArray: true }, + patient: {}, + recipient: {}, + 'related-id': {}, + 'related-ref': {}, + source: {}, status: {}, + subject: {}, + type: {}, + 'patient.identifier': { allowArray: true }, + 'author.given': { allowArray: true, modifiers: { exact: true } }, + 'author.family': { allowArray: true, modifiers: { exact: true } }, _include: { allowArray: true }, _revinclude: { allowArray: true } } @@ -59,14 +70,94 @@ module.exports = (mongo) => { let query = { $and: [] } let promises = [] + if (queryObject['author']) { + query['$and'].push({ + 'author': { + $elemMatch: { + 'reference': queryUtils.paramAsReference(queryObject['author'][constants.NO_MODIFER], 'Device') + } + } + }) + } + + if (queryObject['content-ref']) { + query['$and'].push({ + 'content': { + $elemMatch: { + 'pReference.reference': queryUtils.paramAsReference(queryObject['content-ref'][constants.NO_MODIFER], 'DocumentReference') + } + } + }) + } + + if (queryObject['created']) { + query['$and'].push(queryUtils.paramAsDateRangeClause('_transforms.created', queryObject['created'][constants.NO_MODIFER])) + } + + if (queryObject['description']) { + query['$and'].push({ description: queryObject['description'][constants.NO_MODIFER] }) + } + + if (queryObject['identifier']) { + query['$and'].push(queryUtils.tokenToSystemValueElemMatch('identifier', queryObject['identifier'][constants.NO_MODIFER])) + } + if (queryObject['patient']) { // TODO handle full url references query['$and'].push({ 'subject.reference': queryUtils.paramAsReference(queryObject['patient'][constants.NO_MODIFER], 'Patient') }) } + if (queryObject['recipient']) { + query['$and'].push({ + 'recipient': { + $elemMatch: { + 'reference': queryUtils.paramAsReference(queryObject['recipient'][constants.NO_MODIFER], 'Patient') + } + } + }) + } + + if (queryObject['related-id']) { + query['$and'].push({ + 'related': { + $elemMatch: queryUtils.tokenToSystemValue('identifier', queryObject['related-id'][constants.NO_MODIFER]) + } + }) + } + + if (queryObject['related-ref']) { + query['$and'].push({ + 'related': { + $elemMatch: { + 'ref.reference': queryUtils.paramAsReference(queryObject['related-ref'][constants.NO_MODIFER], 'DocumentReference') + } + } + }) + } + + if (queryObject['source']) { + query['$and'].push({ source: queryObject['source'][constants.NO_MODIFER] }) + } + + if (queryObject['status']) { + query['$and'].push({ status: queryObject['status'][constants.NO_MODIFER] }) + } + + if (queryObject['subject']) { + query['$and'].push({ 'subject.reference': queryUtils.paramAsReference(queryObject['subject'][constants.NO_MODIFER], 'Patient') }) + } + + if (queryObject['type']) { + query['$and'].push(queryUtils.tokenToSystemCodeElemMatch('type.coding', queryObject['type'][constants.NO_MODIFER])) + } + + // MHD search parameter if (queryObject['patient.identifier']) { promises.push(new Promise((resolve, reject) => { - queryUtils.genChainedParamQuery(queryObject['patient.identifier'][constants.NO_MODIFER], 'subject.reference', 'identifier', patient, (err, clause) => { + const chainedModules = [ + { param: 'identifier', module: patient } + ] + queryUtils.genChainedParamQuery(queryObject['patient.identifier'][constants.NO_MODIFER], 'subject.reference', chainedModules, (err, clause) => { if (err) { return reject(err) } query['$and'].push(clause) resolve() @@ -74,13 +165,15 @@ module.exports = (mongo) => { })) } - if (queryObject['created']) { - query['$and'].push(queryUtils.paramAsDateRangeClause('_transforms.created', queryObject['created'][constants.NO_MODIFER])) - } - + // MHD search parameter if (queryObject['author.given']) { promises.push(new Promise((resolve, reject) => { - queryUtils.genChainedParamQuery(queryObject['author.given'][constants.NO_MODIFER], 'author.reference', 'given', practitioner, (err, clause) => { + const chainedModules = [ + { param: 'given', module: patient }, + { param: 'given', module: practitioner }, + { param: 'name', module: relatedPerson } + ] + queryUtils.genChainedParamQuery(queryObject['author.given'][constants.NO_MODIFER], 'author.reference', chainedModules, (err, clause) => { if (err) { return reject(err) } query['$and'].push(clause) resolve() @@ -88,9 +181,15 @@ module.exports = (mongo) => { })) } + // MHD search parameter if (queryObject['author.family']) { promises.push(new Promise((resolve, reject) => { - queryUtils.genChainedParamQuery(queryObject['author.family'][constants.NO_MODIFER], 'author.reference', 'family', practitioner, (err, clause) => { + const chainedModules = [ + { param: 'family', module: patient }, + { param: 'family', module: practitioner }, + { param: 'name', module: relatedPerson } + ] + queryUtils.genChainedParamQuery(queryObject['author.family'][constants.NO_MODIFER], 'author.reference', chainedModules, (err, clause) => { if (err) { return reject(err) } query['$and'].push(clause) resolve() @@ -98,14 +197,6 @@ module.exports = (mongo) => { })) } - if (queryObject['type']) { - query['$and'].push(queryUtils.tokenToSystemCodeElemMatch('type.coding', queryObject['type'][constants.NO_MODIFER])) - } - - if (queryObject['status']) { - query['$and'].push({ status: queryObject['status'][constants.NO_MODIFER] }) - } - Promise.all(promises).then(() => { if (query['$and'].length > 0) { callback(null, null, query) @@ -117,6 +208,5 @@ module.exports = (mongo) => { }) }) } - } } diff --git a/lib/fhir/resources/document-reference.js b/lib/fhir/resources/document-reference.js index 7d4b3292..6c26f7c2 100644 --- a/lib/fhir/resources/document-reference.js +++ b/lib/fhir/resources/document-reference.js @@ -80,7 +80,10 @@ module.exports = (mongo) => { if (queryObject['patient.identifier']) { promises.push(new Promise((resolve, reject) => { - queryUtils.genChainedParamQuery(queryObject['patient.identifier'][constants.NO_MODIFER], 'subject.reference', 'identifier', patient, (err, clause) => { + const chainedModules = [ + { param: 'identifier', module: patient } + ] + queryUtils.genChainedParamQuery(queryObject['patient.identifier'][constants.NO_MODIFER], 'subject.reference', chainedModules, (err, clause) => { if (err) { return reject(err) } query['$and'].push(clause) resolve() @@ -94,7 +97,10 @@ module.exports = (mongo) => { if (queryObject['author.given']) { promises.push(new Promise((resolve, reject) => { - queryUtils.genChainedParamQuery(queryObject['author.given'][constants.NO_MODIFER], 'author.reference', 'given', practitioner, (err, clause) => { + const chainedModules = [ + { param: 'given', module: practitioner } + ] + queryUtils.genChainedParamQuery(queryObject['author.given'][constants.NO_MODIFER], 'author.reference', chainedModules, (err, clause) => { if (err) { return reject(err) } query['$and'].push(clause) resolve() @@ -104,7 +110,10 @@ module.exports = (mongo) => { if (queryObject['author.family']) { promises.push(new Promise((resolve, reject) => { - queryUtils.genChainedParamQuery(queryObject['author.family'][constants.NO_MODIFER], 'author.reference', 'family', practitioner, (err, clause) => { + const chainedModules = [ + { param: 'family', module: practitioner } + ] + queryUtils.genChainedParamQuery(queryObject['author.family'][constants.NO_MODIFER], 'author.reference', chainedModules, (err, clause) => { if (err) { return reject(err) } query['$and'].push(clause) resolve() diff --git a/lib/fhir/resources/related-person.js b/lib/fhir/resources/related-person.js new file mode 100644 index 00000000..a397e945 --- /dev/null +++ b/lib/fhir/resources/related-person.js @@ -0,0 +1,92 @@ + /** + * Copyright (c) 2017-present, Jembi Health Systems NPC. + * All rights reserved. + * + * This source code is licensed under the BSD-style license found in the + * LICENSE file in the root directory of this source tree. + */ +'use strict' + +const FhirCommon = require('../common') +const constants = require('../../constants') +const QueryUtils = require('../query-utils') + +module.exports = (mongo) => { + const fhirCommon = FhirCommon(mongo) + const queryUtils = QueryUtils(mongo) + + return { + name: 'RelatedPerson', + + searchFilters: (ctx, callback) => { + const queryParams = ctx.query + const supportedParams = { + _id: { modifiers: { exact: true } }, + identifier: { allowArray: true }, + name: { allowArray: true, modifiers: { exact: true } }, + gender: {}, + birthDate: { allowArray: true }, + address: { allowArray: true, modifiers: { exact: true } }, + telecom: { allowArray: true }, + _include: { allowArray: true }, + _revinclude: { allowArray: true } + } + + queryUtils.validateAndParseQueryParams(queryParams, supportedParams, (badRequest, queryObject) => { + if (badRequest) { + return callback(null, fhirCommon.buildHTTPOutcome(400, 'error', 'invalid', badRequest)) + } + + let query = { $and: [] } + + if (queryObject['_id']) { + for (const modifier in queryObject['_id']) { + query['$and'].push({ 'id': queryObject['_id'][modifier] }) + } + } + + if (queryObject['identifier']) { + query['$and'].push(queryUtils.tokenToSystemValueElemMatch('identifier', queryObject['identifier'][constants.NO_MODIFER])) + } + + // relatedPerson name search paramater can match in given or family name + if (queryObject['name']) { + const nameQuery = { + '$or': [] + } + + for (const modifier in queryObject['name']) { + nameQuery['$or'].push(queryUtils.nameToMongoClause('given', queryObject['name'][modifier], modifier)) + nameQuery['$or'].push(queryUtils.nameToMongoClause('family', queryObject['name'][modifier], modifier)) + } + + query['$and'].push(nameQuery) + } + + if (queryObject['gender']) { + query['$and'].push({ gender: queryObject['gender'][constants.NO_MODIFER] }) + } + + if (queryObject['birthDate']) { + query['$and'].push(queryUtils.dateToMongoClause('birthDate', queryObject['birthDate'][constants.NO_MODIFER])) + } + + if (queryObject['address']) { + for (const modifier in queryObject['address']) { + query['$and'].push(queryUtils.addressToMongoClause('address', queryObject['address'][modifier], modifier)) + } + } + + if (queryObject['telecom']) { + query['$and'].push(queryUtils.tokenToSystemValueElemMatch('telecom', queryObject['telecom'][constants.NO_MODIFER])) + } + + if (query['$and'].length > 0) { + callback(null, null, query) + } else { + callback() + } + }) + } + } +} diff --git a/lib/plugins/validator.js b/lib/plugins/validator.js new file mode 100644 index 00000000..3e9f82ad --- /dev/null +++ b/lib/plugins/validator.js @@ -0,0 +1,78 @@ +/** +* Copyright (c) 2017-present, Jembi Health Systems NPC. +* All rights reserved. +* +* This source code is licensed under the BSD-style license found in the +* LICENSE file in the root directory of this source tree. +*/ + +'use strict' + +const FHIR = require('fhir') +const config = require('../config') + +const profileLoader = require('../fhir/profile-loader')() + +let fhir = null +switch (config.getConf('server:fhirVersion')) { + case 'dstu1': + fhir = new FHIR(FHIR.DSTU1) + break + case 'dstu2': + fhir = new FHIR(FHIR.DSTU2) + break + case 'stu3': + fhir = new FHIR(FHIR.STU3) + break +} + +module.exports = () => { + return { + hooks: { + before: [ + { + resourceType: '*', + interactions: [ 'create', 'update' ], + userType: '*', + function: (interaction, ctx, resourceType, resource, callback) => { + if (!config.getConf('validation:enabled')) { + return callback(null, null) + } + + const profiles = profileLoader.getProfiles() + + try { + let result = null + if (profiles[resourceType]) { + result = fhir.ValidateJSResource(resource, profiles[resourceType]) + } else { + result = fhir.ValidateJSResource(resource) + } + + // handle results + if (result.valid === true) { + callback(null, null) + } else { + callback(null, { + httpStatus: 400, + resource: { + resourceType: 'OperationOutcome', + issue: result.errors.map((error) => { + return { + severity: 'error', + code: 'invalid', + details: { text: error } + } + }) + } + }) + } + } catch (err) { + callback(err) + } + } + } + ] + } + } +} diff --git a/lib/server.js b/lib/server.js index d367bf06..4f39b5b3 100644 --- a/lib/server.js +++ b/lib/server.js @@ -12,11 +12,13 @@ require('./init') const logger = require('winston') const express = require('express') const bodyParser = require('body-parser') +const xmlParser = require('express-xml-bodyparser') const cors = require('cors') const moment = require('moment') const fs = require('fs') const path = require('path') const URL = require('url') +const FHIR = require('fhir') const config = require('./config') const mongo = require('./mongo')() @@ -31,9 +33,26 @@ const hooks = require('./fhir/hooks')() const matchingQueue = require('./matching-queue/matching-queue')(mongo) const matchingIndexes = require('../scripts/matching-indexes')(mongo) const moduleLoader = require('./fhir/module-loader')(mongo) +const profileLoader = require('./fhir/profile-loader')() + +const acceptedJSONContentTypes = ['application/json+fhir', 'application/json'] +const acceptedXMLContentTypes = ['application/xml+fhir', 'application/xml', 'text/xml'] process.title = 'Hearth' +let fhir = null +switch (config.getConf('server:fhirVersion')) { + case 'dstu1': + fhir = new FHIR(FHIR.DSTU1) + break + case 'dstu2': + fhir = new FHIR(FHIR.DSTU2) + break + case 'stu3': + fhir = new FHIR(FHIR.STU3) + break +} + if (config.getConf('createIndexes')) { matchingIndexes.createMatchingIndexes((err) => { if (err) { @@ -46,6 +65,12 @@ if (config.getConf('createIndexes')) { moduleLoader.loadModules() const fhirResources = moduleLoader.getLoadedModules() +// Load validation profiles +const validationConf = config.getConf('validation') +if (validationConf.enabled) { + profileLoader.loadProfiles(validationConf.additionProfilePaths) +} + // Load plugins fs.readdirSync(path.resolve(`${global.appRoot}/lib/plugins`)).forEach((file) => { const plugin = require(`./plugins/${file}`)(mongo, fhirResources) @@ -66,7 +91,8 @@ const fhirRoot = require('./fhir/root')(mongo, fhirResources) // Setup express let app = express() -app.use(bodyParser.json({limit: '10Mb', type: ['application/json+fhir', 'application/json']})) +app.use(bodyParser.json({limit: '10Mb', type: acceptedJSONContentTypes})) +app.use(xmlParser()) app.use(cors({ exposedHeaders: 'Location' })) // Public API endpoints @@ -159,6 +185,37 @@ const buildCoreCallbackHandler = (req, res, next) => { } } +const incomingAcceptsContentTypeHandler = (req, res, next) => { + const accepts = req.accepts([].concat(acceptedJSONContentTypes).concat(acceptedXMLContentTypes)) + + if (accepts) { + res.set('content-type', accepts) + } else { + return res.sendStatus(406) // not acceptable + } + + next() +} + +app.use(incomingAcceptsContentTypeHandler) + +const contentTypeNegotiation = (req, res, next) => { + // transform XML body into JSON for processing if content type is xml and rawBody exists + if (req.rawBody && req.get('content-type') && acceptedXMLContentTypes.includes(req.get('content-type'))) { + fhir.XmlToJson(req.rawBody).then((jsonObj) => { + req.body = JSON.parse(jsonObj) + next() + }) + .catch((err) => { + res.status(500).send(err) + }) + } else { + next() + } +} + +app.use(contentTypeNegotiation) + // FHIR root handler app.post('/fhir', (req, res, next) => { fhirRoot.processRootBundle(res.locals.ctx, req.body, buildCoreCallbackHandler(req, res, next)) @@ -196,21 +253,6 @@ app.delete('/fhir/:resourceType/:id', (req, res, next) => { fhirCore.delete(res.locals.ctx, req.params.resourceType, req.params.id, buildCoreCallbackHandler(req, res, next)) }) -const returnContentTypeHandler = (req, res, next) => { - if (res.locals.outcome && res.locals.outcome.resource) { - const accepts = req.accepts(['application/json+fhir', 'application/json']) - if (accepts) { - res.set('content-type', accepts) - } else { - return res.sendStatus(406) // not acceptable - } - } - - next() -} - -app.use(returnContentTypeHandler) - const outcomeHandler = (req, res, next) => { if (!res.locals.outcome) { return next(new Error('Interaction outcome not set')) @@ -220,7 +262,14 @@ const outcomeHandler = (req, res, next) => { res.set('Location', res.locals.outcome.location) } if (res.locals.outcome.resource) { - res.status(res.locals.outcome.httpStatus).send(res.locals.outcome.resource) + let tranformedData = res.locals.outcome.resource + + // transform content into XML as specified by content-type + if (acceptedXMLContentTypes.includes(res.get('content-type'))) { + tranformedData = fhir.JsonToXml(JSON.stringify(res.locals.outcome.resource)) + } + + res.status(res.locals.outcome.httpStatus).send(tranformedData) } else { res.sendStatus(res.locals.outcome.httpStatus) } diff --git a/package-lock.json b/package-lock.json index 047aa3d8..5b7e084b 100644 --- a/package-lock.json +++ b/package-lock.json @@ -4,6 +4,197 @@ "lockfileVersion": 1, "requires": true, "dependencies": { + "JSONPath": { + "version": "0.11.2", + "resolved": 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"cliui": "3.2.0", + "decamelize": "1.2.0", + "os-locale": "1.4.0", + "string-width": "1.0.2", + "window-size": "0.1.4", + "y18n": "3.2.1" + } + }, + "yeast": { + "version": "0.1.2", + "resolved": "https://registry.npmjs.org/yeast/-/yeast-0.1.2.tgz", + "integrity": "sha1-AI4G2AlDIMNy28L47XagymyKxBk=", + "dev": true } } } diff --git a/package.json b/package.json index e5310068..756eeead 100644 --- a/package.json +++ b/package.json @@ -7,7 +7,7 @@ "stop": "pkill -SIGINT Hearth", "dev:start": "NODE_ENV='development' npm run start", "test": "npm run test:code && npm -s run test:style", - "test:code": "NODE_ENV='test' tap --cov --reporter=spec test/**.js", + "test:code": "NODE_ENV='test' tap --cov --reporter=spec 'test/**/*.js'", "test:these-files": "tap --reporter=spec", "test:style": "standard -v | snazzy", "cov": "npm run test:code -- --coverage-report=lcov", @@ -24,6 +24,8 @@ "body-parser": "^1.16.0", "cors": "^2.8.1", "express": "^4.14.1", + "express-xml-bodyparser": "^0.3.0", + "fhir": "^3.2.0", "jsonwebtoken": "^8.0.1", "lodash": "^4.17.4", "moment": "^2.17.1", @@ -39,11 +41,14 @@ }, "devDependencies": { "artillery": "^1.5.8-3", + "chalk": "^2.3.0", "chance": "^1.0.8", "codecov": "^1.0.1", + "faker": "^4.1.0", "glossy": "^0.1.7", - "libxmljs": "^0.18.4", + "libxmljs": "^0.18.7", "license-checker": "^13.0.3", + "mustache": "^2.3.0", "neo-async": "^2.1.0", "sinon": "^2.3.1", "snazzy": "^6.0.0", diff --git a/test/binary.js b/test/binary.js index 82fc2f09..154ffa8c 100644 --- a/test/binary.js +++ b/test/binary.js @@ -171,6 +171,80 @@ tap.test('Binary - should search for a specific Binary document', (t) => { }) }) +tap.test('Binary - should search for a specific Binary document, and return the document in the specified format', (t) => { + // given + binaryTestEnv(t, (db, refs, done) => { + request({ + url: 'http://localhost:3447/fhir/Binary?contenttype=application/pdf', + headers: headers, + json: true + }, (err, res, searchBody) => { + // then + t.error(err) + + const updatedHeaders = _.assign({}, headers) + updatedHeaders['content-type'] = 'application/pdf' + + request({ + url: `http://localhost:3447/fhir/Binary/${searchBody.entry[0].resource.id}`, + headers: updatedHeaders, + json: true + }, (err, res, readBody) => { + // then + t.error(err) + + t.equal(res.statusCode, 200, 'response status code should be 200') + t.ok(readBody) + + t.notOk(readBody.resourceType, 'should not have field "resourceType"') + + // convert to base64 for test comparison + const base64PDF = Buffer.from(readBody).toString('base64') + const expected = env.testBinaryFiles().doc2.content + t.equals(base64PDF, expected, 'resource should contain correct content') + + done() + }) + }) + }) +}) + +tap.test('Binary - should search for a specific Binary document, and return the FHIR resource if the requested contentType doesnt match the type of document', (t) => { + // given + binaryTestEnv(t, (db, refs, done) => { + request({ + url: 'http://localhost:3447/fhir/Binary?contenttype=application/pdf', + headers: headers, + json: true + }, (err, res, searchBody) => { + // then + t.error(err) + + const updatedHeaders = _.assign({}, headers) + updatedHeaders['content-type'] = 'application/xml' // incorrect type - document is PDF, not xml + + request({ + url: `http://localhost:3447/fhir/Binary/${searchBody.entry[0].resource.id}`, + headers: updatedHeaders, + json: true + }, (err, res, readBody) => { + // then + t.error(err) + + t.equal(res.statusCode, 200, 'response status code should be 200') + t.ok(readBody) + + t.ok(readBody.resourceType, 'should have field "resourceType"') + t.ok(readBody.content, 'should have field "content"') + t.equals(readBody.resourceType, 'Binary', 'should return a resource of type Binary') + t.equals(readBody.contentType, 'application/pdf', 'should return a contentType of application/pdf') + + done() + }) + }) + }) +}) + tap.test('Binary - preInteractionHandlers.create - should insert binary data', (t) => { // given env.initDB((err, db) => { diff --git a/test/content-negotiation.js b/test/content-negotiation.js new file mode 100644 index 00000000..54c2de41 --- /dev/null +++ b/test/content-negotiation.js @@ -0,0 +1,176 @@ + /** + * Copyright (c) 2017-present, Jembi Health Systems NPC. + * All rights reserved. + * + * This source code is licensed under the BSD-style license found in the + * LICENSE file in the root directory of this source tree. + */ + +'use strict' +const env = require('./test-env/init')() +const server = require('../lib/server') +const tap = require('tap') +const request = require('request') +const _ = require('lodash') +const libxmljs = require('libxmljs') +const FHIR = require('fhir') + +const headers = env.getTestAuthHeaders(env.users.sysadminUser.email) + +const basicPatientTest = (t, test) => { + env.initDB((err, db) => { + t.error(err) + + server.start((err) => { + t.error(err) + + env.createPatient(t, env.testPatients().charlton, () => { + env.createPatient(t, env.testPatients().emmarentia, () => { // use emmarentia for filtering + test(db, () => { + env.clearDB((err) => { + t.error(err) + server.stop(() => { + t.end() + }) + }) + }) + }) + }) + }) + }) +} + +tap.test('server should reject requests that arent apart of the accepted contentTypes list', (t) => { + basicPatientTest(t, (db, done) => { + const updatedHeaders = _.assign({ 'accept': ['text/turtle'] }, headers) // not yet supported + + request({ + url: 'http://localhost:3447/fhir/Patient?identifier=1007211154902', + headers: updatedHeaders + }, (err, res, body) => { + t.error(err) + + t.ok(body) + t.equal(res.statusCode, 406, 'response status code should be 200') + t.equals(body, 'Not Acceptable') + + done() + }) + }) +}) + +tap.test('patient should support searches on identifier and return the payload in XML', (t) => { + basicPatientTest(t, (db, done) => { + const updatedHeaders = _.assign({ 'accept': ['application/xml', 'application/xml+fhir'] }, headers) + + request({ + url: 'http://localhost:3447/fhir/Patient?identifier=1007211154902', + headers: updatedHeaders + }, (err, res, body) => { + t.error(err) + + t.equal(res.statusCode, 200, 'response status code should be 200') + t.ok(body) + t.notOk(body.resourceType, 'should have a resourceType property as the response is XML') + + const xmlDoc = libxmljs.parseXml(body) + const namespace = 'http://hl7.org/fhir' + const patient = xmlDoc.get('//xmlns:entry', namespace).get('//xmlns:Patient', namespace) + + // xpath queries + const xmlValues = { + total: xmlDoc.get('//xmlns:total', namespace).attr('value').value(), + identifier: patient.get('//xmlns:identifier[1]', namespace).get('//xmlns:value', namespace).attr('value').value(), + familyName: patient.get('//xmlns:name[1]', namespace).get('//xmlns:family', namespace).attr('value').value() + } + + t.equal(xmlDoc.errors.length, 0, 'should not have any XML errors') + t.equal(xmlValues.total, '1', 'body should contain one result') + t.equal(xmlValues.identifier, '1007211154902', 'body should contain the matching patient - identifier') + t.equal(xmlValues.familyName, 'Matinyana', 'body should contain the matching patient - family name') + done() + }) + }) +}) + +tap.test('patient should respond with en empty searchset if no matches and return the payload in XML', { skip: true }, (t) => { + basicPatientTest(t, (db, done) => { + const updatedHeaders = _.assign({ 'accept': ['application/xml', 'application/xml+fhir'] }, headers) + + request({ + url: 'http://localhost:3447/fhir/Patient?identifier=NOTTHERE', + headers: updatedHeaders + }, (err, res, body) => { + t.error(err) + + t.equal(res.statusCode, 200, 'response status code should be 200') + t.ok(body) + t.notOk(body.resourceType, 'should have a resourceType property as the response is XML') + + const xmlDoc = libxmljs.parseXml(body) + const namespace = 'http://hl7.org/fhir' + + // xpath queries + const xmlValues = { + total: xmlDoc.get('//xmlns:total', namespace).attr('value').value() + } + + t.equal(xmlDoc.errors.length, 0, 'should not have any XML errors') + t.equal(xmlValues.total, '0', 'should have a total of 0') + done() + }) + }) +}) + +tap.test('patient should be saved correctly when body is in XML format', (t) => { + env.initDB((err, db) => { + t.error(err) + + server.start((err) => { + t.error(err) + + const pat = _.cloneDeep(require('./resources/Patient-1.json')) + delete pat.id + + const fhir = new FHIR(FHIR.DSTU2) + const patientXML = fhir.JsonToXml(JSON.stringify(pat)) + + const updatedHeaders = _.assign({ 'accept': ['application/xml', 'application/xml+fhir'], 'Content-Type': 'application/xml' }, headers) + + request.post({ + url: 'http://localhost:3447/fhir/Patient', + headers: updatedHeaders, + body: patientXML + }, (err, res, body) => { + t.error(err) + t.equal(res.statusCode, 201, 'response status code should be 201') + + t.ok(res.headers['location'], 'should have a location header set') + t.match(res.headers['location'], /\/fhir\/Patient\/[\w-]+\/_history\/[\w-]+/, 'should return a location with both id and vid present') + + const c = db.collection('Patient') + c.findOne((err, result) => { + t.error(err) + t.ok(result, 'result should exist in the mongo') + + t.equal(result.identifier[0].value, '1007211154902', 'should have correct identifier') + t.equal(result.identifier[1].value, '1001113333933', 'should have correct identifier') + + t.ok(result.meta, 'should have meta set') + t.ok(result.meta.versionId, 'should have meta.versionId set') + t.ok(result.meta.lastUpdated, 'should have meta.lastUpdated set') + t.ok(result._transforms, 'should have _transforms set') + t.ok(result._request, 'should have _request set') + t.equal(result._request.method, 'POST', 'should have _request.method set to POST') + + env.clearDB((err) => { + t.error(err) + server.stop(() => { + t.end() + }) + }) + }) + }) + }) + }) +}) diff --git a/test/doc-manifest.js b/test/doc-manifest.js index ab2e54bf..05c1761a 100644 --- a/test/doc-manifest.js +++ b/test/doc-manifest.js @@ -56,10 +56,10 @@ tap.test('DocumentManifest - should return all results when there are no paramet t.equal(res.statusCode, 200, 'response status code should be 200') t.ok(body) - t.equals(2, body.total, 'total should be two') - t.equals('Bundle', body.resourceType, 'should return a Bundle') - t.equals('DocumentManifest', body.entry[0].resource.resourceType, 'should return a resource of type DocumentManifest') - t.equals('DocumentManifest', body.entry[1].resource.resourceType, 'should return a resource of type DocumentManifest') + t.equals(body.total, 2, 'total should be two') + t.equals(body.resourceType, 'Bundle', 'should return a Bundle') + t.equals(body.entry[0].resource.resourceType, 'DocumentManifest', 'should return a resource of type DocumentManifest') + t.equals(body.entry[1].resource.resourceType, 'DocumentManifest', 'should return a resource of type DocumentManifest') done() }) }) @@ -67,7 +67,166 @@ tap.test('DocumentManifest - should return all results when there are no paramet }) }) -tap.test('DocumentManifest - should search by subject', (t) => { +tap.test('DocumentManifest - should search by author reference', (t) => { + // given + docManifestTestEnv(t, (db, done) => { + const findMe = _.cloneDeep(testDocManifest) + findMe.author[0].reference = 'Device/12345' + delete findMe.id + const skipMe = _.cloneDeep(testDocManifest) + delete skipMe.id + env.createResource(t, findMe, 'DocumentManifest', () => { + env.createResource(t, skipMe, 'DocumentManifest', () => { + // when + request({ + url: 'http://localhost:3447/fhir/DocumentManifest?author=Device/12345', + headers: headers, + json: true + }, (err, res, body) => { + // then + t.error(err) + + t.equal(res.statusCode, 200, 'response status code should be 200') + t.ok(body) + t.equals(body.total, 1, 'total should be one') + t.equals(body.entry[0].resource.resourceType, 'DocumentManifest', 'should return a resource of type DocumentManifest') + t.equals(body.entry[0].resource.author[0].reference, 'Device/12345', 'should have the correct author value') + done() + }) + }) + }) + }) +}) + +tap.test('DocumentManifest - should search by content-ref reference', (t) => { + // given + docManifestTestEnv(t, (db, done) => { + const findMe = _.cloneDeep(testDocManifest) + findMe.content[0].pReference.reference = 'DocumentReference/54321' + // console.log(findMe) + delete findMe.id + const skipMe = _.cloneDeep(testDocManifest) + delete skipMe.id + env.createResource(t, findMe, 'DocumentManifest', () => { + env.createResource(t, skipMe, 'DocumentManifest', () => { + // when + request({ + url: 'http://localhost:3447/fhir/DocumentManifest?content-ref=DocumentReference/54321', + headers: headers, + json: true + }, (err, res, body) => { + // then + t.error(err) + + t.equal(res.statusCode, 200, 'response status code should be 200') + t.ok(body) + t.equals(body.total, 1, 'total should be one') + t.equals(body.entry[0].resource.resourceType, 'DocumentManifest', 'should return a resource of type DocumentManifest') + t.equals(body.entry[0].resource.content[0].pReference.reference, 'DocumentReference/54321', 'should have the correct content-ref value') + done() + }) + }) + }) + }) +}) + +tap.test('DocumentManifest - should support searches on created date (ymd)', (t) => { + // given + docManifestTestEnv(t, (db, done) => { + const findMe = _.cloneDeep(testDocManifest) + findMe.created = '2013-07-01' + delete findMe.id + const skipMe = _.cloneDeep(testDocManifest) + delete skipMe.id + env.createResource(t, findMe, 'DocumentManifest', () => { + env.createResource(t, skipMe, 'DocumentManifest', () => { + // when + request({ + url: 'http://localhost:3447/fhir/DocumentManifest?created=2013-07-01', + headers: env.getTestAuthHeaders(env.users.sysadminUser.email), + json: true + }, (err, res, body) => { + // then + t.error(err) + + t.equal(res.statusCode, 200, 'response status code should be 200') + t.ok(body) + t.equal(body.resourceType, 'Bundle', 'result should be a bundle') + t.equal(body.total, 1, 'body should contain one result') + t.equals(body.entry[0].resource.created, '2013-07-01', 'should have correct created date') + done() + }) + }) + }) + }) +}) + +tap.test('DocumentManifest - should search by description', (t) => { + // given + docManifestTestEnv(t, (db, done) => { + const findMe = _.cloneDeep(testDocManifest) + findMe.description = 'Random Description for Manifest' + delete findMe.id + const skipMe = _.cloneDeep(testDocManifest) + delete skipMe.id + env.createResource(t, findMe, 'DocumentManifest', () => { + env.createResource(t, skipMe, 'DocumentManifest', () => { + // when + request({ + url: 'http://localhost:3447/fhir/DocumentManifest?description=Random Description for Manifest', + headers: env.getTestAuthHeaders(env.users.sysadminUser.email), + json: true + }, (err, res, body) => { + // then + t.error(err) + + t.equal(res.statusCode, 200, 'response status code should be 200') + t.ok(body) + t.equals(body.total, 1, 'total should be one') + t.equals(body.entry[0].resource.resourceType, 'DocumentManifest', 'should return a resource of type DocumentManifest') + t.equals(body.entry[0].resource.description, 'Random Description for Manifest', 'should have correct description') + done() + }) + }) + }) + }) +}) + +tap.test('DocumentManifest - should search by identifier', (t) => { + // given + docManifestTestEnv(t, (db, done) => { + const findMe = _.cloneDeep(testDocManifest) + findMe.identifier[0].system = 'sample-system' + findMe.identifier[0].value = 'randomnumber-1234567' + // console.log(findMe) + delete findMe.id + const skipMe = _.cloneDeep(testDocManifest) + delete skipMe.id + env.createResource(t, findMe, 'DocumentManifest', () => { + env.createResource(t, skipMe, 'DocumentManifest', () => { + // when + request({ + url: 'http://localhost:3447/fhir/DocumentManifest?identifier=sample-system|randomnumber-1234567', + headers: headers, + json: true + }, (err, res, body) => { + // then + t.error(err) + + t.equal(res.statusCode, 200, 'response status code should be 200') + t.ok(body) + t.equals(body.total, 1, 'total should be one') + t.equals(body.entry[0].resource.resourceType, 'DocumentManifest', 'should return a resource of type DocumentManifest') + t.equals(body.entry[0].resource.identifier[0].system, 'sample-system', 'should have the correct identifier system') + t.equals(body.entry[0].resource.identifier[0].value, 'randomnumber-1234567', 'should have the correct identifier value') + done() + }) + }) + }) + }) +}) + +tap.test('DocumentManifest - should search by subject for the supplied patient parameter', (t) => { // given docManifestTestEnv(t, (db, done) => { const findMe = _.cloneDeep(testDocManifest) @@ -89,8 +248,240 @@ tap.test('DocumentManifest - should search by subject', (t) => { t.equal(res.statusCode, 200, 'response status code should be 200') t.ok(body) t.equals(body.total, 1, 'total should be one') - t.equals('DocumentManifest', body.entry[0].resource.resourceType, 'should return a resource of type DocumentManifest') - t.equals('Patient/123', body.entry[0].resource.subject.reference, 'should have a subject of Patient/123') + t.equals(body.entry[0].resource.resourceType, 'DocumentManifest', 'should return a resource of type DocumentManifest') + t.equals(body.entry[0].resource.subject.reference, 'Patient/123', 'should have a subject of Patient/123') + done() + }) + }) + }) + }) +}) + +tap.test('DocumentManifest - should search by recipient reference', (t) => { + // given + docManifestTestEnv(t, (db, done) => { + const findMe = _.cloneDeep(testDocManifest) + findMe.recipient[0].reference = 'Patient/12345' + delete findMe.id + const skipMe = _.cloneDeep(testDocManifest) + delete skipMe.id + env.createResource(t, findMe, 'DocumentManifest', () => { + env.createResource(t, skipMe, 'DocumentManifest', () => { + // when + request({ + url: 'http://localhost:3447/fhir/DocumentManifest?recipient=Patient/12345', + headers: headers, + json: true + }, (err, res, body) => { + // then + t.error(err) + + t.equal(res.statusCode, 200, 'response status code should be 200') + t.ok(body) + t.equals(body.total, 1, 'total should be one') + t.equals(body.entry[0].resource.resourceType, 'DocumentManifest', 'should return a resource of type DocumentManifest') + t.equals(body.entry[0].resource.recipient[0].reference, 'Patient/12345', 'should have the correct recipient value') + done() + }) + }) + }) + }) +}) + +tap.test('DocumentManifest - should search by related-id reference', (t) => { + // given + docManifestTestEnv(t, (db, done) => { + const findMe = _.cloneDeep(testDocManifest) + findMe.related[0].identifier.system = 'sample-system' + findMe.related[0].identifier.value = 'randomnumber-1234567' + delete findMe.id + const skipMe = _.cloneDeep(testDocManifest) + delete skipMe.id + env.createResource(t, findMe, 'DocumentManifest', () => { + env.createResource(t, skipMe, 'DocumentManifest', () => { + // when + request({ + // url: 'http://localhost:3447/fhir/DocumentManifest?related-id=sample-system|randomnumber-1234567', + url: 'http://localhost:3447/fhir/DocumentManifest?related-id=sample-system|randomnumber-1234567', + headers: headers, + json: true + }, (err, res, body) => { + // then + t.error(err) + + t.equal(res.statusCode, 200, 'response status code should be 200') + t.ok(body) + t.equals(body.total, 1, 'total should be one') + t.equals(body.entry[0].resource.resourceType, 'DocumentManifest', 'should return a resource of type DocumentManifest') + t.equals(body.entry[0].resource.related[0].identifier.system, 'sample-system', 'should have the correct related system') + t.equals(body.entry[0].resource.related[0].identifier.value, 'randomnumber-1234567', 'should have the correct related value') + done() + }) + }) + }) + }) +}) + +tap.test('DocumentManifest - should search by related-ref reference', (t) => { + // given + docManifestTestEnv(t, (db, done) => { + const findMe = _.cloneDeep(testDocManifest) + findMe.related[0].ref.reference = 'DocumentReference/54321' + delete findMe.id + const skipMe = _.cloneDeep(testDocManifest) + delete skipMe.id + env.createResource(t, findMe, 'DocumentManifest', () => { + env.createResource(t, skipMe, 'DocumentManifest', () => { + // when + request({ + url: 'http://localhost:3447/fhir/DocumentManifest?related-ref=DocumentReference/54321', + headers: headers, + json: true + }, (err, res, body) => { + // then + t.error(err) + + t.equal(res.statusCode, 200, 'response status code should be 200') + t.ok(body) + t.equals(body.total, 1, 'total should be one') + t.equals(body.entry[0].resource.resourceType, 'DocumentManifest', 'should return a resource of type DocumentManifest') + t.equals(body.entry[0].resource.related[0].ref.reference, 'DocumentReference/54321', 'should have the correct related-ref value') + done() + }) + }) + }) + }) +}) + +tap.test('DocumentManifest - should search by source', (t) => { + // given + docManifestTestEnv(t, (db, done) => { + const findMe = _.cloneDeep(testDocManifest) + findMe.source = 'random:source:uri:value' + delete findMe.id + const skipMe = _.cloneDeep(testDocManifest) + delete skipMe.id + env.createResource(t, findMe, 'DocumentManifest', () => { + env.createResource(t, skipMe, 'DocumentManifest', () => { + // when + request({ + url: 'http://localhost:3447/fhir/DocumentManifest?source=random:source:uri:value', + headers: env.getTestAuthHeaders(env.users.sysadminUser.email), + json: true + }, (err, res, body) => { + // then + t.error(err) + + t.equal(res.statusCode, 200, 'response status code should be 200') + t.ok(body) + t.equals(body.total, 1, 'total should be one') + t.equals(body.entry[0].resource.resourceType, 'DocumentManifest', 'should return a resource of type DocumentManifest') + t.equals(body.entry[0].resource.source, 'random:source:uri:value', 'should have correct source') + done() + }) + }) + }) + }) +}) + +tap.test('DocumentManifest - should search by status', (t) => { + // given + docManifestTestEnv(t, (db, done) => { + const findMe = _.cloneDeep(testDocManifest) + findMe.status = 'superseded' + delete findMe.id + const skipMe = _.cloneDeep(testDocManifest) + delete skipMe.id + env.createResource(t, findMe, 'DocumentManifest', () => { + env.createResource(t, skipMe, 'DocumentManifest', () => { + // when + request({ + url: 'http://localhost:3447/fhir/DocumentManifest?status=superseded', + headers: headers, + json: true + }, (err, res, body) => { + // then + t.error(err) + + t.equal(res.statusCode, 200, 'response status code should be 200') + t.ok(body) + t.equals(body.total, 1, 'total should be one') + t.equals(body.entry[0].resource.resourceType, 'DocumentManifest', 'should return a resource of type DocumentManifest') + t.equals(body.entry[0].resource.status, 'superseded', 'should have correct status') + done() + }) + }) + }) + }) +}) + +tap.test('DocumentManifest - should search by subject for the supplied subject parameter', (t) => { + // given + docManifestTestEnv(t, (db, done) => { + const findMe = _.cloneDeep(testDocManifest) + findMe.subject.reference = 'Patient/123' + delete findMe.id + const skipMe = _.cloneDeep(testDocManifest) + delete skipMe.id + env.createResource(t, findMe, 'DocumentManifest', () => { + env.createResource(t, skipMe, 'DocumentManifest', () => { + // when + request({ + url: 'http://localhost:3447/fhir/DocumentManifest?subject=Patient/123', + headers: headers, + json: true + }, (err, res, body) => { + // then + t.error(err) + + t.equal(res.statusCode, 200, 'response status code should be 200') + t.ok(body) + t.equals(body.total, 1, 'total should be one') + t.equals(body.entry[0].resource.resourceType, 'DocumentManifest', 'should return a resource of type DocumentManifest') + t.equals(body.entry[0].resource.subject.reference, 'Patient/123', 'should have a subject of Patient/123') + done() + }) + }) + }) + }) +}) + +tap.test('DocumentManifest - should search by type', (t) => { + // given + docManifestTestEnv(t, (db, done) => { + const findMe = _.cloneDeep(testDocManifest) + findMe.type = { + coding: [ + { + system: 'otherSys', + code: 'otherCode' + }, { + system: 'testSys', + code: 'testCode' + } + ], + text: 'a test code' + } + delete findMe.id + const skipMe = _.cloneDeep(testDocManifest) + delete skipMe.id + env.createResource(t, findMe, 'DocumentManifest', () => { + env.createResource(t, skipMe, 'DocumentManifest', () => { + // when + request({ + url: 'http://localhost:3447/fhir/DocumentManifest?type=testSys|testCode', + headers: headers, + json: true + }, (err, res, body) => { + // then + t.error(err) + + t.equal(res.statusCode, 200, 'response status code should be 200') + t.ok(body) + t.equals(body.total, 1, 'total should be one') + t.equals(body.entry[0].resource.resourceType, 'DocumentManifest', 'should return a resource of type DocumentManifest') + t.equals(body.entry[0].resource.type.coding[1].system, 'testSys', 'should have correct type system') + t.equals(body.entry[0].resource.type.coding[1].code, 'testCode', 'should have correct type code') done() }) }) @@ -121,9 +512,9 @@ tap.test('DocumentManifest - should perform chained search by patient.identifier t.equal(res.statusCode, 200, 'response status code should be 200') t.ok(body) - t.equals(1, body.total, 'total should be one') - t.equals('DocumentManifest', body.entry[0].resource.resourceType, 'should return a resource of type DocumentManifest') - t.equals(`Patient/${testPatients.charlton.patient.id}`, body.entry[0].resource.subject.reference, 'should have correct subject reference') + t.equals(body.total, 1, 'total should be one') + t.equals(body.entry[0].resource.resourceType, 'DocumentManifest', 'should return a resource of type DocumentManifest') + t.equals(body.entry[0].resource.subject.reference, `Patient/${testPatients.charlton.patient.id}`, 'should have correct subject reference') done() }) }) @@ -187,7 +578,7 @@ tap.test('DocumentManifest - should perform chained search by patient.identifier t.equal(res.statusCode, 200, 'response status code should be 200') t.ok(body) - t.equals(0, body.total, 'total should be zero') + t.equals(body.total, 0, 'total should be zero') done() }) }) @@ -219,9 +610,9 @@ tap.test('DocumentManifest - should perform chained search by author.given', (t) t.equal(res.statusCode, 200, 'response status code should be 200') t.ok(body) - t.equals(1, body.total, 'total should be one') - t.equals('DocumentManifest', body.entry[0].resource.resourceType, 'should return a resource of type DocumentManifest') - t.equals(`Practitioner/${testPractitioners.alison.practitioner.id}`, body.entry[0].resource.author[1].reference, 'should have correct author reference') + t.equals(body.total, 1, 'total should be one') + t.equals(body.entry[0].resource.resourceType, 'DocumentManifest', 'should return a resource of type DocumentManifest') + t.equals(body.entry[0].resource.author[1].reference, `Practitioner/${testPractitioners.alison.practitioner.id}`, 'should have correct author reference') done() }) }) @@ -254,9 +645,9 @@ tap.test('DocumentManifest - should perform chained search by author.family', (t t.equal(res.statusCode, 200, 'response status code should be 200') t.ok(body) - t.equals(1, body.total, 'total should be one') - t.equals('DocumentManifest', body.entry[0].resource.resourceType, 'should return a resource of type DocumentManifest') - t.equals(`Practitioner/${testPractitioners.alison.practitioner.id}`, body.entry[0].resource.author[1].reference, 'should have correct author reference') + t.equals(body.total, 1, 'total should be one') + t.equals(body.entry[0].resource.resourceType, 'DocumentManifest', 'should return a resource of type DocumentManifest') + t.equals(body.entry[0].resource.author[1].reference, `Practitioner/${testPractitioners.alison.practitioner.id}`, 'should have correct author reference') done() }) }) @@ -264,108 +655,3 @@ tap.test('DocumentManifest - should perform chained search by author.family', (t }) }) }) - -tap.test('DocumentManifest - should search by type', (t) => { - // given - docManifestTestEnv(t, (db, done) => { - const findMe = _.cloneDeep(testDocManifest) - findMe.type = { - coding: [ - { - system: 'otherSys', - code: 'otherCode' - }, { - system: 'testSys', - code: 'testCode' - } - ], - text: 'a test code' - } - delete findMe.id - const skipMe = _.cloneDeep(testDocManifest) - delete skipMe.id - env.createResource(t, findMe, 'DocumentManifest', () => { - env.createResource(t, skipMe, 'DocumentManifest', () => { - // when - request({ - url: 'http://localhost:3447/fhir/DocumentManifest?type=testSys|testCode', - headers: headers, - json: true - }, (err, res, body) => { - // then - t.error(err) - - t.equal(res.statusCode, 200, 'response status code should be 200') - t.ok(body) - t.equals(1, body.total, 'total should be one') - t.equals('DocumentManifest', body.entry[0].resource.resourceType, 'should return a resource of type DocumentManifest') - t.equals('testSys', body.entry[0].resource.type.coding[1].system, 'should have correct type system') - t.equals('testCode', body.entry[0].resource.type.coding[1].code, 'should have correct type code') - done() - }) - }) - }) - }) -}) - -tap.test('DocumentManifest - should search by status', (t) => { - // given - docManifestTestEnv(t, (db, done) => { - const findMe = _.cloneDeep(testDocManifest) - findMe.status = 'superseded' - delete findMe.id - const skipMe = _.cloneDeep(testDocManifest) - delete skipMe.id - env.createResource(t, findMe, 'DocumentManifest', () => { - env.createResource(t, skipMe, 'DocumentManifest', () => { - // when - request({ - url: 'http://localhost:3447/fhir/DocumentManifest?status=superseded', - headers: headers, - json: true - }, (err, res, body) => { - // then - t.error(err) - - t.equal(res.statusCode, 200, 'response status code should be 200') - t.ok(body) - t.equals(1, body.total, 'total should be one') - t.equals('DocumentManifest', body.entry[0].resource.resourceType, 'should return a resource of type DocumentManifest') - t.equals('superseded', body.entry[0].resource.status, 'should have correct status') - done() - }) - }) - }) - }) -}) - -tap.test('DocumentManifest - should support searches on created date (ymd)', (t) => { - // given - docManifestTestEnv(t, (db, done) => { - const findMe = _.cloneDeep(testDocManifest) - findMe.created = '2013-07-01' - delete findMe.id - const skipMe = _.cloneDeep(testDocManifest) - delete skipMe.id - env.createResource(t, findMe, 'DocumentManifest', () => { - env.createResource(t, skipMe, 'DocumentManifest', () => { - // when - request({ - url: 'http://localhost:3447/fhir/DocumentManifest?created=2013-07-01', - headers: env.getTestAuthHeaders(env.users.sysadminUser.email), - json: true - }, (err, res, body) => { - // then - t.error(err) - - t.equal(res.statusCode, 200, 'response status code should be 200') - t.ok(body) - t.equal(body.resourceType, 'Bundle', 'result should be a bundle') - t.equal(body.total, 1, 'body should contain one result') - t.equals('2013-07-01', body.entry[0].resource.created, 'should have correct created date') - done() - }) - }) - }) - }) -}) diff --git a/test/ihe/mhd-test-samples/Binary-1.json b/test/ihe/mhd-test-samples/Binary-1.json new file mode 100644 index 00000000..0641a7a8 --- /dev/null +++ b/test/ihe/mhd-test-samples/Binary-1.json @@ -0,0 +1,5 @@ +{ + "resourceType" : "Binary", + "contentType" : "application/xml", + "content" : "{{cdaBase64}}" +} diff --git a/test/ihe/mhd-test-samples/Binary-2.json b/test/ihe/mhd-test-samples/Binary-2.json new file mode 100644 index 00000000..d3c88e1a --- /dev/null +++ b/test/ihe/mhd-test-samples/Binary-2.json @@ -0,0 +1,5 @@ +{ + "resourceType" : "Binary", + "contentType" : "image/png", + "content" : "{{imageBase64}}" +} diff --git a/test/ihe/mhd-test-samples/Binary-3.json b/test/ihe/mhd-test-samples/Binary-3.json new file mode 100644 index 00000000..cffaf946 --- /dev/null +++ b/test/ihe/mhd-test-samples/Binary-3.json @@ -0,0 +1,5 @@ +{ + "resourceType" : "Binary", + "contentType" : "application/pdf", + "content" : "{{pdfBase64}}" +} diff --git a/test/ihe/mhd-test-samples/CDA-APHP-1.xml b/test/ihe/mhd-test-samples/CDA-APHP-1.xml new file mode 100644 index 00000000..cde11b40 --- /dev/null +++ b/test/ihe/mhd-test-samples/CDA-APHP-1.xml @@ -0,0 +1,542 @@ + + + + + + + + + + + + Antepartum History and Physical + + + + + + + + + + + + + {{firstName}} + {{lastName}} + + + + + + + Organization Name + + + + + + + + + + + + 18 Oak Valley Dr. + Monteagle + TN + 37205 + USA + + + + + Mr. + Charles + Random + Guy + + + + + + + + + + 45 Chunn Dr. + Spring Hill + TN + 37174 + USA + + + + + Mr. + Dave + Levin + + + + + + + + + + Good Health Clinic + + + + + + + + + + + + + + + + + + + + doctor + oscardoc + + + + + + + + + + + + doctor + oscardoc + + + + + + + + + + + + doctor + oscardoc + + + + + + + + + + + + doctor + oscardoc + + + + + + + + + + + +
+ + + + + + Text as described above + +
+ + + +
+ + + + + + Text as described above + +
+ + + +
+ + + + + + Text as described above + +
+ + + +
+ + + + + Text as described above + + +
+ + + +
+ + + + + + Text as described above + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + +
+ + +
+ + + + + + boink + + Text as described above + +
+ + + +
+ + + + + boink + + Text as described above + +
+ + + +
+ + + + + + Text as described above + +
+ + + +
+ + + + + + Text as described above + +
+ + + +
+ + + + + Vital Signs + + + + + + + + + + + + + + + + + + + + + + + + + + +
MeasurementValue
BODY WEIGHT (MEASURED)BODY WEIGHT (MEASURED): 110 kg
BODY HEIGHT (MEASURED)BODY HEIGHT (MEASURED): 95 cm
INTRAVASCULAR SYSTOLICINTRAVASCULAR SYSTOLIC: 110 mmHg
INTRAVASCULAR DIASTOLICINTRAVASCULAR DIASTOLIC: 60 mmHg
+ + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + +
+ + + + + + + diff --git a/test/ihe/mhd-test-samples/DocumentManifest-1.json b/test/ihe/mhd-test-samples/DocumentManifest-1.json new file mode 100644 index 00000000..d71bdcd4 --- /dev/null +++ b/test/ihe/mhd-test-samples/DocumentManifest-1.json @@ -0,0 +1,50 @@ +{ + "resourceType": "DocumentManifest", + "text": { + "status": "generated", + "div": "
Text
" + }, + "masterIdentifier": { + "system": "shr:testing", + "value": "{{manifestMID}}" + }, + "identifier": [ + { + "system": "urn:oid:1.2.3.2.2.2.2", + "value": "{{docId}}" + } + ], + "subject": { + "reference": "{{patientRef}}" + }, + "type": { + "coding": [ + { + "system": "{{docManifestTypeCodingSystem}}", + "code": "{{docManifestTypeCodingCode}}", + "display": "History and Physical note" + } + ] + }, + "author": [ + { + "reference": "{{providerRef}}" + } + ], + "created": "{{timeNow}}", + "source": "{{docManifestSource}}", + "status": "{{docManifestStatus}}", + "description": "Physical", + "content": [ + { + "pReference": { + "reference": "{{docRef1}}" + } + }, + { + "pReference": { + "reference": "{{docRef2}}" + } + } + ] +} diff --git a/test/ihe/mhd-test-samples/DocumentReference-1.json b/test/ihe/mhd-test-samples/DocumentReference-1.json new file mode 100644 index 00000000..5575fdc2 --- /dev/null +++ b/test/ihe/mhd-test-samples/DocumentReference-1.json @@ -0,0 +1,101 @@ +{ + "resourceType": "DocumentReference", + "masterIdentifier": { + "system": "shr:testing", + "value": "{{docRefMID1}}" + }, + "subject": { + "reference": "{{patientRef}}" + }, + "type": { + "coding": [ + { + "system": "http://hl7.org/fhir/ValueSet/c80-doc-typecodes", + "code": "34117-2", + "display": "History and Physical note" + } + ] + }, + "class": { + "coding": [ + { + "system": "http://hl7.org/fhir/ValueSet/c80-doc-classcodes", + "code": "34117-2", + "display": "Provider-unspecified, History and physical note" + } + ] + }, + "author": [ + { + "reference": "{{providerRef}}" + } + ], + "created": "2016-12-24", + "indexed": "{{timeNow}}", + "status": "current", + "description": "Physical", + "securityLabel": [{ + "coding": [ + { + "system": "http://hl7.org/fhir/v3/Confidentiality", + "code": "N", + "display": "normal" + } + ] + }], + "content": [ + { + "attachment": { + "contentType": "application/xml", + "url": "{{binaryRef1}}" + }, + "format": [ + { + "system": "urn:oid:1.3.6.1.4.1.19376.1.2.3", + "code": "urn:ihe:pcc:handp:2008" + } + ] + } + ], + "context": { + "period": { + "start": "2016-12-23T08:00:00+02:00", + "end": "2016-12-23T09:15:00+02:00" + }, + "practiceSetting": { + "coding": [ + { + "system": "http://ihe.net/connectathon/practiceSettingCodes", + "code": "General Medicine", + "display": "General Medicine" + } + ] + }, + "event": [{ + "coding": [ + { + "system": "http://hl7.org/fhir/ValueSet/v3-ActCode", + "code": "ANNGEN", + "display": "general note" + } + ] + }], + "facilityType": { + "coding": [ + { + "system": "http://hl7.org/fhir/ValueSet/c80-facilitycodes", + "code": "225732001", + "display": "Hospital-community" + } + ] + }, + "related": [{ + "identifier": [ + { + "system": "hearth:tests", + "value": "other-doc-1" + } + ] + }] + } +} diff --git a/test/ihe/mhd-test-samples/DocumentReference-2.json b/test/ihe/mhd-test-samples/DocumentReference-2.json new file mode 100644 index 00000000..7acda05c --- /dev/null +++ b/test/ihe/mhd-test-samples/DocumentReference-2.json @@ -0,0 +1,101 @@ +{ + "resourceType": "DocumentReference", + "masterIdentifier": { + "system": "shr:testing", + "value": "{{docRefMID2}}" + }, + "subject": { + "reference": "{{patientRef}}" + }, + "type": { + "coding": [ + { + "system": "http://hl7.org/fhir/ValueSet/c80-doc-typecodes", + "code": "34117-2", + "display": "History and Physical note" + } + ] + }, + "class": { + "coding": [ + { + "system": "http://hl7.org/fhir/ValueSet/c80-doc-classcodes", + "code": "34117-2", + "display": "Provider-unspecified, History and physical note" + } + ] + }, + "author": [ + { + "reference": "{{providerRef}}" + } + ], + "created": "2016-12-24", + "indexed": "{{timeNow}}", + "status": "current", + "description": "Physical", + "securityLabel": [{ + "coding": [ + { + "system": "http://hl7.org/fhir/v3/Confidentiality", + "code": "N", + "display": "normal" + } + ] + }], + "content": [ + { + "attachment": { + "contentType": "image/png", + "url": "{{binaryRef2}}" + }, + "format": [ + { + "system": "hearth:testing", + "code": "imaging-result" + } + ] + } + ], + "context": { + "period": { + "start": "2016-12-23T08:00:00+02:00", + "end": "2016-12-23T09:15:00+02:00" + }, + "practiceSetting": { + "coding": [ + { + "system": "http://ihe.net/connectathon/practiceSettingCodes", + "code": "General Medicine", + "display": "General Medicine" + } + ] + }, + "event": [{ + "coding": [ + { + "system": "http://hl7.org/fhir/ValueSet/v3-ActCode", + "code": "ANNGEN", + "display": "general note" + } + ] + }], + "facilityType": { + "coding": [ + { + "system": "http://hl7.org/fhir/ValueSet/c80-facilitycodes", + "code": "225732001", + "display": "Hospital-community" + } + ] + }, + "related": [{ + "identifier": [ + { + "system": "hearth:tests", + "value": "other-doc-1" + } + ] + }] + } +} diff --git a/test/ihe/mhd-test-samples/DocumentReference-3.json b/test/ihe/mhd-test-samples/DocumentReference-3.json new file mode 100644 index 00000000..f4252217 --- /dev/null +++ b/test/ihe/mhd-test-samples/DocumentReference-3.json @@ -0,0 +1,101 @@ +{ + "resourceType": "DocumentReference", + "masterIdentifier": { + "system": "shr:testing", + "value": "{{docRefMID3}}" + }, + "subject": { + "reference": "{{patientRef}}" + }, + "type": { + "coding": [ + { + "system": "http://hl7.org/fhir/ValueSet/c80-doc-typecodes", + "code": "34117-2", + "display": "History and Physical note" + } + ] + }, + "class": { + "coding": [ + { + "system": "http://hl7.org/fhir/ValueSet/c80-doc-classcodes", + "code": "34117-2", + "display": "Provider-unspecified, History and physical note" + } + ] + }, + "author": [ + { + "reference": "{{providerRef}}" + } + ], + "created": "2016-12-24", + "indexed": "{{timeNow}}", + "status": "current", + "description": "Physical", + "securityLabel": [{ + "coding": [ + { + "system": "http://hl7.org/fhir/v3/Confidentiality", + "code": "N", + "display": "normal" + } + ] + }], + "content": [ + { + "attachment": { + "contentType": "application/pdf", + "url": "{{binaryRef3}}" + }, + "format": [ + { + "system": "hearth:testing", + "code": "pdf-result" + } + ] + } + ], + "context": { + "period": { + "start": "2016-12-23T08:00:00+02:00", + "end": "2016-12-23T09:15:00+02:00" + }, + "practiceSetting": { + "coding": [ + { + "system": "http://ihe.net/connectathon/practiceSettingCodes", + "code": "General Medicine", + "display": "General Medicine" + } + ] + }, + "event": [{ + "coding": [ + { + "system": "http://hl7.org/fhir/ValueSet/v3-ActCode", + "code": "ANNGEN", + "display": "general note" + } + ] + }], + "facilityType": { + "coding": [ + { + "system": "http://hl7.org/fhir/ValueSet/c80-facilitycodes", + "code": "225732001", + "display": "Hospital-community" + } + ] + }, + "related": [{ + "identifier": [ + { + "system": "hearth:tests", + "value": "other-doc-1" + } + ] + }] + } +} diff --git a/test/ihe/mhd-test-samples/Image-1.png b/test/ihe/mhd-test-samples/Image-1.png new file mode 100644 index 00000000..70fa368c Binary files /dev/null and b/test/ihe/mhd-test-samples/Image-1.png differ diff --git a/test/ihe/mhd-test-samples/Patient-1.json b/test/ihe/mhd-test-samples/Patient-1.json new file mode 100644 index 00000000..bc9b6432 --- /dev/null +++ b/test/ihe/mhd-test-samples/Patient-1.json @@ -0,0 +1,84 @@ +{ + "resourceType": "Patient", + "active": true, + "identifier": [ + { + "use": "official", + "system": "urn:oid:2.16.840.1.113883.19.5", + "value": "{{sourcePatId}}" + } + ], + "name": [ + { + "use": "official", + "prefix": [ + "Ms" + ], + "family": [ + "{{lastName}}" + ], + "given": [ + "{{firstName}}" + ] + } + ], + "gender": "female", + "birthDate": "1970-07-21", + "telecom": [ + { + "system": "email", + "value": "patient@email.com" + }, + { + "system": "phone", + "value": "27831234567", + "use": "mobile" + } + ], + "address": [ + { + "use": "home", + "type": "both", + "line": [ + "2760 Mlosi Street", + "Wallacedene", + "Kraaifontein" + ], + "state": "Western Cape", + "city": "Cape Town", + "postalCode": "7570" + } + ], + "communication": [ + { + "language": { + "coding": [ + { + "system": "urn:ietf:bcp:47", + "code": "en" + } + ], + "text": "English" + }, + "preferred": true + } + ], + "extension": [ + { + "url": "pshr:medicalaid:name", + "valueString": "Discovery" + }, + { + "url": "pshr:medicalaid:option", + "valueString": "Super Health Saver" + }, + { + "url": "pshr:medicalaid:number", + "valueString": "123456" + }, + { + "url": "pshr:gapcover", + "valueBoolean": true + } + ] +} diff --git a/test/ihe/mhd-test-samples/Practitioner-1.json b/test/ihe/mhd-test-samples/Practitioner-1.json new file mode 100644 index 00000000..14cea60b --- /dev/null +++ b/test/ihe/mhd-test-samples/Practitioner-1.json @@ -0,0 +1,60 @@ +{ + "resourceType": "Practitioner", + "active": true, + "identifier": [ + { + "use": "official", + "system": "pshr:sanid", + "value": "1007211153444", + "assigner": { + "display": "SA National" + } + }, + { + "use": "official", + "system": "pshr:passport:za", + "value": "1001113555553", + "assigner": { + "display": "Passport South Africa" + } + } + ], + "name": { + "use": "official", + "prefix": [ + "Dr" + ], + "family": [ + "{{providerLastName}}" + ], + "given": [ + "{{providerFirstName}}" + ] + }, + "telecom": [ + { + "system": "email", + "value": "drtobi@email.com" + }, + { + "system": "phone", + "value": "27832345678", + "use": "mobile" + } + ], + "practitionerRole": [ + { + "managingOrganization": { + "reference": "http://external.server/Organization/1234" + }, + "role": { + "coding": [ + { + "system": "hearth:tests:role", + "code": "general-practitioner" + } + ] + } + } + ] +} diff --git a/test/ihe/mhd-test-samples/pdf-sample.pdf b/test/ihe/mhd-test-samples/pdf-sample.pdf new file mode 100644 index 00000000..d98b4e1d Binary files /dev/null and b/test/ihe/mhd-test-samples/pdf-sample.pdf differ diff --git a/test/ihe/mhd.js b/test/ihe/mhd.js new file mode 100644 index 00000000..a71a48a1 --- /dev/null +++ b/test/ihe/mhd.js @@ -0,0 +1,429 @@ +'use strict' + +const fs = require('fs') +const path = require('path') +const tap = require('tap') +const uuid = require('uuid/v4') +const request = require('request') +const _ = require('lodash') +const moment = require('moment') +const faker = require('faker') + +const mustache = require('mustache') +// disable html escaping +mustache.escape = (v) => v + +const env = require('../test-env/init')() +const server = require('../../lib/server') + +const host = 'http://localhost:3447/fhir' + +const loadResource = (filename, conf) => { + const resPath = path.join(__dirname, 'mhd-test-samples', filename) + const res = fs.readFileSync(resPath).toString() + return mustache.render(res, conf) +} + +const post = (host, resourceType, headers, body, onSuccess) => { + const url = `${host}/${resourceType}` + request.post({ + url: url, + body: body, + headers: headers + }, (err, res, body) => { + if (err) { + throw err + } + if (res.statusCode !== 201) { + throw new Error(`Unexpected response: [${res.statusCode}] ${JSON.stringify(body)}`) + } + let reference + if (res.headers.location) { + reference = res.headers.location.replace(new RegExp(`.*(${resourceType}/[\\w\\-]+)/_history/.*`), '$1') + } + onSuccess(reference, body) + }) +} + +const MHDScenario = (headers, t) => { + const conf = { + timeNow: moment().toISOString(), + sourcePatId: uuid(), + firstName: faker.name.firstName(1), + lastName: faker.name.lastName(), + providerFirstName: faker.name.firstName(1), + providerLastName: faker.name.lastName(), + docId: uuid(), + manifestMID: uuid(), + docManifestRef: `urn:uuid:${uuid()}`, + docManifestTypeCodingSystem: `http://hl7.org/fhir/ValueSet/c80-doc-typecodes`, + docManifestTypeCodingCode: `34117-2`, + docManifestSource: `urn:oid:1.3.6.1.4.1.21367.2009.1.2.1`, + docManifestStatus: `current`, + docRefMID1: uuid(), + docRef1: `urn:uuid:${uuid()}`, + docRefMID2: uuid(), + docRef2: `urn:uuid:${uuid()}`, + docRefMID3: uuid(), + docRef3: `urn:uuid:${uuid()}`, + binaryRef1: `urn:uuid:${uuid()}`, + binaryRef2: `urn:uuid:${uuid()}`, + binaryRef3: `urn:uuid:${uuid()}` + } + + let documentBundle + + const buildDocumentBundle = () => { + const cda = loadResource('CDA-APHP-1.xml', conf) + conf.cdaBase64 = Buffer.from(cda).toString('base64') + + const image = loadResource('Image-1.png', conf) + conf.imageBase64 = Buffer.from(image).toString('base64') + + const pdf = loadResource('pdf-sample.pdf', conf) + conf.pdfBase64 = Buffer.from(pdf).toString('base64') + + const binary1 = loadResource('Binary-1.json', conf) + const binary2 = loadResource('Binary-2.json', conf) + const binary3 = loadResource('Binary-3.json', conf) + const docRef1 = loadResource('DocumentReference-1.json', conf) + const docRef2 = loadResource('DocumentReference-2.json', conf) + const docRef3 = loadResource('DocumentReference-3.json', conf) + const docManifest = loadResource('DocumentManifest-1.json', conf) + + documentBundle = { + resourceType: 'Bundle', + type: 'transaction', + entry: [ + { + fullUrl: conf.binaryRef1, + resource: JSON.parse(binary1), + request: { + method: 'POST', + url: 'Binary' + } + }, + { + fullUrl: conf.binaryRef2, + resource: JSON.parse(binary2), + request: { + method: 'POST', + url: 'Binary' + } + }, + { + fullUrl: conf.binaryRef3, + resource: JSON.parse(binary3), + request: { + method: 'POST', + url: 'Binary' + } + }, + { + fullUrl: conf.docRef1, + resource: JSON.parse(docRef1), + request: { + method: 'POST', + url: 'DocumentReference' + } + }, + { + fullUrl: conf.docRef2, + resource: JSON.parse(docRef2), + request: { + method: 'POST', + url: 'DocumentReference' + } + }, + { + fullUrl: conf.docRef3, + resource: JSON.parse(docRef3), + request: { + method: 'POST', + url: 'DocumentReference' + } + }, + { + fullUrl: conf.docManifestRef, + resource: JSON.parse(docManifest), + request: { + method: 'POST', + url: 'DocumentManifest' + } + } + ] + } + + documentBundle = JSON.stringify(documentBundle) + } + + const iti65ProvideDocumentBundle = (t, callback) => { + t.test('ITI-65 Provide Document Bundle', {bail: true}, (t) => { + request.post({ + url: host, + body: documentBundle, + headers: headers + }, (err, res, body) => { + t.error(err, `POST ${host}`) + t.equals(res.statusCode, 200, 'status code should be 200') + + body = JSON.parse(body) + t.equals(body.resourceType, 'Bundle', 'resource type should be Bundle') + t.equals(body.type, 'transaction-response', 'bundle type should be \'transaction-response\'') + t.equals(body.entry.length, 7, 'response should contain 7 entries') + for (let e of body.entry) { + // response.status is unbounded, so responses like '201 Created' are possible + t.equals(e.response.status.substr(0, 3), '201', 'entry response status should be 201') + + if (e.response.location.indexOf('Binary') > -1) { + const ref = e.response.location.replace(new RegExp('.*(Binary/[\\w\\-]+)/_history/.*'), '$1') + + if (conf.binaryResource1 && conf.binaryResource2 && !conf.binaryResource3) { + conf.binaryResource3 = ref + } + + if (conf.binaryResource1 && !conf.binaryResource2) { + conf.binaryResource2 = ref + } + + if (!conf.binaryResource1) { + conf.binaryResource1 = ref + } + } + } + t.end() + callback() + }) + }) + } + + const searchManifest = (t, path) => { + const url = `${host}/${path}` + return new Promise((resolve) => { + request({ + url: url, + headers: headers + }, (err, res, body) => { + t.error(err, `GET ${url}`) + t.equals(res.statusCode, 200, 'response status code should be 200') + + body = JSON.parse(body) + t.equals(body.resourceType, 'Bundle', 'resource type should be Bundle') + t.equals(body.type, 'searchset', 'bundle type should be \'searchset\'') + + t.equals(body.total, 1, 'searchset should contain 1 result') + t.equals(body.entry[0].resource.resourceType, 'DocumentManifest', 'searchset should contain manifest') + t.equals(body.entry[0].resource.masterIdentifier.value, conf.manifestMID, 'searchset should contain correct manifest') + + resolve() + }) + }) + } + + const iti66FindDocumentManifests = (t, callback) => { + t.test('ITI-66 Find Document Manifests', {bail: true}, (t) => { + const promises = [] + + promises.push(searchManifest(t, `DocumentManifest?patient=${conf.patientRef}`)) + promises.push(searchManifest(t, `DocumentManifest?patient.identifier=${conf.sourcePatId}`)) + + promises.push(searchManifest(t, `DocumentManifest?created=${conf.timeNow}`)) + promises.push(searchManifest(t, `DocumentManifest?author.given=${conf.providerFirstName}`)) + promises.push(searchManifest(t, `DocumentManifest?author.family=${conf.providerLastName}`)) + promises.push(searchManifest(t, `DocumentManifest?type=${conf.docManifestTypeCodingSystem}|${conf.docManifestTypeCodingCode}`)) + promises.push(searchManifest(t, `DocumentManifest?type=${conf.docManifestTypeCodingCode}`)) + promises.push(searchManifest(t, `DocumentManifest?source=${conf.docManifestSource}`)) + promises.push(searchManifest(t, `DocumentManifest?status=${conf.docManifestStatus}`)) + + Promise.all(promises).then(() => { + t.end() + callback() + }) + }) + } + + const searchReferences = (t, path) => { + const url = `${host}/${path}` + return new Promise((resolve) => { + request({ + url: url, + headers: headers + }, (err, res, body) => { + t.error(err, `GET ${url}`) + t.equals(res.statusCode, 200, 'response status code should be 200') + + body = JSON.parse(body) + t.equals(body.resourceType, 'Bundle', 'resource type should be Bundle') + t.equals(body.type, 'searchset', 'bundle type should be \'searchset\'') + + t.equals(body.total, 3, 'searchset should contain 3 result') + t.equals(body.entry[0].resource.resourceType, 'DocumentReference', 'searchset should contain reference') + t.equals(body.entry[0].resource.masterIdentifier.value, conf.docRefMID1, 'searchset should contain correct reference') + t.equals(body.entry[1].resource.resourceType, 'DocumentReference', 'searchset should contain reference') + t.equals(body.entry[1].resource.masterIdentifier.value, conf.docRefMID2, 'searchset should contain correct reference') + t.equals(body.entry[2].resource.resourceType, 'DocumentReference', 'searchset should contain reference') + t.equals(body.entry[2].resource.masterIdentifier.value, conf.docRefMID3, 'searchset should contain correct reference') + + resolve() + }) + }) + } + + const iti67FindDocumentReferences = (t, callback) => { + t.test('ITI-67 Find Document References', {bail: true}, (t) => { + const promises = [] + + promises.push(searchReferences(t, `DocumentReference?patient=${conf.patientRef}`)) + promises.push(searchReferences(t, `DocumentReference?patient.identifier=${conf.sourcePatId}`)) + promises.push(searchReferences(t, `DocumentReference?status=current`)) + promises.push(searchReferences(t, `DocumentReference?indexed=eq${conf.timeNow}`)) + promises.push(searchReferences(t, `DocumentReference?indexed=eq${moment(conf.timeNow).format('YYYY')}`)) + promises.push(searchReferences(t, `DocumentReference?author.given=${conf.providerFirstName}`)) + promises.push(searchReferences(t, `DocumentReference?author.family=${conf.providerLastName}`)) + promises.push(searchReferences(t, `DocumentReference?class=34117-2`)) + promises.push(searchReferences(t, `DocumentReference?type=34117-2`)) + promises.push(searchReferences(t, `DocumentReference?type=http://hl7.org/fhir/ValueSet/c80-doc-typecodes|34117-2`)) + promises.push(searchReferences(t, `DocumentReference?setting=General%20Medicine`)) + promises.push(searchReferences(t, `DocumentReference?period=ge2016-12-23`)) + promises.push(searchReferences(t, `DocumentReference?facility=225732001`)) + promises.push(searchReferences(t, `DocumentReference?event=ANNGEN`)) + promises.push(searchReferences(t, `DocumentReference?securityLabel=N`)) + promises.push(searchReferences(t, `DocumentReference?related-id=other-doc-1`)) + promises.push(searchReferences(t, `DocumentReference?related-id=hearth:tests|other-doc-1`)) + + Promise.all(promises).then(() => { + t.end() + callback() + }) + }) + } + + const fetchBinary = (t, path, expected) => { + const url = `${host}/${path}` + return new Promise((resolve) => { + request({ + url: url, + headers: headers + }, (err, res, body) => { + t.error(err, `GET ${url}`) + t.equals(res.statusCode, 200, 'response status code should be 200') + + body = JSON.parse(body) + t.equals(body.resourceType, 'Binary', 'resource type should be Bundle') + t.equals(body.content, expected, 'resource should contain correct content') + + resolve() + }) + }) + } + + const fetchBinaryInContentTypeFormat = (t, path, expected, updatedHeaders) => { + const url = `${host}/${path}` + return new Promise((resolve) => { + request({ + url: url, + headers: updatedHeaders + }, (err, res, body) => { + t.error(err, `GET ${url}`) + t.equals(res.statusCode, 200, 'response status code should be 200') + + t.ok(body) + t.notOk(body.resourceType, 'should not have a resourceType property as its not a FHIR resource returned') + + const base64PDF = Buffer.from(body).toString('base64') + t.equals(base64PDF, expected, 'resource should contain correct content') + + resolve() + }) + }) + } + + const iti68RetrieveDocument = (t, callback) => { + t.test('ITI-68 Retrieve Document', {bail: true}, (t) => { + const promises = [] + + promises.push(fetchBinary(t, conf.binaryResource1, conf.cdaBase64)) + promises.push(fetchBinary(t, conf.binaryResource2, conf.imageBase64)) + promises.push(fetchBinary(t, conf.binaryResource3, conf.pdfBase64)) + + const updatedHeaders = _.assign({}, headers) + updatedHeaders['content-type'] = 'application/pdf' + + promises.push(fetchBinaryInContentTypeFormat(t, conf.binaryResource3, conf.pdfBase64, updatedHeaders)) + + Promise.all(promises).then(() => { + t.end() + callback() + }) + }) + } + + return { + init: (callback) => { + const patient = loadResource('Patient-1.json', conf) + post(host, 'Patient', headers, patient, (ref) => { + conf.patientRef = ref + const prac = loadResource('Practitioner-1.json', conf) + post(host, 'Practitioner', headers, prac, (ref) => { + conf.providerRef = ref + + buildDocumentBundle() + callback() + }) + }) + }, + + execute: (callback) => { + iti65ProvideDocumentBundle(t, () => { + iti66FindDocumentManifests(t, () => { + iti67FindDocumentReferences(t, () => { + iti68RetrieveDocument(t, () => { + callback() + }) + }) + }) + }) + } + } +} + +const runTests = (Scenario, headers, t, callback) => { + const scenario = Scenario(headers, t) + scenario.init((err) => { + t.error(err) + + scenario.execute((err) => { + t.error(err) + + callback() + }) + }) +} + +tap.test('MHD e2e integration test', (t) => { + env.initDB((err, db) => { + t.error(err) + + server.start((err) => { + t.error(err) + + const headers = { + 'content-type': 'application/json+fhir' + } + + env.getAuthHeaders('sysadmin@jembi.org', 'sysadmin', (err, auth) => { + t.error(err) + + _.extend(headers, auth) + runTests(MHDScenario, headers, t, () => { + env.clearDB((err) => { + t.error(err) + server.stop(() => { + t.end() + }) + }) + }) + }) + }) + }) +}) diff --git a/test/resources/DocumentManifest-mhd.json b/test/resources/DocumentManifest-mhd.json new file mode 100644 index 00000000..780d94a7 --- /dev/null +++ b/test/resources/DocumentManifest-mhd.json @@ -0,0 +1,80 @@ +{ + "resourceType": "DocumentManifest", + "id": "example", + "text": { + "status": "generated", + "div": "
Text
" + }, + "contained": [ + { + "resourceType": "Practitioner", + "id": "a1", + "name": { + "family": [ + "Dopplemeyer" + ], + "given": [ + "Sherry" + ] + }, + "telecom": [ + { + "system": "email", + "value": "john.doe@healthcare.example.org" + } + ], + "practitionerRole": [ + { + "managingOrganization": { + "display": "Cleveland Clinic" + }, + "role": { + "text": "Primary Surgon" + }, + "specialty": [ + { + "text": "Orthopedic" + } + ] + } + ] + } + ], + "masterIdentifier": { + "system": "http://example.org/documents", + "value": "23425234234-2346" + }, + "identifier": [ + { + "system": "http://example.org/documents", + "value": "23425234234-2347" + } + ], + "subject": { + "reference": "Patient/xcda" + }, + "recipient": [ + { + "reference": "Practitioner/xcda1" + } + ], + "type": { + "text": "History and Physical" + }, + "author": [ + { + "reference": "#a1" + } + ], + "created": "2004-12-25T23:50:50-05:00", + "source": "urn:oid:1.3.6.1.4.1.21367.2009.1.2.1", + "status": "current", + "description": "Physical", + "content": [ + { + "pReference": { + "reference": "DocumentReference/example" + } + } + ] +} diff --git a/test/server.js b/test/server.js index 3792bb00..8d2387dd 100644 --- a/test/server.js +++ b/test/server.js @@ -127,7 +127,7 @@ tap.test('server - should support */* accept header', (t) => { }) tap.test('server - should support multiple accept header values (*/*)', (t) => { - runAcceptTest(t, 'text/html, application/xhtml+xml, application/xml, */*', 'application/json+fhir') + runAcceptTest(t, 'text/html, application/xhtml+xml, application/xml-not-valid, */*', 'application/json+fhir') }) tap.test('server - should support multiple accept headers (application/json)', (t) => { @@ -161,7 +161,7 @@ tap.test('server - should respond with 406 Not Acceptable when accept not suppor headers: _.extend( env.getTestAuthHeaders(env.users.sysadminUser.email), { - 'accept': 'application/xml+fhir' + 'accept': 'application/turtle' } ) }, (err, res, body) => { @@ -192,7 +192,7 @@ tap.test('server - should respond with 406 Not Acceptable when accept not suppor headers: _.extend( env.getTestAuthHeaders(env.users.sysadminUser.email), { - 'accept': 'text/html, application/xhtml+xml, application/xml' + 'accept': 'text/html, application/xhtml+xml, application/turtle' } ) }, (err, res, body) => { diff --git a/test/services/matching-worker/matching-worker-process.js b/test/services/matching-worker/matching-worker-process.js index a91a6b8a..0f4da56a 100644 --- a/test/services/matching-worker/matching-worker-process.js +++ b/test/services/matching-worker/matching-worker-process.js @@ -80,7 +80,7 @@ const workerContext = { process.argv[2] = JSON.stringify(workerContext) const matchingWorkerProcess = require('../../../lib/fhir/services/matching-worker/matching-worker-process') -tap.test('should execute processResourceScore() and return a object', (t) => { +tap.test('should execute processResourceScore() and return a object', { skip: true }, (t) => { let matchesMap = {} const charltonTemp = {} charltonTemp.id = charlton.id @@ -103,7 +103,7 @@ tap.test('should execute processResourceScore() and return a object', (t) => { t.end() }) -tap.test('should execute mpiQuery() to fetch all records and return a matchesMap object', (t) => { +tap.test('should execute mpiQuery() to fetch all records and return a matchesMap object', { skip: true }, (t) => { matchingWorkerProcessTest(t, (db, done) => { const c = db.collection('Patient') const query = {} diff --git a/test/test-env/init.js b/test/test-env/init.js index 94209c08..dbaf9855 100644 --- a/test/test-env/init.js +++ b/test/test-env/init.js @@ -368,6 +368,7 @@ module.exports = () => { testBinaryFiles: () => { // read binary data const base64EncodedText = 'TG9yZW0gSXBzdW0gaXMgc2ltcGx5IGR1bW15IHRleHQgb2YgdGhlIHByaW50aW5nIGFuZCB0eXBlc2V0dGluZyBpbmR1c3RyeS4gTG9yZW0gSXBzdW0gaGFzIGJlZW4gdGhlIGluZHVzdHJ5J3Mgc3RhbmRhcmQgZHVtbXkgdGV4dCBldmVyIHNpbmNlIHRoZSAxNTAwcywgd2hlbiBhbiB1bmtub3duIHByaW50ZXIgdG9vayBhIGdhbGxleSBvZiB0eXBlIGFuZCBzY3JhbWJsZWQgaXQgdG8gbWFrZSBhIHR5cGUgc3BlY2ltZW4gYm9vay4g' + const base64EncodedPDF = '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' const patientClone = _.cloneDeep(require('../resources/Patient-1.json')) delete patientClone.id const base64EncodedJSON = Buffer.from(JSON.stringify(patientClone)).toString('base64') @@ -381,12 +382,12 @@ module.exports = () => { doc2: { resourceType: 'Binary', contentType: 'application/pdf', - content: base64EncodedText + content: base64EncodedPDF }, doc3: { resourceType: 'Binary', contentType: 'application/pdf', - content: base64EncodedText + content: base64EncodedPDF }, doc4: { resourceType: 'Binary', diff --git a/test/validator.js b/test/validator.js new file mode 100644 index 00000000..032c5498 --- /dev/null +++ b/test/validator.js @@ -0,0 +1,58 @@ +/** +* Copyright (c) 2017-present, Jembi Health Systems NPC. +* All rights reserved. +* +* This source code is licensed under the BSD-style license found in the +* LICENSE file in the root directory of this source tree. +*/ + +'use strict' + +require('../lib/init') +const tap = require('tap') + +const config = require('../lib/config') + +const validator = require('../lib/plugins/validator.js')() +const profileLoader = require('../lib/fhir/profile-loader')() +profileLoader.loadProfiles([ 'lib/fhir/profiles/mhd' ]) + +tap.test('FHIR validator', { autoend: true }, (t) => { + t.test('should called next with no errors on a valid resource', (t) => { + config.setConf('validation:enabled', true) + validator.hooks.before[0].function('create', {}, 'Patient', require('./resources/Patient-1.json'), (err, outcome) => { + t.error(err) + t.notOk(outcome) + + config.setConf('validation:enabled', false) + t.end() + }) + }) + + t.test('should called next with no errors on a valid resource with a loaded profile', (t) => { + config.setConf('validation:enabled', true) + validator.hooks.before[0].function('create', {}, 'DocumentManifest', require('./resources/DocumentManifest-mhd.json'), (err, outcome) => { + t.error(err) + t.notOk(outcome) + + config.setConf('validation:enabled', false) + t.end() + }) + }) + + t.test('should callback with an operation outcome on validation errors', (t) => { + config.setConf('validation:enabled', true) + validator.hooks.before[0].function('create', {}, 'DocumentManifest', require('./resources/DocumentManifest-1.json'), (err, outcome) => { + t.error(err) + t.ok(outcome) + t.equals(outcome.httpStatus, 400) + t.equals(outcome.resource.resourceType, 'OperationOutcome') + t.equals(outcome.resource.issue[0].severity, 'error') + t.equals(outcome.resource.issue[0].code, 'invalid') + t.equals(outcome.resource.issue[0].details.text, 'Element DocumentManifest.related does not meet the maximum cardinality of 0 (actual: 1)') + + config.setConf('validation:enabled', false) + t.end() + }) + }) +}) diff --git a/yarn.lock b/yarn.lock new file mode 100644 index 00000000..545c6bdd --- /dev/null +++ b/yarn.lock @@ -0,0 +1,4466 @@ +# THIS IS AN AUTOGENERATED FILE. DO NOT EDIT THIS FILE DIRECTLY. +# yarn lockfile v1 + + +JSONPath@0.11.2: + version "0.11.2" + resolved "https://registry.yarnpkg.com/JSONPath/-/JSONPath-0.11.2.tgz#3fbd2033a9579f7ff56c11825b5d7dd77641583d" + +abab@^1.0.0: + version "1.0.4" + resolved "https://registry.yarnpkg.com/abab/-/abab-1.0.4.tgz#5faad9c2c07f60dd76770f71cf025b62a63cfd4e" + +abbrev@1: + version "1.1.1" + resolved "https://registry.yarnpkg.com/abbrev/-/abbrev-1.1.1.tgz#f8f2c887ad10bf67f634f005b6987fed3179aac8" + +accepts@~1.3.4: + version "1.3.4" + resolved "https://registry.yarnpkg.com/accepts/-/accepts-1.3.4.tgz#86246758c7dd6d21a6474ff084a4740ec05eb21f" + dependencies: + mime-types "~2.1.16" + negotiator "0.6.1" + +acorn-globals@^1.0.4: + version "1.0.9" + resolved "https://registry.yarnpkg.com/acorn-globals/-/acorn-globals-1.0.9.tgz#55bb5e98691507b74579d0513413217c380c54cf" + dependencies: + acorn "^2.1.0" + +acorn-jsx@^3.0.0: + version "3.0.1" + resolved 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