annotate Samples/FHIR/NOTES.txt @ 22:0bbb4e12b1f0

fix deprecated call
author Sebastien Jodogne <s.jodogne@gmail.com>
date Fri, 22 Mar 2024 15:59:05 +0100
parents 4ff1471ebe8b
children 118adbad648f
Ignore whitespace changes - Everywhere: Within whitespace: At end of lines:
rev   line source
11
8d876a4f541b added sample FHIR server
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
1
8d876a4f541b added sample FHIR server
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
2 This sample Java plugin runs a FHIR server based on the HAPI library.
8d876a4f541b added sample FHIR server
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
3 Note that contrarily to the other samples that can run using Java 1.8,
8d876a4f541b added sample FHIR server
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
4 this Java plugin requires Java 11.
8d876a4f541b added sample FHIR server
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
5
8d876a4f541b added sample FHIR server
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
6 (1) Make sure to build the C++ plugin:
8d876a4f541b added sample FHIR server
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
7
8d876a4f541b added sample FHIR server
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
8 # cd ../../Plugin/
8d876a4f541b added sample FHIR server
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
9 # mkdir Build
8d876a4f541b added sample FHIR server
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
10 # cd Build
8d876a4f541b added sample FHIR server
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
11 # cmake .. -DCMAKE_BUILD_TYPE=Release
8d876a4f541b added sample FHIR server
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
12 # make -j4
8d876a4f541b added sample FHIR server
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
13
8d876a4f541b added sample FHIR server
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
14
8d876a4f541b added sample FHIR server
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
15 (2) Compile the Java plugin using Maven:
8d876a4f541b added sample FHIR server
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
16
8d876a4f541b added sample FHIR server
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
17 # cd ../../Samples/FHIR
8d876a4f541b added sample FHIR server
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
18 # mvn package
8d876a4f541b added sample FHIR server
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
19
8d876a4f541b added sample FHIR server
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
20
8d876a4f541b added sample FHIR server
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
21 (3) Start Orthanc:
8d876a4f541b added sample FHIR server
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
22
21
4ff1471ebe8b added Samples/FHIR/configuration.json
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 13
diff changeset
23 On Ubuntu 20.04 or 22.04:
11
8d876a4f541b added sample FHIR server
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
24
8d876a4f541b added sample FHIR server
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
25 # LD_LIBRARY_PATH=/usr/lib/jvm/java-11-openjdk-amd64/lib/server/ Orthanc ./configuration.json
8d876a4f541b added sample FHIR server
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
26
13
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 11
diff changeset
27
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 11
diff changeset
28 (4) Access the FHIR server. For instance, using the FHIRPACK
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 11
diff changeset
29 command-line client (https://gitlab.com/fhirpack/main):
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 11
diff changeset
30
21
4ff1471ebe8b added Samples/FHIR/configuration.json
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 13
diff changeset
31 On Ubuntu 20.04:
4ff1471ebe8b added Samples/FHIR/configuration.json
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 13
diff changeset
32
4ff1471ebe8b added Samples/FHIR/configuration.json
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 13
diff changeset
33 $ python3.9 -m pip install --user --upgrade pip
4ff1471ebe8b added Samples/FHIR/configuration.json
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 13
diff changeset
34 $ python3.9 -m pip install --user --upgrade cffi fhirpack
4ff1471ebe8b added Samples/FHIR/configuration.json
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 13
diff changeset
35
13
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 11
diff changeset
36 $ fp -s http://localhost:8042/fhir -o "getPatients" -p all -o "gatherSimplePaths id name.family name.given birthDate"
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 11
diff changeset
37 $ fp -s http://localhost:8042/fhir -o "getEndpoints" -p all -o "gatherSimplePaths id address"
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 11
diff changeset
38 $ fp -s http://localhost:8042/fhir -o "getImagingStudies" -p all -o "gatherSimplePaths identifier.value endpoint.reference subject.reference"