From 4ef1fd47deb70b5198de7fca4945d6e5cf7ee637 Mon Sep 17 00:00:00 2001
From: Patrick Skowronek <patrick.skowronek@dkfz-heidelberg.de>
Date: Tue, 29 Oct 2024 14:38:13 +0100
Subject: [PATCH] fixed optional json

---
 src/fhir.rs |  8 +++++++-
 src/main.rs | 23 +++++++++++------------
 2 files changed, 18 insertions(+), 13 deletions(-)

diff --git a/src/fhir.rs b/src/fhir.rs
index 66005e2..632c207 100644
--- a/src/fhir.rs
+++ b/src/fhir.rs
@@ -24,14 +24,20 @@ pub struct Entry {
 #[serde(rename_all = "camelCase")]
 pub struct Resource {
     pub meta: Meta,
+    #[serde(skip_serializing_if = "Option::is_none")]
     pub birth_date: Option<String>,
     pub resource_type: String,
+    #[serde(skip_serializing_if = "Option::is_none")]
     pub gender: Option<String>,
+    #[serde(skip_serializing_if = "Option::is_none")]
     pub name: Option<String>,
+    #[serde(skip_serializing_if = "Option::is_none")]
     pub deceased_date_time: Option<String>,
+    #[serde(skip_serializing_if = "Option::is_none")]
     pub deceased: Option<bool>,
     pub id: String,
-    pub identifier: Vec<Identifier>,
+    pub identifier: Option<Vec<Identifier>>,
+    #[serde(skip_serializing_if = "Option::is_none")]
     pub extension: Option<Vec<Extension>>,
 }
 
diff --git a/src/main.rs b/src/main.rs
index 2811d5b..a3510de 100644
--- a/src/main.rs
+++ b/src/main.rs
@@ -69,13 +69,14 @@ async fn main() -> anyhow::Result<()> {
     for project in projects {
         println!("Adding project information to patients of {}", project.name);
         for id_type in ["L", "G"] {
-            let token = match ma_token_request(&mainzel_client, &session_id, &project, &id_type).await {
-                Ok(url) => url,
-                Err(_e) => {
-                    eprintln!("Project {} not configured in mainzelliste", project.name);
-                    continue;
-                }
-            };
+            let token =
+                match ma_token_request(&mainzel_client, &session_id, &project, &id_type).await {
+                    Ok(url) => url,
+                    Err(_e) => {
+                        eprintln!("Project {} not configured in mainzelliste", project.name);
+                        continue;
+                    }
+                };
             let Ok(patients) = get_patient(&mainzel_client, token).await else {
                 println!("Did not found any patients from project {}", project.name);
                 continue;
@@ -101,11 +102,9 @@ async fn main() -> anyhow::Result<()> {
                             if !extension.contains(&project_extension) {
                                 extension.push(project_extension);
                             }
-                        } else {
-                            fhir_patient.extension = Some(vec![project_extension]);
+                            post_patient_to_fhir_server(&fhir_client, fhir_patient).await;
+                            println!("Added project to Patient {}", patient);
                         }
-                        post_patient_to_fhir_server(&fhir_client, fhir_patient).await;
-                        println!("Added project to Patient {}", patient);
                     }
                     Err(e) => {
                         eprintln!("Did not find patient with pseudonym {}\n{:#}", &patient, e);
@@ -142,7 +141,7 @@ async fn ma_token_request(
     client: &Client,
     session_id: &str,
     project: &Project,
-    id_type: &str
+    id_type: &str,
 ) -> anyhow::Result<String> {
     let mrdataids = mainzelliste::SearchId {
         id_string: "*".to_owned(),