Upddated things to match newer version of NeuroDock

build.gradle

@@ -6,6 +6,8 @@ plugins {
 
     id 'org.springframework.boot' version '4.1.0-M4'
     id 'io.spring.dependency-management' version '1.1.4'
+
+    id 'application'
 }
 
 group = 'me.zacharias'
@@ -70,6 +72,14 @@ tasks.named('processResources') {
     dependsOn 'copyPythonRuntime'
 }
 
+application {
+    mainClass = 'me.neurodock.glados.Main'
+}
+
+tasks.named('run') {
+    standardInput = System.in
+}
+
 jar {
     manifest {
         attributes 'Main-Class': 'me.neurodock.glados.Main'