Add OVIS module configuration and preprocessing options

Added configuration settings for OVIS module and preprocessing behavior.

ccp/vars

@@ -23,6 +23,139 @@ do
     source $module
 done
 
+
+# ========================================
+# OVIS Bridgehead Module Configuration
+# ========================================
+# Copy this file to ccp/vars and customize for your site.
+# This module supports CCP (FHIR-based) or DEMO (bundled data) import modes.
+# ========================================
+
+# Enable OVIS module
+ENABLE_OVIS=
+
+# ========================================
+# IMPORT MODE
+# ========================================
+# Set to "ccp" for FHIR-based Clinical Cancer Profile import
+# Set to "demo" for bundled demo data (no external dependencies)
+OVIS_IMPORT_MODE=demo
+
+# ========================================
+# ROUTING / TRAEFIK
+# ========================================
+# Hostname for OVIS access
+HOST=localhost
+
+# Traefik middleware for authentication
+OVIS_AUTH_MIDDLEWARE=traefik-forward-auth
+
+# CORS origin for backend
+OVIS_CORS_ORIGIN=*
+
+# ========================================
+# CORE RUNTIME
+# ========================================
+APOLLO_PORT=4001
+CREDOS_PORT=4000
+DB=onc_test
+MONGO_VER=latest
+
+# Frontend login toggle
+PUBLIC_LOGIN_ENABLED=false
+
+# ========================================
+# CCP IMPORTER / FHIR SOURCE
+# ========================================
+# Only required when OVIS_IMPORT_MODE=ccp
+# FHIR server URL (defaults to Bridgehead CCP Blaze)
+FHIR_SERVER_URL=http://bridgehead-ccp-blaze:8080/fhir
+FHIR_USERNAME=your-fhir-username
+FHIR_PASSWORD=your-fhir-password
+
+# Optional ICD10 filter for CCP import
+ICD10_FILTER=
+
+# ========================================
+# PREPROCESSOR ENDPOINT
+# ========================================
+# URL for uploading omock.json to preprocessing service
+# Uses Bridgehead service name (different from main compose default)
+OVIS_PREPROCESSOR_URL=http://ovis-backend-data-preprocessing:9000/omock
+
+# ========================================
+# FRONTEND RUNTIME
+# ========================================
+# Catalogue upstream URL (uses Bridgehead service name)
+OVIS_CATALOGUE_UPSTREAM_URL=http://ovis-backend-data-preprocessing:9000/catalogue
+
+# Express auth configuration
+EXPRESS_AUTH_URL=http://express-auth:5000
+EXPRESS_AUTH_USERNAME=your-express-username
+EXPRESS_AUTH_PASSWORD=your-express-password
+
+# ========================================
+# PROXY CONFIGURATION (Optional)
+# ========================================
+# Use these only if your server must access the internet through a corporate proxy.
+# Leave all three empty when no proxy is required.
+OVIS_HTTP_PROXY=
+OVIS_HTTPS_PROXY=
+OVIS_NO_PROXY=
+
+# ========================================
+# PREPROCESSOR OVERRIDES (Optional)
+# ========================================
+# These variables customize preprocessing behavior without code changes.
+# See main compose.yaml for detailed documentation of each variable.
+
+# Global / patient status
+OVIS_PREPROC_DECEASED_KEYWORDS=["verstorben","dead","deceased","not alive","gestorben"]
+
+# Rezidiv detection
+OVIS_PREPROC_REZIDIV_PREFIXES=["Rezidiv"]
+OVIS_PREPROC_REZIDIV_CANONICAL=Rezidiv
+OVIS_PREPROC_REZIDIV_LYMPH_STATES=["Rezidiv","Neu"]
+
+# Progress / DFS
+OVIS_PREPROC_PROGRESS_LABELS=["Progression","Divergentes Geschehen","Rezidiv"]
+OVIS_PREPROC_COMPLETE_REMISSION_LABELS=["Vollremission / Tumorfrei (complete remission)"]
+
+# DFS start conditions
+OVIS_PREPROC_RCLASS_SUCCESS=["R0"]
+OVIS_PREPROC_LOCAL_RSTATE_SUCCESS=["R0"]
+
+# Metastasis detection
+OVIS_PREPROC_METASTASIS_PREFIXES=["Rezidiv","Neu"]
+OVIS_PREPROC_METASTASIS_SPREAD_VALUES=["Neu","Rezidiv","Tumornachweis"]
+OVIS_PREPROC_METASTASIS_STRAT_SYNCHRON=Synchrone Metastasierung
+OVIS_PREPROC_METASTASIS_STRAT_NONE=keine synchrone Metastasierung
+
+# Study phases to treat as null
+OVIS_PREPROC_NULL_STUDY_PHASES=["NOPH","KA"]
+
+# Therapy mappings
+OVIS_PREPROC_PREV_THERAPY_SURGERY=["operation"]
+OVIS_PREPROC_PREV_THERAPY_SYSTEMIC=["systemic"]
+OVIS_PREPROC_PREV_THERAPY_RADIATION=["radiation"]
+
+# Consultation mappings
+OVIS_PREPROC_PREV_CONSULTATION_NUTRITION=["nutrition"]
+OVIS_PREPROC_PREV_CONSULTATION_SOCIAL=["social"]
+OVIS_PREPROC_PREV_CONSULTATION_PSYCHO=["psycho"]
+OVIS_PREPROC_PREV_CONSULTATION_GENETIC=["genetic"]
+
+# Tumorboard patterns (regex)
+OVIS_PREPROC_TUMORBOARD_PATTERN_PRAE=prae|prä|pre
+OVIS_PREPROC_TUMORBOARD_PATTERN_POST=post
+OVIS_PREPROC_TUMORBOARD_PATTERN_MTB=mtb
+
+# ECOG and distress
+OVIS_PREPROC_ECOG_PREFIX=ECOG
+OVIS_PREPROC_DISTRESS_TYPE=distress
+OVIS_PREPROC_DISTRESS_POSITIVE_VALUES=["Positiv"]
+
+
 idManagementSetup
 mtbaSetup
 obds2fhirRestSetup
@@ -34,4 +167,4 @@ do
     source $module
 done
 
-transfairSetup
+transfairSetup