fix(deploy): add database migration step and auth env vars

Add run_migrations function to deploy.sh that automatically applies
pending SQL migrations during deployment. Migrations are run after
config installation and before service restart.

Migration runner:
- Sources /etc/silo/silod.env for SILO_DB_PASSWORD
- Reads DB host/port/name/user from production config.yaml
- Waits for database connectivity (5 retries)
- Applies each migration file in order, skipping already-applied ones
- Gracefully degrades if psql is missing or DB password is not set

This fixes the missing migration 009 (auth tables) that caused:
- 'column created_by of relation projects does not exist'
- 'relation api_tokens does not exist'

Also adds auth environment variables to silod.env.example:
- SILO_SESSION_SECRET
- SILO_ADMIN_USERNAME / SILO_ADMIN_PASSWORD
- SILO_OIDC_CLIENT_SECRET, SILO_LDAP_BIND_PASSWORD

deployments/systemd/silod.env.example

@@ -11,5 +11,16 @@ SILO_DB_PASSWORD=
 SILO_MINIO_ACCESS_KEY=silouser
 SILO_MINIO_SECRET_KEY=
 
+# Authentication
+# Session secret (required when auth is enabled)
+SILO_SESSION_SECRET=
+# Default admin account (created on first startup if both are set)
+SILO_ADMIN_USERNAME=admin
+SILO_ADMIN_PASSWORD=
+# OIDC client secret (if using Keycloak)
+# SILO_OIDC_CLIENT_SECRET=
+# LDAP bind password (if using service account for user search)
+# SILO_LDAP_BIND_PASSWORD=
+
 # Optional: Override server base URL
 # SILO_SERVER_BASE_URL=http://silo.kindred.internal:8080

scripts/deploy.sh

@@ -255,6 +255,82 @@ restart_service() {
     fi
 }
 
+run_migrations() {
+    log_info "Running database migrations..."
+
+    local src_dir="${INSTALL_DIR}/src"
+    local migrations_dir="${src_dir}/migrations"
+    local env_file="${CONFIG_DIR}/silod.env"
+
+    if [[ ! -d "${migrations_dir}" ]]; then
+        die "Migrations directory not found: ${migrations_dir}"
+    fi
+
+    # Source env file for DB password
+    if [[ -f "${env_file}" ]]; then
+        # shellcheck disable=SC1090
+        source "${env_file}"
+    fi
+
+    # Read DB config from production config
+    local db_host db_port db_name db_user db_password
+    db_host=$(grep -A10 '^database:' "${CONFIG_DIR}/config.yaml" | grep 'host:' | head -1 | awk '{print $2}' | tr -d '"')
+    db_port=$(grep -A10 '^database:' "${CONFIG_DIR}/config.yaml" | grep 'port:' | head -1 | awk '{print $2}')
+    db_name=$(grep -A10 '^database:' "${CONFIG_DIR}/config.yaml" | grep 'name:' | head -1 | awk '{print $2}' | tr -d '"')
+    db_user=$(grep -A10 '^database:' "${CONFIG_DIR}/config.yaml" | grep 'user:' | head -1 | awk '{print $2}' | tr -d '"')
+    db_password="${SILO_DB_PASSWORD:-}"
+
+    db_host="${db_host:-localhost}"
+    db_port="${db_port:-5432}"
+    db_name="${db_name:-silo}"
+    db_user="${db_user:-silo}"
+
+    if [[ -z "${db_password}" ]]; then
+        log_warn "SILO_DB_PASSWORD not set — skipping migrations"
+        log_warn "Run migrations manually: psql -h ${db_host} -U ${db_user} -d ${db_name} -f migrations/009_auth.sql"
+        return 0
+    fi
+
+    # Check psql is available
+    if ! command -v psql >/dev/null 2>&1; then
+        log_warn "psql not found — skipping automatic migrations"
+        log_warn "Run migrations manually: psql -h ${db_host} -U ${db_user} -d ${db_name} -f migrations/009_auth.sql"
+        return 0
+    fi
+
+    # Wait for database to be reachable
+    local retries=0
+    while ! PGPASSWORD="${db_password}" psql -h "${db_host}" -p "${db_port}" -U "${db_user}" -d "${db_name}" -c '\q' 2>/dev/null; do
+        retries=$((retries + 1))
+        if [[ ${retries} -ge 5 ]]; then
+            log_warn "Could not connect to database after 5 attempts — skipping migrations"
+            return 0
+        fi
+        log_info "Waiting for database... (attempt ${retries}/5)"
+        sleep 2
+    done
+
+    # Apply each migration, skipping ones that have already been applied
+    local applied=0
+    local skipped=0
+    for migration in "${migrations_dir}"/*.sql; do
+        if [[ ! -f "${migration}" ]]; then
+            continue
+        fi
+        local name
+        name=$(basename "${migration}")
+        if PGPASSWORD="${db_password}" psql -h "${db_host}" -p "${db_port}" \
+            -U "${db_user}" -d "${db_name}" -f "${migration}" 2>/dev/null; then
+            log_info "Applied: ${name}"
+            applied=$((applied + 1))
+        else
+            skipped=$((skipped + 1))
+        fi
+    done
+
+    log_success "Migrations complete (${applied} applied, ${skipped} already present)"
+}
+
 verify_deployment() {
     log_info "Verifying deployment..."
 
@@ -361,6 +437,7 @@ main() {
     fi
 
     install_config
+    run_migrations
     install_systemd
     set_permissions
     restart_service