test: fix two smokes broken by combining the #3649 repair PRs

tests/composable-caller-containment-smoke.php

@@ -13,6 +13,30 @@
 }
 
 define( 'ABSPATH', __DIR__ );
+
+/**
+ * Whether a process is still running.
+ *
+ * An orphan reparented to a non-reaping subreaper (common under CI runners)
+ * stays a zombie after it exits, and signal 0 still succeeds on zombies.
+ *
+ * @param int $pid Process ID.
+ * @return bool
+ */
+function datamachine_compose_containment_is_running( int $pid ): bool {
+	if ( ! @posix_kill( $pid, 0 ) ) {
+		return false;
+	}
+
+	$stat = @file_get_contents( "/proc/{$pid}/stat" );
+	if ( false === $stat ) {
+		return true;
+	}
+
+	// The state field follows the parenthesized command name.
+	$state = substr( (string) strrchr( $stat, ')' ), 2, 1 );
+	return 'Z' !== $state && 'X' !== $state;
+}
 require_once dirname( __DIR__ ) . '/inc/Cli/CallerLivenessMonitor.php';
 
 use DataMachine\Cli\CallerLivenessMonitor;
@@ -73,7 +97,7 @@
 
 $deadline = microtime( true ) + 4.0;
 do {
-	if ( ! @posix_kill( $compose_pid, 0 ) && ! @posix_kill( $worker_pid, 0 ) ) {
+	if ( ! datamachine_compose_containment_is_running( $compose_pid ) && ! datamachine_compose_containment_is_running( $worker_pid ) ) {
 		@unlink( $state_file );
 		echo "OK (compose process group terminated after caller death)\n";
 		exit( 0 );

tests/flow-formatter-loaded-settings-display-smoke.php

@@ -35,33 +35,35 @@ function do_action( string $hook, ...$args ): void {
 		}
 	}
 
-	if ( ! function_exists( 'apply_filters' ) ) {
-		function apply_filters( string $hook, $value, ...$args ) {
-			if ( 'datamachine_step_types' === $hook ) {
-				return array(
-					'fetch'   => array(
-						'uses_handler'          => true,
-						'multi_handler'         => false,
-						'show_settings_display' => true,
-					),
-					'publish' => array(
-						'uses_handler'          => true,
-						'multi_handler'         => true,
-						'show_settings_display' => true,
-					),
-				);
-			}
-
-			if ( 'datamachine_handler_settings' === $hook ) {
-				$handler_slug = $args[0] ?? '';
-				return array(
-					$handler_slug => new FlowFormatterLoadedConfigSettings(),
-				);
-			}
-
-			return $value;
+	// The shared smoke stubs own apply_filters(); register this smoke's step
+	// types and handler settings through the stubbed filter registry.
+	add_filter(
+		'datamachine_step_types',
+		static function () {
+			return array(
+				'fetch'   => array(
+					'uses_handler'          => true,
+					'multi_handler'         => false,
+					'show_settings_display' => true,
+				),
+				'publish' => array(
+					'uses_handler'          => true,
+					'multi_handler'         => true,
+					'show_settings_display' => true,
+				),
+			);
 		}
-	}
+	);
+	add_filter(
+		'datamachine_handler_settings',
+		static function ( $value, $handler_slug = '' ) {
+			return array(
+				$handler_slug => new FlowFormatterLoadedConfigSettings(),
+			);
+		},
+		10,
+		2
+	);
 
 	if ( ! function_exists( 'get_option' ) ) {
 		function get_option( string $option, $default = false ) {

tests/runtime-vocabulary-smoke.php

@@ -79,6 +79,8 @@ function datamachine_runtime_vocab_is_allowed_file( string $relative_path ): boo
 		'tests/ai-concurrency-release-wakeup-smoke.php',
 		'tests/agent-daily-memory-pipeline-scope-smoke.php',
 		'tests/eslint-source-inventory-smoke.sh',
+		'tests/cli-global-options-smoke.php',
+		'tests/email-multi-inbox-forward-smoke.php',
 		'tests/phpunit-file-isolation-smoke.php',
 		'tests/typed-artifact-handler-smoke.php',
 		'tests/fuzz/README.md',
@@ -94,6 +96,28 @@ function datamachine_runtime_vocab_is_allowed_file( string $relative_path ): boo
 	return str_starts_with( $relative_path, '.github/workflows/' );
 }
 
+/**
+ * Git-tracked first-party paths, or null when git is unavailable.
+ *
+ * Runners drop untracked files into the checkout (for example `.homeboy-bin/`
+ * and shard plans). Those belong to the host, not to first-party source.
+ *
+ * @param string $root Repository root.
+ * @return array<string, true>|null
+ */
+function datamachine_runtime_vocab_tracked_files( string $root ): ?array {
+	$output = array();
+	$status = 1;
+	exec( 'git -C ' . escapeshellarg( $root ) . ' ls-files 2>/dev/null', $output, $status ); // phpcs:ignore WordPress.PHP.DiscouragedPHPFunctions.system_calls_exec -- CLI-only smoke reads the git index.
+	if ( 0 !== $status || array() === $output ) {
+		return null;
+	}
+
+	return array_fill_keys( $output, true );
+}
+
+$tracked_files = datamachine_runtime_vocab_tracked_files( $root );
+
 $host_specific_patterns = array(
 	'wp-site-generator' => '/wp-site-generator/i',
 	'wpsg'              => '/\bwpsg\b/i',
@@ -125,6 +149,11 @@ function ( SplFileInfo $file ) use ( $root ): bool {
 		continue;
 	}
 
+	// Vendored Agents API tests are scanned on purpose; other untracked files are runner output.
+	if ( null !== $tracked_files && ! isset( $tracked_files[ $relative_path ] ) && ! str_starts_with( $relative_path, 'vendor/' ) ) {
+		continue;
+	}
+
 	$contents = file_get_contents( $path );
 	if ( false === $contents ) {
 		continue;