Transform Xdebug driver response to consistent structure

Add branch coverage flags to Command and Runner

Author: jmrieger

src/Driver/Xdebug.php

@@ -86,14 +86,21 @@ public function setDetermineBranchCoverage(bool $flag): void
     private function cleanup(array $data): array
     {
         foreach (\array_keys($data) as $file) {
-            unset($data[$file][0]);
+            if (!isset($data[$file]['lines'])) {
+                $data[$file] = ['lines' => $data[$file]];
+            }
+            if (!isset($data[$file]['functions'])) {
+                $data[$file]['functions'] = [];
+            }
+
+            unset($data[$file]['lines'][0]);
 
             if (\strpos($file, 'xdebug://debug-eval') !== 0 && \file_exists($file)) {
                 $numLines = $this->getNumberOfLinesInFile($file);
 
-                foreach (\array_keys($data[$file]) as $line) {
+                foreach (\array_keys($data[$file]['lines']) as $line) {
                     if ($line > $numLines) {
-                        unset($data[$file][$line]);
+                        unset($data[$file]['lines'][$line]);
                     }
                 }
             }