diff --git a/src/Logger/GitHubAnnotationsLogger.php b/src/Logger/GitHubAnnotationsLogger.php
index bd8d24cfd..b3358e0f1 100644
--- a/src/Logger/GitHubAnnotationsLogger.php
+++ b/src/Logger/GitHubAnnotationsLogger.php
@@ -35,6 +35,7 @@
 
 namespace Infection\Logger;
 
+use function getenv;
 use Infection\Metrics\ResultsCollector;
 use function Safe\shell_exec;
 use function str_replace;
@@ -55,7 +56,10 @@ public function __construct(private readonly ResultsCollector $resultsCollector)
     public function getLogLines(): array
     {
         $lines = [];
-        $projectRootDirectory = trim(shell_exec('git rev-parse --show-toplevel'));
+
+        if (($projectRootDirectory = getenv('GITHUB_WORKSPACE')) === false) {
+            $projectRootDirectory = trim(shell_exec('git rev-parse --show-toplevel'));
+        }
 
         foreach ($this->resultsCollector->getEscapedExecutionResults() as $escapedExecutionResult) {
             $error = [
diff --git a/src/Logger/GitLabCodeQualityLogger.php b/src/Logger/GitLabCodeQualityLogger.php
index c03bcb61a..6eeb1b5b5 100644
--- a/src/Logger/GitLabCodeQualityLogger.php
+++ b/src/Logger/GitLabCodeQualityLogger.php
@@ -35,6 +35,7 @@
 
 namespace Infection\Logger;
 
+use function getenv;
 use Infection\Metrics\ResultsCollector;
 use Infection\Str;
 use function json_encode;
@@ -55,7 +56,10 @@ public function __construct(private readonly ResultsCollector $resultsCollector)
     public function getLogLines(): array
     {
         $lines = [];
-        $projectRootDirectory = trim(shell_exec('git rev-parse --show-toplevel'));
+
+        if (($projectRootDirectory = getenv('CI_PROJECT_DIR')) === false) {
+            $projectRootDirectory = trim(shell_exec('git rev-parse --show-toplevel'));
+        }
 
         foreach ($this->resultsCollector->getEscapedExecutionResults() as $escapedExecutionResult) {
             $lines[] = [
diff --git a/tests/phpunit/Logger/CreateMetricsCalculator.php b/tests/phpunit/Logger/CreateMetricsCalculator.php
index b480ad1b2..8952be8c8 100644
--- a/tests/phpunit/Logger/CreateMetricsCalculator.php
+++ b/tests/phpunit/Logger/CreateMetricsCalculator.php
@@ -48,6 +48,8 @@
 
 trait CreateMetricsCalculator
 {
+    private static $originalFilePrefix = '';
+
     private static function createCompleteMetricsCalculator(): MetricsCalculator
     {
         $calculator = new MetricsCalculator(2);
@@ -191,7 +193,7 @@ private static function createMutantExecutionResult(
             )),
             'a1b2c3',
             MutatorName::getName($mutatorClassName),
-            'foo/bar',
+            self::$originalFilePrefix . 'foo/bar',
             10 - $i,
             20 - $i,
             10 - $i,
@@ -201,4 +203,14 @@ private static function createMutantExecutionResult(
             [],
         );
     }
+
+    private static function setOriginalFilePrefix(string $pathPrefix): void
+    {
+        self::$originalFilePrefix = $pathPrefix;
+    }
+
+    private static function resetOriginalFilePrefix(): void
+    {
+        self::$originalFilePrefix = '';
+    }
 }
diff --git a/tests/phpunit/Logger/GitHubAnnotationsLoggerTest.php b/tests/phpunit/Logger/GitHubAnnotationsLoggerTest.php
index 6d74e94c1..4d044a47d 100644
--- a/tests/phpunit/Logger/GitHubAnnotationsLoggerTest.php
+++ b/tests/phpunit/Logger/GitHubAnnotationsLoggerTest.php
@@ -37,6 +37,7 @@
 
 use Infection\Logger\GitHubAnnotationsLogger;
 use Infection\Metrics\ResultsCollector;
+use Infection\Tests\EnvVariableManipulation\BacksUpEnvironmentVariables;
 use PHPUnit\Framework\Attributes\CoversClass;
 use PHPUnit\Framework\Attributes\DataProvider;
 use PHPUnit\Framework\Attributes\Group;
@@ -46,8 +47,24 @@
 #[CoversClass(GitHubAnnotationsLogger::class)]
 final class GitHubAnnotationsLoggerTest extends TestCase
 {
+    use BacksUpEnvironmentVariables;
     use CreateMetricsCalculator;
 
+    protected function setUp(): void
+    {
+        $this->backupEnvironmentVariables();
+
+        parent::setUp();
+    }
+
+    protected function tearDown(): void
+    {
+        parent::tearDown();
+
+        $this->restoreEnvironmentVariables();
+        self::resetOriginalFilePrefix();
+    }
+
     #[DataProvider('metricsProvider')]
     public function test_it_logs_correctly_with_mutations(
         ResultsCollector $resultsCollector,
@@ -73,4 +90,16 @@ public static function metricsProvider(): iterable
             ],
         ];
     }
+
+    public function test_it_logs_correctly_with_ci_github_workspace(): void
+    {
+        \Safe\putenv('GITHUB_WORKSPACE=/my/project/dir');
+        self::setOriginalFilePrefix('/my/project/dir/');
+
+        $resultsCollector = self::createCompleteResultsCollector();
+
+        $logger = new GitHubAnnotationsLogger($resultsCollector);
+
+        $this->assertStringContainsString('warning file=foo/bar', $logger->getLogLines()[0]);
+    }
 }
diff --git a/tests/phpunit/Logger/GitLabCodeQualityLoggerTest.php b/tests/phpunit/Logger/GitLabCodeQualityLoggerTest.php
index 0b9ecb05d..c2f9162a5 100644
--- a/tests/phpunit/Logger/GitLabCodeQualityLoggerTest.php
+++ b/tests/phpunit/Logger/GitLabCodeQualityLoggerTest.php
@@ -39,6 +39,7 @@
 use Infection\Metrics\ResultsCollector;
 use Infection\Mutant\DetectionStatus;
 use Infection\Mutator\Loop\For_;
+use Infection\Tests\EnvVariableManipulation\BacksUpEnvironmentVariables;
 use const JSON_THROW_ON_ERROR;
 use const PHP_EOL;
 use PHPUnit\Framework\Attributes\CoversClass;
@@ -53,8 +54,24 @@
 #[CoversClass(GitLabCodeQualityLogger::class)]
 final class GitLabCodeQualityLoggerTest extends TestCase
 {
+    use BacksUpEnvironmentVariables;
     use CreateMetricsCalculator;
 
+    protected function setUp(): void
+    {
+        $this->backupEnvironmentVariables();
+
+        parent::setUp();
+    }
+
+    protected function tearDown(): void
+    {
+        parent::tearDown();
+
+        $this->restoreEnvironmentVariables();
+        self::resetOriginalFilePrefix();
+    }
+
     #[DataProvider('metricsProvider')]
     public function test_it_logs_correctly_with_mutations(
         ResultsCollector $resultsCollector,
@@ -130,6 +147,18 @@ public static function metricsProvider(): iterable
         ];
     }
 
+    public function test_it_logs_correctly_with_ci_project_dir(): void
+    {
+        \Safe\putenv('CI_PROJECT_DIR=/my/project/dir');
+        self::setOriginalFilePrefix('/my/project/dir/');
+
+        $resultsCollector = self::createCompleteResultsCollector();
+
+        $logger = new GitLabCodeQualityLogger($resultsCollector);
+
+        $this->assertStringContainsString('"path":"foo\/bar"', $logger->getLogLines()[0]);
+    }
+
     private function assertLoggedContentIs(array $expectedJson, GitLabCodeQualityLogger $logger): void
     {
         $this->assertSame($expectedJson, json_decode($logger->getLogLines()[0], true, JSON_THROW_ON_ERROR));