diff --git a/checkstyle/checkstyle.go b/checkstyle/checkstyle.go
index e81121f..454a367 100644
--- a/checkstyle/checkstyle.go
+++ b/checkstyle/checkstyle.go
@@ -25,6 +25,7 @@
 	"log"
 	"os"
 	"os/exec"
+	"strings"
 )
 
 var checkstylejar = flag.String("checkstylejar", "../tools/antlib/checkstyle-5.7-all.jar", "path to checkstyle jar")
@@ -43,11 +44,23 @@
 }
 
 // ReadXML reads a checkstyle XML report from reader.
-func ReadXML(reader io.Reader) ([]File, error) {
+func ReadXML(reader io.Reader, pathPrefix string) ([]File, error) {
 	var res struct {
 		Files []File `xml:"file"`
 	}
-	return res.Files, xml.NewDecoder(reader).Decode(&res)
+	if err := xml.NewDecoder(reader).Decode(&res); err != nil {
+		return nil, err
+	}
+
+	if !strings.HasSuffix(pathPrefix, "/") {
+		pathPrefix += "/"
+	}
+
+	for i := range res.Files {
+		// Make sure the filenames are relative.
+		res.Files[i].Name = strings.TrimPrefix(res.Files[i].Name, pathPrefix)
+	}
+	return res.Files, nil
 }
 
 // Run runs checkstyle using the specified config against the specified
@@ -57,6 +70,11 @@
 		return []File{}, nil
 	}
 
+	workingDir, err := os.Getwd()
+	if err != nil {
+		return nil, err
+	}
+
 	cmd := exec.Command("java", append([]string{"-cp", *checkstylejar,
 		"-Dcheckstyle.header.file=eclipse/settings/code-style/google.header",
 		"com.puppycrawl.tools.checkstyle.Main", "-f", "xml", "-c", config},
@@ -73,5 +91,5 @@
 	}
 	// TODO(mdempsky): Check cmd.Wait() exit code?
 	defer cmd.Wait()
-	return ReadXML(reader)
+	return ReadXML(reader, workingDir)
 }
diff --git a/checkstyle/checkstyle_test.go b/checkstyle/checkstyle_test.go
index ba7e99c..8db246b 100644
--- a/checkstyle/checkstyle_test.go
+++ b/checkstyle/checkstyle_test.go
@@ -27,7 +27,7 @@
 func TestReadXML(t *testing.T) {
 	input := `
 	  <checkstyle>
-	    <file name="foo">
+	    <file name="/absolute/path/foo">
 	      <error line="15" severity="error" message="hello"/>
 	      <error line="27" severity="warning" message="bye bye"/>
 	    </file>
@@ -48,7 +48,7 @@
 		}},
 	}
 
-	actual, err := checkstyle.ReadXML(strings.NewReader(input))
+	actual, err := checkstyle.ReadXML(strings.NewReader(input), "/absolute/path")
 	if err != nil {
 		t.Error("ReadXML returned failure:", err)
 	}