diff --git a/internal/tool/tool.go b/internal/tool/tool.go
index 8e170ec..aa87c8e 100644
--- a/internal/tool/tool.go
+++ b/internal/tool/tool.go
@@ -95,6 +95,10 @@ func (t codacyTrivy) runVulnerabilityScanning(ctx context.Context, toolExecution
 			SkipDBUpdate:     true,
 			SkipJavaDBUpdate: true,
 		},
+		PackageOptions: flag.PackageOptions{
+			// Only scan libraries not OS packages.
+			PkgTypes: []string{types.PkgTypeLibrary},
+		},
 		ReportOptions: flag.ReportOptions{
 			// Listing all packages will allow to obtain the line number of a vulnerability.
 			ListAllPkgs: true,
@@ -107,10 +111,6 @@ func (t codacyTrivy) runVulnerabilityScanning(ctx context.Context, toolExecution
 			// Then filter issues from files that were not supposed to be analysed.
 			Target: toolExecution.SourceDir,
 		},
-		VulnerabilityOptions: flag.VulnerabilityOptions{
-			// Only scan libraries not OS packages.
-			VulnType: []types.VulnType{types.VulnTypeLibrary},
-		},
 	}
 
 	runner, err := t.runnerFactory.NewRunner(ctx, config)
diff --git a/internal/tool/tool_test.go b/internal/tool/tool_test.go
index 0c076d4..57df35c 100644
--- a/internal/tool/tool_test.go
+++ b/internal/tool/tool_test.go
@@ -60,6 +60,9 @@ func TestRun(t *testing.T) {
 			SkipDBUpdate:     true,
 			SkipJavaDBUpdate: true,
 		},
+		PackageOptions: flag.PackageOptions{
+			PkgTypes: []string{types.PkgTypeLibrary},
+		},
 		ReportOptions: flag.ReportOptions{
 			ListAllPkgs: true,
 		},
@@ -68,9 +71,6 @@ func TestRun(t *testing.T) {
 			Scanners:    types.Scanners{types.VulnerabilityScanner},
 			Target:      sourceDir,
 		},
-		VulnerabilityOptions: flag.VulnerabilityOptions{
-			VulnType: []types.VulnType{types.VulnTypeLibrary},
-		},
 	}
 
 	report := types.Report{
@@ -293,6 +293,9 @@ func TestRunScanFilesystemError(t *testing.T) {
 			SkipDBUpdate:     true,
 			SkipJavaDBUpdate: true,
 		},
+		PackageOptions: flag.PackageOptions{
+			PkgTypes: []string{types.PkgTypeLibrary},
+		},
 		ReportOptions: flag.ReportOptions{
 			ListAllPkgs: true,
 		},
@@ -301,9 +304,6 @@ func TestRunScanFilesystemError(t *testing.T) {
 			Scanners:    types.Scanners{types.VulnerabilityScanner},
 			Target:      sourceDir,
 		},
-		VulnerabilityOptions: flag.VulnerabilityOptions{
-			VulnType: []types.VulnType{types.VulnTypeLibrary},
-		},
 	}
 
 	mockRunner := NewMockRunner(ctrl)