diff --git a/tests/test_integration.py b/tests/test_integration.py
index 47cee936..28fdf90a 100644
--- a/tests/test_integration.py
+++ b/tests/test_integration.py
@@ -75,7 +75,10 @@ def test_train_and_run(
     assert psms.loc[3, "sequence"] == "LESLLEK"
     assert psms.loc[3, "spectra_ref"] == "ms_run[2]:scan=17"
     assert psms.loc[4, "sequence"] == "PEPTLDEK"
-    assert psms.loc[4, "spectra_ref"] == "ms_run[2]:scan=111"
+    assert (
+        psms.loc[4, "spectra_ref"]
+        == "ms_run[2]:merged=11 frame=12 scanStart=763 scanEnd=787"
+    )
 
     # Finally, try evaluating:
     output_filename = tmp_path / "test-eval.mztab"
diff --git a/tests/unit_tests/test_unit.py b/tests/unit_tests/test_unit.py
index 120e341a..877f6a95 100644
--- a/tests/unit_tests/test_unit.py
+++ b/tests/unit_tests/test_unit.py
@@ -864,7 +864,7 @@ def test_spectrum_id_mgf(mgf_small, tmp_path):
 
 
 def test_spectrum_id_mzml(mzml_small, tmp_path):
-    """Test that spectra from mzML files are specified by their scan number."""
+    """Test that spectra from mzML files are specified by their scan id."""
     mzml_small2 = tmp_path / "mzml_small2.mzml"
     shutil.copy(mzml_small, mzml_small2)
 
@@ -872,15 +872,15 @@ def test_spectrum_id_mzml(mzml_small, tmp_path):
         tmp_path / "index.hdf5", [mzml_small, mzml_small2], overwrite=True
     )
     dataset = SpectrumDataset(index)
-    for i, (filename, scan_nr) in enumerate(
+    for i, (filename, scan_id) in enumerate(
         [
-            (mzml_small, 17),
-            (mzml_small, 111),
-            (mzml_small2, 17),
-            (mzml_small2, 111),
+            (mzml_small, "scan=17"),
+            (mzml_small, "merged=11 frame=12 scanStart=763 scanEnd=787"),
+            (mzml_small2, "scan=17"),
+            (mzml_small2, "merged=11 frame=12 scanStart=763 scanEnd=787"),
         ]
     ):
-        spectrum_id = str(filename), f"scan={scan_nr}"
+        spectrum_id = str(filename), scan_id
         assert dataset.get_spectrum_id(i) == spectrum_id