diff --git a/workflow/tests/test_annotate_peaks.py b/workflow/tests/test_annotate_peaks.py
index dcaacbe1628a73343237512269a0239504f75c38..1342a125db90619ff19838d7cfb5c8c1be7b9d69 100644
--- a/workflow/tests/test_annotate_peaks.py
+++ b/workflow/tests/test_annotate_peaks.py
@@ -41,4 +41,4 @@ def test_upsetplot_pairedend():
 def test_annotation_pairedend():
     annotation_file = test_output_path + 'ENCSR729LGA.chipseeker_annotation.tsv'
     assert os.path.exists(annotation_file)
-    assert utils.count_lines(annotation_file) == 25834
+    assert utils.count_lines(annotation_file) == 25494
diff --git a/workflow/tests/test_overlap_peaks.py b/workflow/tests/test_overlap_peaks.py
index 28c859415aea67f98af1ab87ac8a419cbc38b6da..ff61c937f42af911bba8e8e21acde80bd41a592e 100644
--- a/workflow/tests/test_overlap_peaks.py
+++ b/workflow/tests/test_overlap_peaks.py
@@ -44,4 +44,4 @@ def test_overlap_peaks_singleend():
 def test_overlap_peaks_pairedend():
     assert os.path.exists(os.path.join(test_output_path, 'ENCSR729LGA.rejected.narrowPeak'))
     peak_file = test_output_path + 'ENCSR729LGA.replicated.narrowPeak'
-    assert utils.count_lines(peak_file) == 26100
+    assert utils.count_lines(peak_file) == 25758