diff --git a/workflow/tests/test_annotate_peaks.py b/workflow/tests/test_annotate_peaks.py
index 13813505403067eadce9d9c31f6c26b4ae210f2e..0b0d8f12591e72f7f53d597e97615bd150615918 100644
--- a/workflow/tests/test_annotate_peaks.py
+++ b/workflow/tests/test_annotate_peaks.py
@@ -21,8 +21,8 @@ def test_annotate_peaks_singleend():
 
 @pytest.mark.pairedend
 def test_annotate_peaks_pairedend():
-    assert os.path.exists(os.path.join(test_output_path, 'ENCSR217LRF.chipseeker_pie.pdf'))
-    assert os.path.exists(os.path.join(test_output_path, 'ENCSR217LRF.chipseeker_upsetplot.pdf'))
-    annotation_file = test_output_path + 'ENCSR217LRF.chipseeker_annotation.csv'
+    assert os.path.exists(os.path.join(test_output_path, 'ENCSR217LGA.chipseeker_pie.pdf'))
+    assert os.path.exists(os.path.join(test_output_path, 'ENCSR217LGA.chipseeker_upsetplot.pdf'))
+    annotation_file = test_output_path + 'ENCSR217LGA.chipseeker_annotation.csv'
     assert os.path.exists(annotation_file)
-    assert utils.count_lines(annotation_file) == 25390
+    assert utils.count_lines(annotation_file) == 25391
diff --git a/workflow/tests/test_call_peaks_macs.py b/workflow/tests/test_call_peaks_macs.py
index 71358bc045801d23d28b8f7385c5ef9f608347b6..9b22e9e29f0a53a800248eaecf4e1f955b42d7b7 100644
--- a/workflow/tests/test_call_peaks_macs.py
+++ b/workflow/tests/test_call_peaks_macs.py
@@ -21,4 +21,4 @@ def test_call_peaks_macs_pairedend():
     assert os.path.exists(os.path.join(test_output_path, 'ENCLB568IYX.fc_signal.bw'))
     assert os.path.exists(os.path.join(test_output_path, 'ENCLB568IYX.pvalue_signal.bw'))
     peak_file = test_output_path + 'ENCLB568IYX_peaks.narrowPeak'
-    assert utils.count_lines(peak_file) == 112652
+    assert utils.count_lines(peak_file) == 138827
diff --git a/workflow/tests/test_diff_peaks.py b/workflow/tests/test_diff_peaks.py
index ad66c4a1a667110790e5de626dbdad7820751888..1d48b6182efd600400b8d2032732dfbb62b704e7 100644
--- a/workflow/tests/test_diff_peaks.py
+++ b/workflow/tests/test_diff_peaks.py
@@ -33,7 +33,7 @@ def test_annotate_peaks_pairedend_single_rep():
     assert os.path.exists(os.path.join(test_output_path, 'heatmap.pdf'))
     assert os.path.exists(os.path.join(test_output_path, 'pca.pdf'))
     assert os.path.exists(os.path.join(test_output_path, 'normcount_peaksets.txt'))
-    assert os.path.exists(os.path.join(test_output_path, 'ENCSR729LGA_vs_ENCSR757EMK_diffbind.bed'))
-    diffbind_file = test_output_path + 'ENCSR729LGA_vs_ENCSR757EMK_diffbind.csv'
+    assert os.path.exists(os.path.join(test_output_path, 'ENCSR757EMK_vs_ENCSR729LGA_diffbind.bed'))
+    diffbind_file = test_output_path + 'ENCSR757EMK_vs_ENCSR729LGA_diffbind.csv'
     assert os.path.exists(diffbind_file)
-    assert utils.count_lines(diffbind_file) == 112652
+    assert utils.count_lines(diffbind_file) == 66201