Fix tests.

.gitlab-ci.yml

@@ -48,7 +48,7 @@ single_end_diff:
     - master
   script:
   - nextflow run workflow/main.nf --designFile "$CI_PROJECT_DIR/test_data/design_diff_SE.txt" --genome 'GRCm38' -resume
-  - pytest -m singlediff singlediff_true
+  - pytest -m singlediff
   artifacts:
     expire_in: 2 days
 
@@ -72,6 +72,6 @@ single_end_skip:
     - master
   script:
   - nextflow run workflow/main.nf --designFile "$CI_PROJECT_DIR/test_data/design_diff_SE.txt" --genome 'GRCm38' --skipDiff true --skipMotif true -resume
-  - pytest -m singlediff singleskip_true
+  - pytest -m singleskip_true
   artifacts:
     expire_in: 2 days

workflow/tests/test_diff_peaks.py

@@ -10,7 +10,6 @@ test_output_path = os.path.dirname(os.path.abspath(__file__)) + \
                 '/../output/diffPeaks/'
 
 
-@pytest.mark.singleend
 @pytest.mark.singleskip_true
 def test_diff_peaks_singleend_single_rep():
     assert os.path.isdir(test_output_path) == False
@@ -21,22 +20,22 @@ def test_diff_peaks_pairedend_single_rep():
     assert os.path.isdir(test_output_path) == False
 
 
-@pytest.mark.singlediff_true
+@pytest.mark.singlediff
 def test_heatmap_singleend_multiple_rep():
     assert os.path.exists(os.path.join(test_output_path, 'heatmap.pdf'))
 
 
-@pytest.mark.singlediff_true
+@pytest.mark.singlediff
 def test_pca_singleend_multiple_rep():
     assert os.path.exists(os.path.join(test_output_path, 'pca.pdf'))
 
 
-@pytest.mark.singlediff_true
+@pytest.mark.singlediff
 def test_normcount_singleend_multiple_rep():
     assert os.path.exists(os.path.join(test_output_path, 'normcount_peaksets.txt'))
 
 
-@pytest.mark.singlediff_true
+@pytest.mark.singlediff
 def test_diffbind_singleend_multiple_rep():
     if os.path.isfile(os.path.join(test_output_path, 'ENCSR272GNQ_vs_ENCSR238SGC_diffbind.bed')):
         assert os.path.exists(os.path.join(test_output_path, 'ENCSR272GNQ_vs_ENCSR238SGC_diffbind.bed'))