remove wildcards from all paths

workflow/tests/test_fastqc.py

@@ -6,10 +6,8 @@ from io import StringIO
 import os
 
 test_output_path = os.path.dirname(os.path.abspath(__file__)) + \
-                '/../output/misc/fastqc/**/**/'
+                '/../output/misc/fastqc/run/cellranger-tiny-bcl-1_2_0/'
 
 @pytest.mark.fastqc
 def test_fastqc():
-    fastqcs = glob.glob('/../output/misc/fastqc/*/*/*fastqc.zip', recursive=True)
-    for f in fastqcs:
-        assert os.path.exists(os.path.join(test_output_path, f))
+    assert os.path.exists(test_output_path)

workflow/tests/test_mkfastq.py

@@ -7,10 +7,8 @@ import os
 import glob
 
 test_output_path = os.path.dirname(os.path.abspath(__file__)) + \
-		'/../output/mkfastq/**/outs/fastq_path/**/**/'
+		'/../output/mkfastq/cellranger-tiny-bcl-1_2_0/outs/'
 
 @pytest.mark.mkfastq
 def test_mkfastq():
-    fastqcs = glob.glob('/../output/mkfastq/*/outs/fastq_path/*/*/*.fastq.gz', recursive=True)
-    for f in fastqcs:
-        assert os.path.exists(os.path.join(test_output_path, f))
+    assert os.path.exists(test_output_path)

workflow/tests/test_multiqc.py

@@ -6,7 +6,7 @@ from io import StringIO
 import os
 
 test_output_path = os.path.dirname(os.path.abspath(__file__)) + \
-                '/../output/multiqc/**/'
+                '/../output/multiqc/run/'
 
 @pytest.mark.multiqc
 def test_multiqc():

workflow/tests/test_untarBCL.py

@@ -6,7 +6,7 @@ from io import StringIO
 import os
 
 test_output_path = os.path.dirname(os.path.abspath(__file__)) + \
-                '/../output/untarBCL/**/'
+                '/../output/untarBCL/cellranger-tiny-bcl-1_2_0/'
 
 @pytest.mark.untarBCL
 def test_untarBCL():

workflow/tests/test_versions.py

@@ -6,7 +6,7 @@ from io import StringIO
 import os
 
 test_output_path = os.path.dirname(os.path.abspath(__file__)) + \
-                '/../output/misc/versions/**/'
+                '/../output/misc/versions/run/'
 
 @pytest.mark.versions
 def test_versions():