Fix integration tests

deepbgc/pipeline/classifier.py

@@ -13,7 +13,7 @@ class DeepBGCClassifier(PipelineStep):
     def __init__(self, classifier, score_threshold=0.5):
         if classifier is None or not isinstance(classifier, six.string_types):
             raise ValueError('Expected classifier name or path, got {}'.format(classifier))
-        if os.path.exists(classifier) or os.path.sep in classifier:
+        if (os.path.exists(classifier) or os.path.sep in classifier) and not os.path.isdir(classifier):
             classifier_path = classifier
             # Set classifier name to filename without suffix
             classifier, _ = os.path.splitext(os.path.basename(classifier))

deepbgc/pipeline/detector.py

@@ -16,7 +16,7 @@ def __init__(self, detector, label=None, score_threshold=0.5, merge_max_protein_
         self.score_threshold = score_threshold
         if detector is None or not isinstance(detector, six.string_types):
             raise ValueError('Expected detector name or path, got {}'.format(detector))
-        if os.path.exists(detector) or os.path.sep in detector:
+        if (os.path.exists(detector) or os.path.sep in detector) and not os.path.isdir(detector):
             model_path = detector
             # Set detector name to filename without suffix
             detector, _ = os.path.splitext(os.path.basename(detector))

test/integration/pipeline/test_integration_pfam.py

@@ -26,7 +26,7 @@ def test_integration_pfam_annotator(tmpdir):
     assert pfam.location.start == 249
     assert pfam.location.end == 696
     assert pfam.location.strand == -1
-    assert pfam.qualifiers.get('PFAM_ID') == ['PF00005']
+    assert pfam.qualifiers.get('db_xref') == ['PF00005.26']
     assert pfam.qualifiers.get('locus_tag') == ['AAK73498.1']
     assert pfam.qualifiers.get('description') == ['ABC transporter']
     assert pfam.qualifiers.get('database') == ['Pfam-A.31.0.hmm']