fix more tests

EBIvariation · Oct 17, 2024 · f361ec1 · f361ec1
1 parent 96050a0
commit f361ec1
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Showing 4 changed files with 4 additions and 5 deletions.
diff --git a/tests/consequence_prediction/structural_variants/test_structural_pipeline.py b/tests/consequence_prediction/structural_variants/test_structural_pipeline.py
@@ -26,7 +26,6 @@ def run_pipeline(resource_name, include_transcripts=False):
 
 def test_successful_run():
     assert sorted(run_pipeline('precise_genomic.xml.gz')) == sorted([
-        ['NC_000016.10:g.72059151_72063259del', 'ENSG00000140830', 'TXNL4B', 'intron_variant'],
         ['NC_000016.10:g.72059151_72063259del', 'ENSG00000257017', 'HP', 'stop_lost'],
         ['NC_000016.10:g.72059151_72063259del', 'ENSG00000261701', 'HPR', 'feature_truncation'],
         ['NC_000001.11:g.25271785_25329047del', 'ENSG00000117616', 'RSRP1', 'intron_variant'],
@@ -37,7 +36,7 @@ def test_successful_run():
 
 def test_successful_run_with_transcripts():
     results = run_pipeline('precise_genomic.xml.gz', include_transcripts=True)
-    assert len(results) == 28
+    assert len(results) == 27
     assert ['NC_000001.11:g.25271785_25329047del', 'ENSG00000187010', 'RHD', 'stop_lost', 'ENST00000454452'] in results
 
 

diff --git a/tests/output_generation/resources/expected_genetics_evidence_string.json b/tests/output_generation/resources/expected_genetics_evidence_string.json
@@ -22,9 +22,9 @@
   "releaseDate": "2013-04-04",
   "studyId": "RCV000002127",
   "targetFromSourceId": "ENSG00000139988",
+  "variantFromSourceId": "VCV000002046",
   "variantFunctionalConsequenceId": "SO_0001583",
   "variantHgvsId": "NC_000014.9:g.67729209A>G",
   "variantId": "14_67729209_A_G",
-  "variantFromSourceId": "VCV000002046",
   "variantRsId": "rs28940313"
 }
diff --git a/tests/output_generation/resources/expected_multiple_names_evidence_string.json b/tests/output_generation/resources/expected_multiple_names_evidence_string.json
@@ -19,9 +19,9 @@
   "releaseDate": "2017-01-13",
   "studyId": "RCV000415158",
   "targetFromSourceId": "ENSG00000139988",
+  "variantFromSourceId": "VCV000374196",
   "variantFunctionalConsequenceId": "SO_0001583",
   "variantHgvsId": "NC_000007.14:g.94423102G>A",
   "variantId": "7_94423102_G_A",
-  "variantFromSourceId": "VCV000374196",
   "variantRsId": "rs1057518967"
 }
diff --git a/tests/output_generation/resources/expected_somatic_evidence_string.json b/tests/output_generation/resources/expected_somatic_evidence_string.json
@@ -22,9 +22,9 @@
   "releaseDate": "2013-04-04",
   "studyId": "RCV000002127",
   "targetFromSourceId": "ENSG00000139988",
+  "variantFromSourceId": "VCV000002046",
   "variantFunctionalConsequenceId": "SO_0001583",
   "variantHgvsId": "NC_000014.9:g.67729209A>G",
   "variantId": "14_67729209_A_G",
-  "variantFromSourceId": "VCV000002046",
   "variantRsId": "rs28940313"
 }