Merge branch 'release/0.1.4'

msk-access · Jun 17, 2022 · f45422e · f45422e
2 parents 32763ba + ce21666
commit f45422e
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Showing 2 changed files with 5 additions and 5 deletions.
diff --git a/postprocessing_variant_calls/vardict/vardict_class.py b/postprocessing_variant_calls/vardict/vardict_class.py
@@ -44,7 +44,7 @@ def __init__(self, inputVcf, outputDir, sampleName, minQual, totalDepth,
         # vcf output name
         self.vcf_out = self.out_name()
         self.txt_out = self.vcf_out + "_STDfilter.txt" 
-        self.vcf_complex_out = self.vcf_out + "_complex_STDfilter.vcf"
+        self.vcf_complex_out = self.vcf_out + "_STDfilter_complex.vcf"
         self.vcf_out = self.vcf_out + "_STDfilter.vcf"
         # vcf reader 
         self.vcf_reader = self.set_reader() 

diff --git a/tests/test_vardict.py b/tests/test_vardict.py
@@ -21,10 +21,10 @@ def test_single(call):
     result.stdout 
     assert result.exit_code == 0
     assert '' in result.stdout
-    assert os.path.exists("tests/data/vardict/single/single_test_complex_STDfilter.vcf") == True
+    assert os.path.exists("tests/data/vardict/single/single_test_STDfilter_complex.vcf") == True
     assert os.path.exists("tests/data/vardict/single/single_test_STDfilter.vcf") == True
     assert os.path.exists("tests/data/vardict/single/single_test_STDfilter.txt") == True
-    os.remove("tests/data/vardict/single/single_test_complex_STDfilter.vcf")
+    os.remove("tests/data/vardict/single/single_test_STDfilter_complex.vcf")
     os.remove("tests/data/vardict/single/single_test_STDfilter.vcf")
     os.remove("tests/data/vardict/single/single_test_STDfilter.txt")
 
@@ -33,10 +33,10 @@ def test_two(call):
     result = runner.invoke(app, call)
     assert result.exit_code == 0
     assert '' in result.stdout
-    assert os.path.exists("tests/data/vardict/two/case_control_test_complex_STDfilter.vcf") == True
+    assert os.path.exists("tests/data/vardict/two/case_control_test_STDfilter_complex.vcf") == True
     assert os.path.exists("tests/data/vardict/two/case_control_test_STDfilter.vcf") == True
     assert os.path.exists("tests/data/vardict/two/case_control_test_STDfilter.txt") == True
-    os.remove("tests/data/vardict/two/case_control_test_complex_STDfilter.vcf")
+    os.remove("tests/data/vardict/two/case_control_test_STDfilter_complex.vcf")
     os.remove("tests/data/vardict/two/case_control_test_STDfilter.vcf")
     os.remove("tests/data/vardict/two/case_control_test_STDfilter.txt")