Merge pull request #74 from cancervariants/update-gene-normalizer

Update gene normalizer and requirements

Author: korikuzma

requirements-dev.txt

@@ -53,7 +53,7 @@ flake8-docstrings==1.6.0
 flake8==3.9.0
 frozendict==1.2
 ga4gh.vrs[extras]==0.6.4
-gene-normalizer==0.1.3
+gene-normalizer==0.1.4
 gffutils==0.10.1
 h11==0.12.0; python_version >= '3.6'
 hgvs==1.5.1
@@ -117,7 +117,7 @@ pyfaidx==0.5.9.5
 pyflakes==2.3.1; python_version >= '2.7' and python_version not in '3.0, 3.1, 3.2, 3.3'
 pygments==2.8.1; python_version >= '3.5'
 pyparsing==2.4.7; python_version >= '2.6' and python_version not in '3.0, 3.1, 3.2, 3.3'
-pyppeteer==0.2.5; python_full_version >= '3.6.1' and python_full_version < '4.0.0'
+pyppeteer==0.2.5; python_version < '4' and python_full_version >= '3.6.1'
 pyquery==1.4.3
 pyrsistent==0.17.3; python_version >= '3.5'
 pysam==0.16.0.1
@@ -147,7 +147,7 @@ tornado==6.1; python_version >= '3.5'
 tqdm==4.59.0; python_version >= '2.7' and python_version not in '3.0, 3.1, 3.2, 3.3'
 traitlets==5.0.5; python_version >= '3.7'
 typing-extensions==3.7.4.3
-urllib3==1.26.4; python_version >= '2.7' and python_version not in '3.0, 3.1, 3.2, 3.3, 3.4' and python_full_version < '4.0.0'
+urllib3==1.26.4; python_version >= '2.7' and python_version not in '3.0, 3.1, 3.2, 3.3, 3.4' and python_version < '4'
 uvicorn==0.13.4
 uvloop==0.15.2
 vcfpy==0.13.3

requirements.txt

@@ -33,7 +33,7 @@ fake-useragent==0.1.11
 fastapi==0.63.0
 frozendict==1.2
 ga4gh.vrs[extras]==0.6.4
-gene-normalizer==0.1.3
+gene-normalizer==0.1.4
 gffutils==0.10.1
 h11==0.12.0; python_version >= '3.6'
 hgvs==1.5.1
@@ -66,7 +66,7 @@ pyee==8.1.0
 pyfaidx==0.5.9.5
 pygments==2.8.1; python_version >= '3.5'
 pyparsing==2.4.7; python_version >= '2.6' and python_version not in '3.0, 3.1, 3.2, 3.3'
-pyppeteer==0.2.5; python_full_version >= '3.6.1' and python_full_version < '4.0.0'
+pyppeteer==0.2.5; python_version < '4' and python_full_version >= '3.6.1'
 pyquery==1.4.3
 pyrsistent==0.17.3; python_version >= '3.5'
 pysam==0.16.0.1
@@ -86,7 +86,7 @@ tabulate==0.8.9
 tqdm==4.59.0; python_version >= '2.7' and python_version not in '3.0, 3.1, 3.2, 3.3'
 traitlets==5.0.5; python_version >= '3.7'
 typing-extensions==3.7.4.3
-urllib3==1.26.4; python_version >= '2.7' and python_version not in '3.0, 3.1, 3.2, 3.3, 3.4' and python_full_version < '4.0.0'
+urllib3==1.26.4; python_version >= '2.7' and python_version not in '3.0, 3.1, 3.2, 3.3, 3.4' and python_version < '4'
 uvicorn==0.13.4
 uvloop==0.15.2
 vcfpy==0.13.3

variant/normalize.py

@@ -14,7 +14,6 @@ def __init__(self):
         """Initialize Normalize class."""
         if os.getenv('VARIANT_NORM_PROD'):
             environ['GENE_NORM_EB_PROD'] = "true"
-            environ['GENE_NORM_PROD'] = "true"
         self.gene_query_handler = GeneQueryHandler()
 
     def normalize(self, q, validations, amino_acid_cache):