In response to #75, some requirements have been assigned a fix build in requirements.txt.

Author: Peter Causey-Freeman

REQUIREMENTS.txt

@@ -2,8 +2,6 @@ git+https://github.com/openvar/vv_hgvs@master#egg=vvhgvs
 git+https://github.com/openvar/variantValidator@master#egg=VariantValidator
 git+https://github.com/openvar/variantFormatter@master#egg=VariantFormatter
 biopython
-flask==1.1.1
-flask-restplus
 gunicorn
 biocommons.seqrepo>=0.5.1
 httplib2>=0.9.0
@@ -16,7 +14,12 @@ dicttoxml
 notebook
 jupyter_contrib_nbextensions
 jupyter_nbextensions_configurator
-Werkzeug==0.16.1
 pytest>=3.6
 pytest-cov
-codecov
+codecov
+
+# flask restplus is out of date, requiring these
+flask-restplus
+flask==1.1.1
+Werkzeug==0.16.1
+itsdangerous==2.0.1

docs/DOCKER.md

@@ -54,7 +54,7 @@ $ docker-compose pull
 $ mkdir ~/variantvalidator_data
 $ mkdir ~/variantvalidator_data/share
 ```
-i.e. a directory called share in your home directory
+*i.e.* a directory called `variantvalidator_data/share` in your `home` directory
 
 - Build
 

rest_VariantValidator/endpoints/vijs_endpoints.py

@@ -203,7 +203,7 @@ def get(self, genome_build, variant_description):
 
         # Refresh the content
         refreshed_content = {}
-        if variant_description is "":
+        if variant_description == "":
             refreshed_content = {"error": "Unsupported variant type"}
         else:
             # Validate using the VariantValidator Python Library

setup.py

@@ -46,7 +46,6 @@
     # List run-time dependencies here.  These will be installed by pip when the project is installed.
     install_requires=[
         "werkzeug==0.16.1",
-        "flask",
         "flask-restplus",
         "gunicorn",
         "httplib2>=0.9.0",
@@ -61,6 +60,9 @@
         "VariantFormatter @ git+https://github.com/openvar/variantFormatter.git@master#egg=VariantFormatter",
         "biocommons.seqrepo>=0.5.1",
         "biopython",
+        "flask==1.1.1",
+        "Werkzeug==0.16.1",
+        "itsdangerous==2.0.1",
     ],
     setup_requires=[
         "setuptools_scm",