Preparing for 0.3.0 release

.github/workflows/codeql-analysis.yml

@@ -0,0 +1,67 @@
+# For most projects, this workflow file will not need changing; you simply need
+# to commit it to your repository.
+#
+# You may wish to alter this file to override the set of languages analyzed,
+# or to provide custom queries or build logic.
+#
+# ******** NOTE ********
+# We have attempted to detect the languages in your repository. Please check
+# the `language` matrix defined below to confirm you have the correct set of
+# supported CodeQL languages.
+#
+name: "CodeQL"
+
+on:
+  push:
+    branches: [ master ]
+  pull_request:
+    # The branches below must be a subset of the branches above
+    branches: [ master ]
+  schedule:
+    - cron: '18 6 * * 6'
+
+jobs:
+  analyze:
+    name: Analyze
+    runs-on: ubuntu-latest
+
+    strategy:
+      fail-fast: false
+      matrix:
+        language: [ 'javascript', 'python' ]
+        # CodeQL supports [ 'cpp', 'csharp', 'go', 'java', 'javascript', 'python' ]
+        # Learn more:
+        # https://docs.github.com/en/free-pro-team@latest/github/finding-security-vulnerabilities-and-errors-in-your-code/configuring-code-scanning#changing-the-languages-that-are-analyzed
+
+    steps:
+    - name: Checkout repository
+      uses: actions/checkout@v2
+
+    # Initializes the CodeQL tools for scanning.
+    - name: Initialize CodeQL
+      uses: github/codeql-action/init@v1
+      with:
+        languages: ${{ matrix.language }}
+        # If you wish to specify custom queries, you can do so here or in a config file.
+        # By default, queries listed here will override any specified in a config file.
+        # Prefix the list here with "+" to use these queries and those in the config file.
+        # queries: ./path/to/local/query, your-org/your-repo/queries@main
+
+    # Autobuild attempts to build any compiled languages  (C/C++, C#, or Java).
+    # If this step fails, then you should remove it and run the build manually (see below)
+    - name: Autobuild
+      uses: github/codeql-action/autobuild@v1
+
+    # ℹ️ Command-line programs to run using the OS shell.
+    # 📚 https://git.io/JvXDl
+
+    # ✏️ If the Autobuild fails above, remove it and uncomment the following three lines
+    #    and modify them (or add more) to build your code if your project
+    #    uses a compiled language
+
+    #- run: |
+    #   make bootstrap
+    #   make release
+
+    - name: Perform CodeQL Analysis
+      uses: github/codeql-action/analyze@v1

Changelog.md

@@ -1,6 +1,14 @@
+# 0.3.0
+
+ * Added support for itemsource interface, allowing s3 hosting
+ * Removed support for http file uploads
+ * Only set wsgi.url_scheme when EXTERNAL_PROTOCOL is set (see issue #43) 
+ * Dropped flake8 due to conflicts with black
+ * Added code coverage metrics
+
 # 0.2.3
 
-* Added support for ProxyFix
+ * Added support for ProxyFix
 
 # 0.2.2
 

cellxgene_gateway/__init__.py

@@ -7,4 +7,4 @@
 # OR CONDITIONS OF ANY KIND, either express or implied. See the License for
 # the specific language governing permissions and limitations under the License.
 
-__version__ = "0.2.3"
+__version__ = "0.3.0"

cellxgene_gateway/env.py

@@ -20,7 +20,7 @@ external_host = os.environ.get(
     os.environ.get("GATEWAY_HOST", f"localhost:{gateway_port}"),
 )
 external_protocol = os.environ.get(
-    "EXTERNAL_PROTOCOL", os.environ.get("GATEWAY_PROTOCOL", "http")
+    "EXTERNAL_PROTOCOL", os.environ.get("GATEWAY_PROTOCOL", None)
 )
 ip = os.environ.get("GATEWAY_IP")
 extra_scripts = os.environ.get("GATEWAY_EXTRA_SCRIPTS")

cellxgene_gateway/gateway.py

@@ -46,7 +46,8 @@ default_item_source = None
 
 def _force_https(app):
     def wrapper(environ, start_response):
-        environ["wsgi.url_scheme"] = env.external_protocol
+        if env.external_protocol is not None:
+            environ["wsgi.url_scheme"] = env.external_protocol
         return app(environ, start_response)
 
     return wrapper