Updated helix.spark image version to latest 3.5.1.5, and helix Spark pkgs

.github/workflows/build_and_test.yml

@@ -18,7 +18,7 @@ jobs:
       - uses: actions/checkout@v3
       - uses: actions/setup-python@v3
         with:
-          python-version: '3.10'
+          python-version: '3.12'
 
       # show docker version
       - name: show docker version

.github/workflows/python-publish.yml

@@ -17,7 +17,7 @@ jobs:
     - name: Set up Python
       uses: actions/setup-python@v3
       with:
-        python-version: '3.10'
+        python-version: '3.12'
     - name: Install dependencies
       run: |
         python -m pip install --upgrade pip

Pipfile

@@ -14,11 +14,12 @@ pyspark = "==3.5.1"
 pyarrow=">=17.0.0"
 # delta-spark is needed for Delta Lake
 delta-spark="==3.2.0"
-Deprecated = ">=1.2.12"
+# Deprecated is needed for marking deprecated functions
+Deprecated = ">=1.2.13"
 # helix.fhir.client.sdk is needed for interacting with FHIR servers
-"helix.fhir.client.sdk" = ">=3.0.2"
+"helix.fhir.client.sdk" = ">=3.0.4"
 # helix-mockserver-client is needed for mocking servers
-helix-mockserver-client=">=2.0.0"
+helix-mockserver-client=">=2.0.1"
 
 [dev-packages]
 # setuptools is needed for building the package
@@ -47,23 +48,26 @@ pyspark="==3.5.1"  # should match the version of spark we use for testing
 pygments=">=2.18.0" # not directly required, pinned by Snyk to avoid a vulnerability
 types-Deprecated=">=0.1.2"
 # sparkautomapper is needed for mapping data
-sparkautomapper = "==3.0.0"
+sparkautomapper = "==3.0.1"
 # sparkautomapper.fhir is needed for mapping FHIR data
-"sparkautomapper.fhir" = "==3.0.0"
+"sparkautomapper.fhir" = "==3.0.1"
 # sparkfhirschemas is needed for FHIR schemas
-"sparkfhirschemas" = "==2.0.0"
+"sparkfhirschemas" = "==2.0.2"
 # sparkpipelineframework is needed for building pipelines
-sparkpipelineframework = "==3.0.4"
+sparkpipelineframework = "==3.0.8"
 # sparkdataframecomparer is needed for comparing Spark DataFrames
-"sparkdataframecomparer" = "==2.0.5"
+"sparkdataframecomparer" = "==2.0.6"
 # requests is needed for making HTTP requests
 requests = ">=2.31.0"
 dictdiffer = ">=0.9.0"
-# for creating documentation
-Sphinx="==8.0.2"
+# Sphinx is needed for generating documentation
+Sphinx="==7.4.7"
+# sphinx-autoapi is needed for generating API documentation
 sphinx-autoapi="==3.2.1"
-sphinx-rtd-theme=">=0.5.1"
-myst-parser="==4.0.0"
+# sphinx-rtd-theme is needed for the Read the Docs theme
+sphinx-rtd-theme="==2.0.0"
+# myst-parser is needed for parsing Markdown
+myst-parser="==3.0.1"
 recommonmark="==0.7.1"
 # types-requests is needed for type hints for requests
 types-requests=">=2.31.0"