Merge pull request #2 from virtualcell/notebooks

add additional notebooks to demonstrate pyvcell potential

Author: jcschaff

.gitignore

@@ -173,3 +173,6 @@ test_output_1/
 .python-version
 
 **/.DS_Store
+/.venv_jupyter/
+
+examples/test_output/SimID_*

.pre-commit-config.yaml

@@ -7,7 +7,9 @@ repos:
       - id: check-toml
       - id: check-yaml
       - id: end-of-file-fixer
+        exclude: "examples/.*"
       - id: trailing-whitespace
+        exclude: "examples/.*"
 
   - repo: https://github.com/astral-sh/ruff-pre-commit
     rev: "v0.5.2"

Makefile

@@ -14,7 +14,7 @@ check: ## Run code quality tools.
 	@echo "🚀 Static type checking: Running mypy"
 	@poetry run mypy
 	@echo "🚀 Checking for obsolete dependencies: Running deptry"
-	@poetry run deptry --exclude .venv .
+	@poetry run deptry --exclude=.venv --exclude=.venv_jupyter --exclude=examples .
 
 .PHONY: test
 test: ## Test the code with pytest