Added makefile advances #2

Makefile

@@ -0,0 +1,61 @@
+# Enhanced Makefile for managing the Conda environment tda-nn-separability
+
+# Parameters
+ENV_NAME := tda-nn-separability
+PYTHON_VERSION := 3.11
+ENV_FILE := environment.yaml
+
+# Default goal
+.PHONY: all
+all: init install export
+
+# Check if the conda command is available
+CONDA := $(shell command -v conda 2> /dev/null)
+
+# Initialize the Conda environment
+.PHONY: init
+init:
+ifndef CONDA
+	$(error "conda is not available, please install Miniconda or Anaconda.")
+endif
+	@echo "Creating the Conda environment if it doesn't exist..."
+	@conda env list | grep -q '^$(ENV_NAME) ' || \
+	conda create --yes --name $(ENV_NAME) python=$(PYTHON_VERSION)
+
+# Install packages from an environment file or manually specified
+.PHONY: install
+install: init
+	@echo "Installing necessary packages into the Conda environment..."
+	@if [ -f "$(ENV_FILE)" ]; then \
+		echo "Using $(ENV_FILE) to install packages..."; \
+		conda env update --name $(ENV_NAME) --file $(ENV_FILE) --prune; \
+	else \
+		echo "No $(ENV_FILE) found. Installing default packages..."; \
+		conda run --name $(ENV_NAME) conda install --yes numpy pandas scipy matplotlib; \
+	fi
+
+# Export the current environment to a YAML file, excluding build-specific fields
+.PHONY: export
+export:
+	@echo "Exporting the Conda environment to $(ENV_FILE)..."
+	@conda env export --name $(ENV_NAME) --no-builds | grep -v "^prefix: " > $(ENV_FILE)
+
+# Update all packages in the Conda environment
+.PHONY: update
+update: init
+	@echo "Updating all packages in the Conda environment..."
+	@conda run --name $(ENV_NAME) conda update --all --yes
+
+# Run tests using pytest within the Conda environment
+.PHONY: test
+test: init
+	@echo "Running tests..."
+	pytest tests -v
+
+# Clean up __pycache__ directories and *.pyc files
+.PHONY: clean
+clean:
+	@echo "Cleaning up __pycache__ directories and *.pyc files..."
+	@find . -type d -name "__pycache__" -exec rm -rf {} + > /dev/null 2>&1
+	@find . -type f -name "*.pyc" -delete > /dev/null 2>&1
+