feat: Add notebook that converts raw data to HF

makefile

@@ -37,14 +37,11 @@ help:
 install: ## Install dependencies
 	@echo "Installing the 'foqa' project..."
 	@$(MAKE) --quiet install-brew
-	@$(MAKE) --quiet install-gpg
-	@$(MAKE) --quiet generate-gpg-key
 	@$(MAKE) --quiet install-pipx
 	@$(MAKE) --quiet install-poetry
 	@$(MAKE) --quiet install-dependencies
 	@$(MAKE) --quiet setup-environment-variables
 	@$(MAKE) --quiet setup-git
-	@$(MAKE) --quiet add-repo-to-git
 	@echo "Installed the 'foqa' project. You can now activate your virtual environment with 'source .venv/bin/activate'."
 	@echo "Note that this is a Poetry project. Use 'poetry add <package>' to install new dependencies and 'poetry remove <package>' to remove them."
 
@@ -54,30 +51,6 @@ install-brew:
 		echo "Installed Homebrew."; \
 	fi
 
-install-gpg:
-	@if [ "$(shell which gpg)" = "" ] || [ "$(shell which gpg-agent)" = "" ]; then \
-		uname=$$(uname); \
-			case $${uname} in \
-				(*Linux*) distro=$$(lsb_release -i | sed 's/Distributor ID:\t//'); \
-					case $${distro} in \
-						(*Ubuntu*) installCmd='apt-get update && apt-get install -y gnupg gpg-agent'; ;; \
-						(*CentOS*) installCmd='yum install -y gnupg gpg-agent'; ;; \
-						(*) echo 'Could not automatically install gnupg for the $${distro} distribution. Please manually install gnupg and try again.'; exit 2; ;; \
-					esac; ;; \
-				(*Darwin*) installCmd='brew install gnupg pinentry-mac'; ;; \
-				(*) echo 'Could not automatically install gnupg. Please manually install gnupg and try again.'; exit 2; ;; \
-			esac; \
-			"$${installCmd}"; \
-		echo "Installed gnupg."; \
-	fi
-
-generate-gpg-key:
-	@if [ "$(shell gpg --list-secret-keys --keyid-format=long | grep sec | sed -E 's/.*\/([^ ]+).*/\1/')" = "" ]; then \
-		echo "Generating a new GPG key - please follow the prompts."; \
-		gpg --full-generate-key; \
-		echo "Generated a new GPG key. Remember to register it to Github at https://github.com/settings/gpg/new, where you add the key generated by running 'gpg --armor --export <key>'"; \
-	fi
-
 install-pipx:
 	@if [ "$(shell which pipx)" = "" ]; then \
 		uname=$$(uname); \
@@ -99,7 +72,7 @@ install-poetry:
     fi
 
 install-dependencies:
-	@poetry env use python3.11 && poetry install
+	@poetry env use python3.11 && poetry install -E notebook
 
 setup-environment-variables:
 	@poetry run python src/scripts/fix_dot_env_file.py
@@ -112,27 +85,8 @@ setup-git:
 	@git init
 	@git config --local user.name ${GIT_NAME}
 	@git config --local user.email ${GIT_EMAIL}
-	@if [ ${GPG_KEY_ID} = "" ]; then \
-		echo "No GPG key ID specified. Skipping GPG signing."; \
-		git config --local commit.gpgsign false; \
-	else \
-		git config --local commit.gpgsign true; \
-		git config --local user.signingkey ${GPG_KEY_ID}; \
-		echo "Signed with GPG key ID ${GPG_KEY_ID}."; \
-	fi
 	@poetry run pre-commit install
 
-add-repo-to-git:
-	@export GPG_TTY=$(tty)
-	@gpgconf --kill gpg-agent
-	@if [ ! "$(shell git status --short)" = "" ] && [ "$(shell git log --all)" = "" ]; then \
-		git add .; \
-		git commit --quiet -m "Initial commit"; \
-	fi
-	@if [ "$(shell git remote)" = "" ]; then \
-		git remote add origin [email protected]:alexandrainst/foqa.git; \
-	fi
-
 docs:  ## Generate documentation
 	@poetry run pdoc --docformat google src/foqa -o docs
 	@echo "Saved documentation."