setup_and_test.sh

#!/usr/bin/env bash
# Bootstrap virtualenv, install dependencies, and run sanity checks for the color deconvolution project.
set -euo pipefail

# Resolve repository root
REPO_DIR="$(cd "$(dirname "${BASH_SOURCE[0]}")" && pwd)"
VENV_DIR="${REPO_DIR}/.venv"

RUN_APP=0
if [[ "${1:-}" == "--run-app" ]]; then
  RUN_APP=1
fi

# Helper for logging
log() { printf '\n[setup] %s\n' "$1"; }

log "Repository: ${REPO_DIR}"

if [ ! -d "${VENV_DIR}" ]; then
  log "Creating virtual environment at ${VENV_DIR}"
  python3 -m venv "${VENV_DIR}"
fi

log "Activating virtual environment"
# shellcheck source=/dev/null
source "${VENV_DIR}/bin/activate"

log "Upgrading pip"
pip install --upgrade pip > /dev/null

log "Installing project dependencies"
pip install -r "${REPO_DIR}/app/requirements.txt"

log "Exporting project on PYTHONPATH"
export PYTHONPATH="${REPO_DIR}:${PYTHONPATH:-}"

log "Running unit tests"
python -m unittest discover -s "${REPO_DIR}/tests"

log "Byte-compiling sources"
python -m compileall "${REPO_DIR}/color_deconvolution.py" "${REPO_DIR}/app"

log "Setup complete. Launch the GUI with:"
log "  source ${VENV_DIR}/bin/activate && PYTHONPATH=${REPO_DIR} python -m app.main"

if (( RUN_APP )); then
  log "Launching GUI"
  PYTHONPATH="${REPO_DIR}:${PYTHONPATH:-}" python -m app.main
fi