.gitignore

# Ignore Nextflow-specific files, including logs, cache, and temporary files
.nextflow*

# Ignore Nextflow's work directory where intermediate files are stored
work/

# Ignore results directory, as this is typically generated output that can be large and recreated
results/

# MacOS specific hidden file that stores folder view settings
.DS_Store

testing/
testing*

dbs/

node_modules/

# Optional: ignore any temporary files created by Python or text editors
__pycache__/  # Python cache directory
*.pyc
*.pyo  # Python optimized bytecode files
*.pkl  # Pickle files (often generated during data processing)

# Ignore any virtual environment directories used to isolate Python dependencies
venv/
env/
*.venv/

# Ignore Jupyter Notebook checkpoints, if notebooks are used for analysis or reporting
.ipynb_checkpoints/

# Ignore any temporary, swap, or backup files created by editors like Vim or Emacs
*~
*.swp
*.swo
*.bak

.coverage
htmlcov/
*.cover
reports/
trace/
.cache/
logs/