First-time setup¶
- Install conda.
lcdb-workflows depends heavily on the conda package manager to ensure reproducible environments. If you don’t already have conda, install miniconda (Python 3 version recommended).
Clone the repository:
3. Run the tests. Set –threads to as many cores as you have on your machine. With 8 cores, this takes about 6 min:
test/run_test.py workflows/mapping/Snakefile --clean --build-env --threads 8
The output will be in workflows/mapping/pasilla.
Subsequent setup¶
The lcdb/lcdb-init.py script can be used to initialize a working repo in a new working directory.