diff options
Diffstat (limited to 'gn3/computations')
| -rw-r--r-- | gn3/computations/rqtl.py | 16 |
1 files changed, 14 insertions, 2 deletions
diff --git a/gn3/computations/rqtl.py b/gn3/computations/rqtl.py index 0e8cd1f..855a819 100644 --- a/gn3/computations/rqtl.py +++ b/gn3/computations/rqtl.py @@ -2,24 +2,36 @@ from typing import Dict from gn3.commands import compose_rqtl_cmd +from gn3.computations.gemma import generate_hash_of_string from gn3.fs_helpers import get_hash_of_files def generate_rqtl_cmd(rqtl_wrapper_cmd: str, - rqtl_wrapper_kwargs: Dict) -> Dict: + rqtl_wrapper_kwargs: Dict, + rqtl_wrapper_bool_kwargs: list) -> Dict: """Given the base rqtl_wrapper command and dict of keyword arguments, return the full rqtl_wrapper command and an output filename generated from a hash of the genotype and phenotype files """ + # Generate a hash from contents of the genotype and phenotype files _hash = get_hash_of_files( [v for k, v in rqtl_wrapper_kwargs.items() if k in ["g", "p"]]) + # Append to hash a hash of keyword arguments + _hash += generate_hash_of_string( + ",".join([f"{k}:{v}" for k, v in rqtl_wrapper_kwargs.items() if k not in ["g", "p"]])) + + # Append to hash a hash of boolean keyword arguments + _hash += generate_hash_of_string( + ",".join(rqtl_wrapper_bool_kwargs)) + _output_filename = f"{_hash}-output.json" return { "output_file": _output_filename, "rqtl_cmd": compose_rqtl_cmd(rqtl_wrapper_cmd=rqtl_wrapper_cmd, - rqtl_wrapper_kwargs=rqtl_wrapper_kwargs) + rqtl_wrapper_kwargs=rqtl_wrapper_kwargs, + rqtl_wrapper_bool_kwargs=rqtl_wrapper_bool_kwargs) } |