diff options
Diffstat (limited to 'gn3/computations/rust_correlation.py')
| -rw-r--r-- | gn3/computations/rust_correlation.py | 6 |
1 files changed, 4 insertions, 2 deletions
diff --git a/gn3/computations/rust_correlation.py b/gn3/computations/rust_correlation.py index 54d9243..e7f6bba 100644 --- a/gn3/computations/rust_correlation.py +++ b/gn3/computations/rust_correlation.py @@ -49,6 +49,8 @@ def run_correlation( dataset, trait_vals: str, method: str, delimiter: str, corr_type: str = "sample", top_n: int = 500): """entry function to call rust correlation""" + + #pylint: disable=too-many-arguments (tmp_dir, tmp_file) = generate_input_files(dataset) (output_file, json_file) = generate_json_file( tmp_dir=tmp_dir, tmp_file=tmp_file, method=method, delimiter=delimiter, @@ -62,6 +64,7 @@ def run_correlation( def parse_correlation_output(result_file: str, corr_type: str, top_n: int = 500) -> dict: """parse file output """ + #current types are sample and tissue def __parse_line__(line): (trait_name, corr_coeff, p_val, num_overlap) = line.rstrip().split(",") if corr_type == "sample": @@ -72,8 +75,7 @@ def parse_correlation_output(result_file: str, "corr_coefficient": corr_coeff, "p_value": p_val }) - - elif corr_type == "tissue": + if corr_type == "tissue": return ( trait_name, { |