diff options
Diffstat (limited to 'gn3/computations/partial_correlations.py')
| -rw-r--r-- | gn3/computations/partial_correlations.py | 14 |
1 files changed, 9 insertions, 5 deletions
diff --git a/gn3/computations/partial_correlations.py b/gn3/computations/partial_correlations.py index 6eb6c2f..8674910 100644 --- a/gn3/computations/partial_correlations.py +++ b/gn3/computations/partial_correlations.py @@ -16,7 +16,6 @@ import pandas import pingouin from scipy.stats import pearsonr, spearmanr -from gn3.settings import TEXTDIR from gn3.chancy import random_string from gn3.function_helpers import compose from gn3.data_helpers import parse_csv_line @@ -668,9 +667,14 @@ def check_for_common_errors(# pylint: disable=[R0914] return non_error_result def partial_correlations_with_target_db(# pylint: disable=[R0913, R0914, R0911 too-many-positional-arguments] - conn: Any, primary_trait_name: str, - control_trait_names: Tuple[str, ...], method: str, - criteria: int, target_db_name: str) -> dict: + conn: Any, + primary_trait_name: str, + control_trait_names: Tuple[str, ...], + method: str, + criteria: int, + target_db_name: str, + textdir: str +) -> dict: """ This is the 'ochestration' function for the partial-correlation feature. @@ -755,7 +759,7 @@ def partial_correlations_with_target_db(# pylint: disable=[R0913, R0914, R0911 t threshold, conn) - database_filename = get_filename(conn, target_db_name, TEXTDIR) + database_filename = get_filename(conn, target_db_name, textdir) all_correlations = partial_corrs( conn, check_res["common_primary_control_samples"], check_res["fixed_primary_values"], check_res["fixed_control_values"], |