diff options
Diffstat (limited to 'gn3/db/correlations.py')
| -rw-r--r-- | gn3/db/correlations.py | 11 |
1 files changed, 9 insertions, 2 deletions
diff --git a/gn3/db/correlations.py b/gn3/db/correlations.py index 401fd91..2a38bae 100644 --- a/gn3/db/correlations.py +++ b/gn3/db/correlations.py @@ -10,8 +10,6 @@ from gn3.random import random_string from gn3.data_helpers import partition_all from gn3.db.species import translate_to_mouse_gene_id -from gn3.computations.partial_correlations import correlations_of_all_tissue_traits - def get_filename(conn: Any, target_db_name: str, text_files_dir: str) -> Union[ str, bool]: """ @@ -282,6 +280,15 @@ def build_temporary_tissue_correlations_table( # We should probably pass the `correlations_of_all_tissue_traits` function # as an argument to this function and get rid of the one call immediately # following this comment. + from gn3.computations.partial_correlations import correlations_of_all_tissue_traits + # This import above is necessary within the function to avoid + # circular-imports. + # + # + # This import above is indicative of convoluted code, with the computation + # being interwoven with the data retrieval. This needs to be changed, such + # that the function being imported here is no longer necessary, or have the + # imported function passed to this function as an argument. symbol_corr_dict, symbol_p_value_dict = correlations_of_all_tissue_traits( fetch_gene_symbol_tissue_value_dict_for_trait( (trait_symbol,), probeset_freeze_id, conn), |