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-rw-r--r--gn3/computations/partial_correlations.py2
-rw-r--r--gn3/db/correlations.py7
2 files changed, 5 insertions, 4 deletions
diff --git a/gn3/computations/partial_correlations.py b/gn3/computations/partial_correlations.py
index 5777a0b..fce6ad2 100644
--- a/gn3/computations/partial_correlations.py
+++ b/gn3/computations/partial_correlations.py
@@ -173,6 +173,6 @@ def correlations_of_all_tissue_traits(
`web.webqtl.correlation.correlationFunction.calculateCorrOfAllTissueTrait`
function in GeneNetwork1.
"""
- primary_trait_values = primary_trait_symbol_value_dict.values()[0]
+ primary_trait_values = tuple(primary_trait_symbol_value_dict.values())[0]
return batch_computed_tissue_correlation(
primary_trait_values, symbol_value_dict, method)
diff --git a/gn3/db/correlations.py b/gn3/db/correlations.py
index d7954e5..d94759a 100644
--- a/gn3/db/correlations.py
+++ b/gn3/db/correlations.py
@@ -10,6 +10,8 @@ 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(target_db_name: str, conn: Any) -> str:
"""
Retrieve the name of the reference database file with which correlations are
@@ -275,9 +277,8 @@ def build_temporary_tissue_correlations_table(
`web.webqtl.correlation.CorrelationPage.getTempTissueCorrTable` function in
GeneNetwork1."""
# We should probably pass the `correlations_of_all_tissue_traits` function
- # as an argument to this function and get rid of the two lines immediately
+ # 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
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),
@@ -308,7 +309,7 @@ def build_temporary_tissue_correlations_table(
return temp_table_name
-def fetch_tissue_correlations(
+def fetch_tissue_correlations(# pylint: disable=R0913
dataset: dict, trait_symbol: str, probeset_freeze_id: int, method: str,
return_number: int, conn: Any) -> dict:
"""