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authorFrederick Muriuki Muriithi2022-12-21 03:39:52 +0300
committerFrederick Muriuki Muriithi2022-12-21 03:39:52 +0300
commitdaa3a9cade431b21bbc48b690c16dcb8746f3dce (patch)
tree9680d2cbfb5c4725a5d9d1166b4f17e6904e223f
parent6369eceb15755026df518c94cc57a331275fa3d3 (diff)
downloadgenenetwork3-daa3a9cade431b21bbc48b690c16dcb8746f3dce.tar.gz
gn3: (gn3.random -> gn3.chancy): Rename module to avoid conflicts.
Rename the `gn3.random` module to gn3.chancy to avoid conflicts with Python's `random` module. * gn3/random.py -> gn3/chancy.py: rename module * gn3/commands.py: update import * gn3/computations/partial_correlations.py: update import * gn3/computations/qtlreaper.py: update import * gn3/computations/rust_correlation.py: update import * gn3/db/correlations.py: update import * gn3/db/traits.py: update import * gn3/heatmaps.py: update import * tests/integration/conftest.py: update import
-rw-r--r--gn3/chancy.py (renamed from gn3/random.py)0
-rw-r--r--gn3/commands.py2
-rw-r--r--gn3/computations/partial_correlations.py2
-rw-r--r--gn3/computations/qtlreaper.py2
-rw-r--r--gn3/computations/rust_correlation.py2
-rw-r--r--gn3/db/correlations.py2
-rw-r--r--gn3/db/traits.py2
-rw-r--r--gn3/heatmaps.py2
-rw-r--r--tests/integration/conftest.py2
9 files changed, 8 insertions, 8 deletions
diff --git a/gn3/random.py b/gn3/chancy.py
index f0ba574..f0ba574 100644
--- a/gn3/random.py
+++ b/gn3/chancy.py
diff --git a/gn3/commands.py b/gn3/commands.py
index d45d9e8..0e78fd2 100644
--- a/gn3/commands.py
+++ b/gn3/commands.py
@@ -16,7 +16,7 @@ from typing import Sequence
from uuid import uuid4
from redis.client import Redis # Used only in type hinting
-from gn3.random import random_string
+from gn3.chancy import random_string
from gn3.exceptions import RedisConnectionError
diff --git a/gn3/computations/partial_correlations.py b/gn3/computations/partial_correlations.py
index 597c5a3..9f02ad2 100644
--- a/gn3/computations/partial_correlations.py
+++ b/gn3/computations/partial_correlations.py
@@ -17,7 +17,7 @@ import pingouin
from scipy.stats import pearsonr, spearmanr
from gn3.settings import TEXTDIR
-from gn3.random import random_string
+from gn3.chancy import random_string
from gn3.function_helpers import compose
from gn3.data_helpers import parse_csv_line
from gn3.db.datasets import retrieve_trait_dataset
diff --git a/gn3/computations/qtlreaper.py b/gn3/computations/qtlreaper.py
index b61bdae..981a9c8 100644
--- a/gn3/computations/qtlreaper.py
+++ b/gn3/computations/qtlreaper.py
@@ -6,7 +6,7 @@ import os
import subprocess
from typing import Union
-from gn3.random import random_string
+from gn3.chancy import random_string
from gn3.settings import TMPDIR, REAPER_COMMAND
def generate_traits_file(samples, trait_values, traits_filename):
diff --git a/gn3/computations/rust_correlation.py b/gn3/computations/rust_correlation.py
index bd6fe97..546da0e 100644
--- a/gn3/computations/rust_correlation.py
+++ b/gn3/computations/rust_correlation.py
@@ -10,7 +10,7 @@ import csv
import os
from gn3.computations.qtlreaper import create_output_directory
-from gn3.random import random_string
+from gn3.chancy import random_string
from gn3.settings import CORRELATION_COMMAND
from gn3.settings import TMPDIR
diff --git a/gn3/db/correlations.py b/gn3/db/correlations.py
index a8a72bc..aec8eac 100644
--- a/gn3/db/correlations.py
+++ b/gn3/db/correlations.py
@@ -6,7 +6,7 @@ import os
from functools import reduce
from typing import Any, Dict, Tuple, Union, Optional
-from gn3.random import random_string
+from gn3.chancy import random_string
from gn3.data_helpers import partition_all
from gn3.db.species import translate_to_mouse_gene_id
diff --git a/gn3/db/traits.py b/gn3/db/traits.py
index f722e24..fa13fcc 100644
--- a/gn3/db/traits.py
+++ b/gn3/db/traits.py
@@ -4,7 +4,7 @@ from functools import reduce
from typing import Any, Dict, Sequence
from gn3.settings import TMPDIR
-from gn3.random import random_string
+from gn3.chancy import random_string
from gn3.function_helpers import compose
from gn3.db.datasets import retrieve_trait_dataset
diff --git a/gn3/heatmaps.py b/gn3/heatmaps.py
index 91437bb..882a3c7 100644
--- a/gn3/heatmaps.py
+++ b/gn3/heatmaps.py
@@ -12,7 +12,7 @@ import plotly.figure_factory as ff # type: ignore
from plotly.subplots import make_subplots # type: ignore
from gn3.settings import TMPDIR
-from gn3.random import random_string
+from gn3.chancy import random_string
from gn3.computations.slink import slink
from gn3.db.traits import export_trait_data
from gn3.computations.correlations2 import compute_correlation
diff --git a/tests/integration/conftest.py b/tests/integration/conftest.py
index 2977ca9..c953d84 100644
--- a/tests/integration/conftest.py
+++ b/tests/integration/conftest.py
@@ -3,7 +3,7 @@ import pytest
import MySQLdb
from gn3.app import create_app
-from gn3.random import random_string
+from gn3.chancy import random_string
from gn3.db_utils import parse_db_url, database_connector
@pytest.fixture(scope="session")