From 1e7e1240b89dab980da29994f772eb5273f2b633 Mon Sep 17 00:00:00 2001
From: alapendr <audrey.lapendry@ens-lyon.fr>
Date: Fri, 10 Apr 2020 09:45:00 +0200
Subject: [PATCH] config_interactions.py: add couple_exon and couple_gene to
store the final result of features_interactions.py
---
.../interactions/config_interactions.py | 17 ++---------------
1 file changed, 2 insertions(+), 15 deletions(-)
diff --git a/src/db_utils/interactions/config_interactions.py b/src/db_utils/interactions/config_interactions.py
index 78e0398b..753a9a2c 100644
--- a/src/db_utils/interactions/config_interactions.py
+++ b/src/db_utils/interactions/config_interactions.py
@@ -8,7 +8,6 @@ Description: Configuration variables for subfolder interactions.
"""
from ..config import Config
-from pathlib import Path
class ConfigInteractions:
@@ -29,17 +28,5 @@ class ConfigInteractions:
chia_pet = Config.data / 'interactions_files' / 'chia_pet'
pet_vs_exon_output = chia_pet_interaction / 'intersections_exon'
pet_vs_gene_output = chia_pet_interaction / 'intersections_gene'
-
-
-def get_interaction_file(bed_file: Path, region_name: str):
- """
- Get the name of the interaction file created from the ``bed_file``.
-
- :param bed_file: A bed file that was used to create the interaction \
- file whose name is returned by this function.
- :param region_name: The name of the genomic region searched in PETs.
- :return: The name of the interaction file
- """
- bed_name = bed_file.name.replace(".bed", "")
- return ConfigInteractions.chia_pet_interaction / \
- f"{bed_name}_{region_name}_interaction.csv"
+ couple_exon = chia_pet_interaction / 'couple_exon'
+ couple_gene = chia_pet_interaction / 'couple_gene'
--
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