From c94a722a0700ef42af590cba3b86858ddb6e8a4a Mon Sep 17 00:00:00 2001
From: alapendr <audrey.lapendry@ens-lyon.fr>
Date: Tue, 19 Jan 2021 18:05:38 +0100
Subject: [PATCH] tad_to_communities/config.py: initial commit
---
...metadata_chiapet.py => config_metadata.py} | 6 ++---
.../tad_to_communities/config.py | 25 +++++++++++++++++++
2 files changed, 28 insertions(+), 3 deletions(-)
rename src/db_utils/projects_metadata/{config_metadata_chiapet.py => config_metadata.py} (61%)
create mode 100644 src/find_interaction_cluster/tad_to_communities/config.py
diff --git a/src/db_utils/projects_metadata/config_metadata_chiapet.py b/src/db_utils/projects_metadata/config_metadata.py
similarity index 61%
rename from src/db_utils/projects_metadata/config_metadata_chiapet.py
rename to src/db_utils/projects_metadata/config_metadata.py
index a2bb4f72..fed9163d 100644
--- a/src/db_utils/projects_metadata/config_metadata_chiapet.py
+++ b/src/db_utils/projects_metadata/config_metadata.py
@@ -14,7 +14,7 @@ class Config_metadata:
"""
Configuration variable for this subfolder
"""
- geo_id_file = Config.data / 'metadata_files' / 'chia_pet_list_GSM.txt'
+ geo_id_file = Config.data / 'metadata_files' / 'dataset_list_GSM.txt'
output = Config.results / 'projects_metadata'
- metadata_file = Config.data / 'metadata_files' / 'chia_pet_list.csv'
- outfile = 'chia_pet_projects'
+ metadata_file = Config.data / 'metadata_files' / 'dataset_list.csv'
+ outfile = 'datasets'
diff --git a/src/find_interaction_cluster/tad_to_communities/config.py b/src/find_interaction_cluster/tad_to_communities/config.py
new file mode 100644
index 00000000..2b724fed
--- /dev/null
+++ b/src/find_interaction_cluster/tad_to_communities/config.py
@@ -0,0 +1,25 @@
+#!/usr/bin/env python3
+
+# -*- coding: UTF-8 -*-
+
+
+"""
+Description: Variables for the tad_to_communities directory
+"""
+
+
+from pathlib import Path
+
+
+class Config:
+ """
+ Variables for the tad_to_communities directory
+ """
+ data = Path(__file__).parents[3] / "data"
+ results = Path(__file__).parents[3] / "results"
+ tad = data / "figures_files" / "tad_to_communities" / "tad_annotations"
+ target_gene = data / "bed" / "gene.bed"
+ intersect_tad_gene = results / "figures" / "tad_to_communities" / \
+ "intersect_tad_gene"
+ tad_communities = results / "figures" / "tad_to_communities" / \
+ "tad_communities"
--
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