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 a2bb4f72cd19ce44b213044a5a5b783920f2a38e..fed9163d31e0cec47337f4704a595362f393b808 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 0000000000000000000000000000000000000000..2b724fed22a70aecd59ef863ec7389802749edb0 --- /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"