From fb48ad20e8e56f05ea2c2bdcadeb933f98691aa0 Mon Sep 17 00:00:00 2001 From: Florent Yvon Date: Wed, 20 Mar 2024 16:40:45 +0000 Subject: [PATCH] Restored default config values --- curation/config.py | 14 +++++++------- 1 file changed, 7 insertions(+), 7 deletions(-) diff --git a/curation/config.py b/curation/config.py index 91c72974..f1e29544 100644 --- a/curation/config.py +++ b/curation/config.py @@ -1,25 +1,25 @@ curation_directories = { 'template_schema': './curation/templates/TemplateColumns2Models.xlsx', 'scoring_schema': './curation/templates/ScoringFileSchema.xlsx', - 'studies_dir': '/home/florent/PGS_Catalog/Releases/Import_Next', - 'scoring_dir': '/home/florent/PGS_Catalog/Releases/Import_Next/ScoringFiles/' + 'studies_dir': '', + 'scoring_dir': '/ScoringFiles/' } study_names_list = [ - {'name': 'Truong2024_AuthorSub'} + {'name': ''}, ] default_curation_status = 'IP' scoringfiles_format_version = '2.0' -skip_scoringfiles = True +skip_scoringfiles = False -skip_curationtracker = True +skip_curationtracker = False variant_positions_qc_config = { - 'skip': True, # Set to True to ignore the variant positions QC step - 'n_requests': 1, # Maximum number of requests allowed per score to the Ensembl REST API + 'skip': False, # Set to True to ignore the variant positions QC step + 'n_requests': 4, # Maximum number of requests allowed per score to the Ensembl REST API 'ensembl_max_variation_req_size': 10, # Maximum number of variants per request to the Ensembl variation REST API 'ensembl_max_sequence_req_size': 50, # Maximum number of variants per request to the Ensembl sequence REST API 'minimum_match_rate': 0.9 # The minimum required match rate for the QC to be satisfactory