diff --git a/jass/models/inittable.py b/jass/models/inittable.py index c568c8eef2dc7370d76f64d9f572e8647362a92e..719a92680e6ab8c86e7d7916d634b543c205728c 100755 --- a/jass/models/inittable.py +++ b/jass/models/inittable.py @@ -222,7 +222,7 @@ def create_inittable_file( which_cols.extend(list(pheno_select)) hdf_init.put("PhenoList", pheno_list, format="table", data_columns=True) hdf_init.put("Regions", regions, format="table", data_columns=True) - sum_stat_tab_min_itemsizes = {"snp_ids": 50, "Ref_allele":50,"Alt_allele":50} + sum_stat_tab_min_itemsizes = {"snp_ids": 80, "Ref_allele":70,"Alt_allele":70} regions_bychr = regions.groupby("chr") diff --git a/jass/models/worktable.py b/jass/models/worktable.py index c2e287a530f4ca5c03a892c470d8ada28c3a61d7..a249eb9bc8cd3f765d440d7bdda7587fbcb18aa4 100755 --- a/jass/models/worktable.py +++ b/jass/models/worktable.py @@ -193,9 +193,9 @@ def create_worktable_file( ) # Covariance matrix regions = read_hdf(init_file_path, "Regions").index.tolist() - sum_stat_tab_min_itemsizes = {"snp_ids": 50, "Region": 10, "CHR": 5,"Ref_allele" : 50, "Alt_allele":50} + sum_stat_tab_min_itemsizes = {"snp_ids": 80, "Region": 10, "CHR": 5,"Ref_allele" : 70, "Alt_allele":70} #['Region', "MiddlePosition", "snp_ids","CHR", "position", "Ref_allele", "Alt_allele", "JASS_PVAL", "UNIVARIATE_MIN_PVAL", "signif_status"] - region_sub_table_min_itemsizes = {"Region": 10, "index": 10, "CHR": 5, "snp_ids": 50, "signif_status":20,"Ref_allele" : 50, "Alt_allele":50} + region_sub_table_min_itemsizes = {"Region": 10, "index": 10, "CHR": 5, "snp_ids": 80, "signif_status":20,"Ref_allele" : 70, "Alt_allele":70} smart_na_computation = not (remove_nan) module_name, function_name = stat.split(":")