diff --git a/jass_preprocessing/__main__.py b/jass_preprocessing/__main__.py index 9c62d8ce4796044b802bc9219b3d2e55bae9457b..ce5fb5eafc4147b11b77a6594954a69e70de9b8d 100644 --- a/jass_preprocessing/__main__.py +++ b/jass_preprocessing/__main__.py @@ -36,7 +36,6 @@ def launch_preprocessing(args): start = time.time() GWAS_link = jp.map_gwas.walkfs(args.gwas_folder, args.gwas_filename)[2] mapgw = jp.map_gwas.map_columns_position(GWAS_link, args.gwas_info) - print(mapgw) gw_df = jp.map_gwas.read_gwas(GWAS_link, mapgw) diff --git a/jass_preprocessing/compute_score.py b/jass_preprocessing/compute_score.py index db0e3240631d31046c7fdaa057aa0666282a9f9d..c275ceb98c14de00036a6f12148aa5a6ffe2105c 100644 --- a/jass_preprocessing/compute_score.py +++ b/jass_preprocessing/compute_score.py @@ -51,7 +51,7 @@ def compute_sample_size(mgwas, diagnostic_folder, trait, perSS = 0.7): warnings.warn("Some snp had an infinite sample size") myW_thres = np.percentile(myN.dropna(), 90) - ss_thres = perSS * myW_thres + ss_thres = int(perSS) * myW_thres mgwas["computed_N"] = myN plt.clf() p1 = sns.distplot(mgwas.computed_N[~mgwas.computed_N.isna()])