explicity argument naming in pd.dataframe.all , .any

maintenance for the new version of pandas

jass_preprocessing/__main__.py

@@ -46,6 +46,10 @@ def launch_preprocessing(args):
 
         print("#SNPs in GWAS summary statistic file: {}".format(gw_df.shape[0]))
         ref = jp.map_reference.read_reference(args.ref_path, np.bool_(args.mask_MHC), np.double(args.minimum_MAF), region_to_mask=eval(args.additional_masked_region))
+
+        print("Unique chromosome in reference")
+        print(ref.chr.unique())
+
         mgwas = jp.map_reference.map_on_ref_panel(gw_df, ref, gwas_map.loc[tag, "index_type"])
 
         print("#SNPs mapped to reference panel: {}".format(mgwas.shape[0]))