Pb2 with name outfolder

raiss/ld_matrix.py

@@ -127,7 +127,7 @@ def generate_genome_matrices(region_files, reffolder, folder_output, prefix, suf
     for reg in regions.iterrows():
         # input reference panel file
         fi_ref = "{0}/{1}{2}{3}".format(reffolder,prefix, reg[1]['chr'], suffix)
-        print(fi_ref)
+        #print(fi_ref)
         chr_int = re.search('([0-9X]{1,2})', str(reg[1]['chr'])).group()
         
         # Compute the LD correlation with LD
@@ -137,9 +137,3 @@ def generate_genome_matrices(region_files, reffolder, folder_output, prefix, suf
         #fo_mat = "{0}/{1}_{2}_{3}.mat".format(folder_output, reg[1]['chr'], reg[1]['startpos'], reg[1]["endpos"])
         #transform plink output to a compressed generate_sparse_matrix
         #generate_sparse_matrix(fi_plink, fo_mat)
-
-generate_genome_matrices("/home/genstat3/WKD_LUCIE/Data_test/All_Regions_ALL_ensemble_1000G_hg38_EUR.bed",
-                         "/home/genstat3/WKD_LUCIE/Data_test/Panel_ref",
-                         "/home/genstat3/WKD_LUCIE/Results",
-                         "ALL_ensemble_1000G_hg38_EUR_chr",
-                         "","\t")
\ No newline at end of file