mcsm/ind_scripts/format_results.py

@@ -308,6 +308,9 @@ def format_mcsm_output(mcsm_outputcsv):
     print('Sorting df by position')
     mcsm_data_fs = mcsm_data_f.sort_values(by = ['position'])
     print('sorted df:\n', mcsm_data_fs.head())
+    
+    # Remove white space everywhere before output: bit me when merging!?
+    mcsm_data_fs.columns = mcsm_data_fs.columns.str.replace(' ', '')
 	#%%===========================================================================
 	#############
 	# sanity check before writing file

mcsm/ind_scripts/format_results_notdef.py

@@ -298,6 +298,9 @@ else:
     	, '\nis', expected_ncols_toadd, 'the no. of expected cols to add?'
     	, '\n===============================================================')
 #%%============================================================================
+# Remove white space everywhere before output: bit me when merging!?
+mcsm_data_fs.columns = mcsm_data_fs.columns.str.replace(' ', '')
+
 # writing file
 print('Writing formatted df to csv')
 mcsm_data_fs.to_csv(outfile_mcsm_norm, index = False)

mcsm/mcsm.py

@@ -425,6 +425,9 @@ def format_mcsm_output(mcsm_outputcsv):
     print('Sorting df by position')
     mcsm_data_fs = mcsm_data_f.sort_values(by = ['position'])
     print('sorted df:\n', mcsm_data_fs.head())
+    
+    # Remove white space everywhere before output: bit me when merging!?
+    mcsm_data_fs.columns = mcsm_data_fs.columns.str.replace(' ', '')
 #%%=====================================================================
     #############
     # sanity check before writing file