Solution : https://service.sap.com/sap/support/notes/994518 (SAP Service marketplace login required)
Key words : 
central upgrade program automatically recognises, solution execute program /sapapo/om_upgr_mark, central upgrade program automatically, avoid syntax errors, /sapapo/om_upgr_50 reason, /sapapo/om_upgr_40, /sapapo/om_upgr_41, /sapapo/om_upgr_not40, notes refer, correction instructions
Related Notes : 
       
| 1074340 | Upgrade to SCM 4.1 only with DP data | 
| 1040741 | |
| 984297 | Upgrade to SCM 5.0: Demand Planning | 
| 977717 | Upgrading a system with DP data only | 
| 939884 | |
| 932837 | /SAPAPO/OM_LC_UPGRADE_50: Problems during upgrade | 
| 894210 | Upgrading 4.x to 5.0: Problems with table /SAPAPO/ORDKEY | 
| 756612 | |
| 732939 |