Manually root first
1. Phone must be powered on.
2. Enable "USB debugging" in "Settings"-"Aplications"-"Development" ("Settings"-"Developer options" for Android 4.0+).
3. Type on phone *#0808# and choose "MTP + ADB".
4. Connect the phone to PC, use micro-USB cable.
5. Press "Unlock" button.

Selected model: SM-N900
Selected port: COM6 Z3X BOX Serial Port
Selected port speed: 115200
Searching Samsung modem... not found
Done with Samsung Tool v.16.6
Selected model: SM-N900
Selected port: COM6 Z3X BOX Serial Port
Selected port speed: 115200
Searching Samsung modem... detected COM267
Reading phone info...
Software version: N900XXUBMJ1/N900XXUBMI2/N900OJVBMI5
IMEI: 359092051559759
Done with Samsung Tool v.16.6
Selected model: SM-N900
Selected port: COM6 Z3X BOX Serial Port
Selected port speed: 115200
Please, allow USB debugging on phone...
Reading phone info...
Model: SM-N900
Android version: 4.3
Product code: SM-N9000ZKEKSA
Phone version: N900XXUBMI2
PDA version: N900XXUBMJ1
CSC version: N900OJVBMI5
IMEI: 359092051559759
Phone S/N: RF1D95P5R4E
Checking Super user right... true
Reading nv data... OK
Checking magic... OK
Detected new type of security
Running zTool, please wait... OK
Calculating... OK
Unlocking... OK
Rebooting phone... OK
Unlock done
Done with Samsung Tool v.16.6
Done with Samsung Tool v.16.6
1. Phone must be powered on.
2. Enable "USB debugging" in "Settings"-"Aplications"-"Development" ("Settings"-"Developer options" for Android 4.0+).
3. Type on phone *#0808# and choose "MTP + ADB".
4. Connect the phone to PC, use micro-USB cable.
5. Press "Unlock" button.

Selected model: SM-N900
Selected port: COM6 Z3X BOX Serial Port
Selected port speed: 115200
Searching Samsung modem... not found
Done with Samsung Tool v.16.6
Selected model: SM-N900
Selected port: COM6 Z3X BOX Serial Port
Selected port speed: 115200
Searching Samsung modem... detected COM267
Reading phone info...
Software version: N900XXUBMJ1/N900XXUBMI2/N900OJVBMI5
IMEI: 359092051559759
Done with Samsung Tool v.16.6
Selected model: SM-N900
Selected port: COM6 Z3X BOX Serial Port
Selected port speed: 115200
Please, allow USB debugging on phone...
Reading phone info...
Model: SM-N900
Android version: 4.3
Product code: SM-N9000ZKEKSA
Phone version: N900XXUBMI2
PDA version: N900XXUBMJ1
CSC version: N900OJVBMI5
IMEI: 359092051559759
Phone S/N: RF1D95P5R4E
Checking Super user right... true
Reading nv data... OK
Checking magic... OK
Detected new type of security
Running zTool, please wait... OK
Calculating... OK
Unlocking... OK
Rebooting phone... OK
Unlock done
Done with Samsung Tool v.16.6
Done with Samsung Tool v.16.6