To convert a run including the AGATA data, here is the procedure (Only if you know reasonably what you are doing 
1- Go to the AGATA Analysis computer, open a terminal and execute the following commands:
> a4
> t e786s
> cd Replay
> ./do_global_replay.sh -run ## (## is the run number you want to convert)
2- When it is finished copy the root file to the GANIL world:
> mkdir /dataganil/e786s/acquisition/root_agata/run_00##/
> cp ./run_00##/Out/Analysis/Tree_00*.root /dataganil/e786s/acquisition/root_agata/run_00##/. |