Reply To: high resolution protein docking doesn’t work

[Anonymous]

Thank you very much for your so kind reply. I do use the command ” mpirun -np 6 docking_protocol.linuxgccrelease @flags2 > docking2.log&” for this job so that it would be finished much faster. Could you please give me some advices how to enable the option “specify named output directories”? I would be very appreciated for your kind helps.

Here is my output section in flags2:

-out
-nstruct 10
# this should be set to a large number for effective sampling
-mute core.util.prof
# reduces copious output, without overdoing as with -mute all
-file
-o dock_output2
# scorefile will be named dock_output2.sc (or .fasc for fullatom)
-fullatom