Re: [modeller_usage] a question about SEQUENCE_SEARCH

yunierkis@uclv.edu.cu wrote: > I'm currently beginning using MODELLER. I have tried to run the basic > example of the tutorial. When I run the SEQUENCE_SEARCH command (using the > same script provided in the tutorial) it begin running and writing to the > log file, but in certain moment MODELLER stops writing to the log file and > never stops running.

Be patient. SEQUENCE_SEARCH takes a long time. Just as it says in the tutorial, it takes over an hour (and that's on a 3GHz PC). If you're running on a slow old machine (like an SGI) it could take 10 times as long.

If your search doesn't need to be so rigorous, you could use something like BLAST instead.

Ben Webb, Modeller Caretaker