- This topic has 1 reply, 2 voices, and was last updated 11 years ago by Anonymous.
November 26, 2012 at 11:33 pm #1470Anonymous
Hi, Rosetta community
I’m learning to use the “fold and dock” protocol and I tried the demo(rosetta_tests/integration/tests/fold_and_dock). My output file showed a trimer configuration but the protein was not folded(pdb file attached to this post). Could anyone tell me how to fix this?
My command script is:
setenv workdir /Users/ytao/Apps/rosetta/rosetta_tests/integration/tests/fold_and_dock
mpiexec -np 2 $rosettaBin/minirosetta.mpi.macosgccrelease @flags -database $rosettaDB -run:constant_seed -nodelay > log
My flags are (same as the demo file):
-run:test_cycles ## Remove to run a real case prediction
Never mind. I forgot to remove “-run:test_cycles ## Remove to run a real case prediction” in the flag file. Now it’s running properly.
November 27, 2012 at 12:30 am #8130Anonymous
I would also point out that -nstruct 1 is never a real case – generally start at 10000 for a small prediction set.
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