-I: Adding /uufs/chpc.utah.edu/common/home/u0827715/Amber/GIT/amber/dat/leap/prep to search path.
-I: Adding /uufs/chpc.utah.edu/common/home/u0827715/Amber/GIT/amber/dat/leap/lib to search path.
-I: Adding /uufs/chpc.utah.edu/common/home/u0827715/Amber/GIT/amber/dat/leap/parm to search path.
-I: Adding /uufs/chpc.utah.edu/common/home/u0827715/Amber/GIT/amber/dat/leap/cmd to search path.
-s: Ignoring startup file: leaprc
-f: Source buildit-vac-gaff.in.

Welcome to LEaP!
Sourcing: ./buildit-vac-gaff.in
----- Source: /uufs/chpc.utah.edu/common/home/u0827715/Amber/GIT/amber/dat/leap/cmd/leaprc.ff14SB
----- Source of /uufs/chpc.utah.edu/common/home/u0827715/Amber/GIT/amber/dat/leap/cmd/leaprc.ff14SB done
Log file: ./leap.log
Loading parameters: /uufs/chpc.utah.edu/common/home/u0827715/Amber/GIT/amber/dat/leap/parm/parm10.dat
Reading title:
PARM99 + frcmod.ff99SB + frcmod.parmbsc0 + OL3 for RNA
Loading parameters: /uufs/chpc.utah.edu/common/home/u0827715/Amber/GIT/amber/dat/leap/parm/frcmod.ff14SB
Reading force field modification type file (frcmod)
Reading title:
ff14SB protein backbone and sidechain parameters
Loading library: /uufs/chpc.utah.edu/common/home/u0827715/Amber/GIT/amber/dat/leap/lib/amino12.lib
Loading library: /uufs/chpc.utah.edu/common/home/u0827715/Amber/GIT/amber/dat/leap/lib/aminoct12.lib
Loading library: /uufs/chpc.utah.edu/common/home/u0827715/Amber/GIT/amber/dat/leap/lib/aminont12.lib
Loading library: /uufs/chpc.utah.edu/common/home/u0827715/Amber/GIT/amber/dat/leap/lib/nucleic12.lib
Loading library: /uufs/chpc.utah.edu/common/home/u0827715/Amber/GIT/amber/dat/leap/lib/atomic_ions.lib
Loading library: /uufs/chpc.utah.edu/common/home/u0827715/Amber/GIT/amber/dat/leap/lib/solvents.lib
Loading library: /uufs/chpc.utah.edu/common/home/u0827715/Amber/GIT/amber/dat/leap/lib/ff-nucleic-OL15.lib
Loading parameters: /uufs/chpc.utah.edu/common/home/u0827715/Amber/GIT/amber/dat/leap/parm/frcmod.ff-nucleic-OL15
Reading force field modification type file (frcmod)
Reading title:
OL15 force field for DNA (99bsc0-betaOL1-eps-zetaOL1-chiOL4) see http://ffol.upol.cz
Loading PDB file: ./init.pdb
  total atoms in file: 65
Loading parameters: ./aa-gaff.frcmod
Modified force field files must contain both a MASS and NONB entry, or neither
Could not load parameter set.
-- no parameters loadedChecking 'm'....
WARNING: The unperturbed charge of the unit: -1.000000 is not zero.
Warning: Close contact of 1.140355 angstroms between .R<A5 1>.A<H3' 26> and .R<A3 2>.A<H5' 6>
Checking parameters for unit 'm'.
Checking for bond parameters.
Checking for angle parameters.
check:  Warnings: 2
Unit is OK.
Checking Unit.
WARNING: The unperturbed charge of the unit: -1.000000 is not zero.

 -- ignoring the warning.

Building topology.
Building atom parameters.
Building bond parameters.
Building angle parameters.
Building proper torsion parameters.
Building improper torsion parameters.
 total 10 improper torsions applied
Building H-Bond parameters.
Incorporating Non-Bonded adjustments.
Not Marking per-residue atom chain types.
Marking per-residue atom chain types.
 (no restraints)
	Quit