basic.io.database: [ WARNING ] Unable to locate database file /sampling/antibodies/antibody_database_rosetta_design.db
core.chemical.AtomICoor: [ WARNING ] IcoorAtomID::atom_id(): Cannot get atom_id for POLYMER_LOWER of residue ILE 1.  Returning BOGUS ID instead.
core.conformation.Residue: [ WARNING ] missing an atom: 1  H   that depends on a nonexistent polymer connection! 
core.conformation.Residue: [ WARNING ]  --> generating it using idealized coordinates.
core.chemical.AtomICoor: [ WARNING ] IcoorAtomID::atom_id(): Cannot get atom_id for POLYMER_LOWER of residue TRP 1.  Returning BOGUS ID instead.
core.conformation.Residue: [ WARNING ] missing an atom: 1  H   that depends on a nonexistent polymer connection! 
core.conformation.Residue: [ WARNING ]  --> generating it using idealized coordinates.
core.chemical.AtomICoor: [ WARNING ] IcoorAtomID::atom_id(): Cannot get atom_id for POLYMER_LOWER of residue ILE 1.  Returning BOGUS ID instead.
core.conformation.Residue: [ WARNING ] missing an atom: 1  H   that depends on a nonexistent polymer connection! 
core.conformation.Residue: [ WARNING ]  --> generating it using idealized coordinates.
core.chemical.AtomICoor: [ WARNING ] IcoorAtomID::atom_id(): Cannot get atom_id for POLYMER_LOWER of residue LEU 1.  Returning BOGUS ID instead.
core.conformation.Residue: [ WARNING ] missing an atom: 1  H   that depends on a nonexistent polymer connection! 
core.conformation.Residue: [ WARNING ]  --> generating it using idealized coordinates.
core.chemical.AtomICoor: [ WARNING ] IcoorAtomID::atom_id(): Cannot get atom_id for POLYMER_LOWER of residue TYR 1.  Returning BOGUS ID instead.
core.conformation.Residue: [ WARNING ] missing an atom: 1  H   that depends on a nonexistent polymer connection! 
core.conformation.Residue: [ WARNING ]  --> generating it using idealized coordinates.
protocols.analysis.InterfaceAnalyzerMover: [ WARNING ] In InterfaceAnalyzerMover, calculator Sasa_1 already exists, this is hopefully correct for your purposes
protocols.analysis.InterfaceAnalyzerMover: [ WARNING ] In InterfaceAnalyzerMover, calculator InterfaceNeighborDefinition_1 already exists, this is hopefully correct for your purposes
protocols.analysis.InterfaceAnalyzerMover: [ WARNING ] In InterfaceAnalyzerMover, calculator InterfaceDeltaEnergetics_1 already exists, this is hopefully correct for your purposes
protocols.analysis.InterfaceAnalyzerMover: [ WARNING ] In InterfaceAnalyzerMover, calculator NumberHBonds_1 already exists, this is hopefully correct for your purposes
protocols.analysis.InterfaceAnalyzerMover: [ WARNING ] In InterfaceAnalyzerMover, calculator BuriedUnsatisfiedPolars_1 already exists, this is hopefully correct for your purposes
core.chemical.AtomICoor: [ WARNING ] IcoorAtomID::atom_id(): Cannot get atom_id for POLYMER_LOWER of residue TYR 1.  Returning BOGUS ID instead.
core.conformation.Residue: [ WARNING ] missing an atom: 1  H   that depends on a nonexistent polymer connection! 
core.conformation.Residue: [ WARNING ]  --> generating it using idealized coordinates.
basic.io.database: [ WARNING ] Unable to locate database file /sampling/antibodies/antibody_database_rosetta_design.db
basic.io.database: [ WARNING ] Unable to locate database file /sampling/antibodies/antibody_database_rosetta_design.db
core.chemical.AtomICoor: [ WARNING ] IcoorAtomID::atom_id(): Cannot get atom_id for POLYMER_LOWER of residue TYR 1.  Returning BOGUS ID instead.
core.conformation.Residue: [ WARNING ] missing an atom: 1  H   that depends on a nonexistent polymer connection! 
core.conformation.Residue: [ WARNING ]  --> generating it using idealized coordinates.
basic.io.database: [ WARNING ] Unable to locate database file /sampling/antibodies/antibody_database_rosetta_design.db
basic.io.database: [ WARNING ] Unable to locate database file /sampling/antibodies/antibody_database_rosetta_design.db
core.chemical.AtomICoor: [ WARNING ] IcoorAtomID::atom_id(): Cannot get atom_id for POLYMER_LOWER of residue TRP 1.  Returning BOGUS ID instead.
core.conformation.Residue: [ WARNING ] missing an atom: 1  H   that depends on a nonexistent polymer connection! 
core.conformation.Residue: [ WARNING ]  --> generating it using idealized coordinates.
basic.io.database: [ WARNING ] Unable to locate database file /sampling/antibodies/antibody_database_rosetta_design.db
basic.io.database: [ WARNING ] Unable to locate database file /sampling/antibodies/antibody_database_rosetta_design.db
core.chemical.AtomICoor: [ WARNING ] IcoorAtomID::atom_id(): Cannot get atom_id for POLYMER_LOWER of residue TRP 1.  Returning BOGUS ID instead.
core.conformation.Residue: [ WARNING ] missing an atom: 1  H   that depends on a nonexistent polymer connection! 
core.conformation.Residue: [ WARNING ]  --> generating it using idealized coordinates.
basic.io.database: [ WARNING ] Unable to locate database file /sampling/antibodies/antibody_database_rosetta_design.db
basic.io.database: [ WARNING ] Unable to locate database file /sampling/antibodies/antibody_database_rosetta_design.db
core.chemical.AtomICoor: [ WARNING ] IcoorAtomID::atom_id(): Cannot get atom_id for POLYMER_LOWER of residue LEU 1.  Returning BOGUS ID instead.
core.conformation.Residue: [ WARNING ] missing an atom: 1  H   that depends on a nonexistent polymer connection! 
core.conformation.Residue: [ WARNING ]  --> generating it using idealized coordinates.
basic.io.database: [ WARNING ] Unable to locate database file /sampling/antibodies/antibody_database_rosetta_design.db
basic.io.database: [ WARNING ] Unable to locate database file /sampling/antibodies/antibody_database_rosetta_design.db
protocols.analysis.InterfaceAnalyzerMover: [ WARNING ] In InterfaceAnalyzerMover, calculator Sasa_1 already exists, this is hopefully correct for your purposes
protocols.analysis.InterfaceAnalyzerMover: [ WARNING ] In InterfaceAnalyzerMover, calculator InterfaceNeighborDefinition_1 already exists, this is hopefully correct for your purposes
protocols.analysis.InterfaceAnalyzerMover: [ WARNING ] In InterfaceAnalyzerMover, calculator InterfaceDeltaEnergetics_1 already exists, this is hopefully correct for your purposes
protocols.analysis.InterfaceAnalyzerMover: [ WARNING ] In InterfaceAnalyzerMover, calculator NumberHBonds_1 already exists, this is hopefully correct for your purposes
protocols.analysis.InterfaceAnalyzerMover: [ WARNING ] In InterfaceAnalyzerMover, calculator BuriedUnsatisfiedPolars_1 already exists, this is hopefully correct for your purposes
basic.io.database: [ WARNING ] Unable to locate database file /sampling/antibodies/antibody_database_rosetta_design.db
core.chemical.AtomICoor: [ WARNING ] IcoorAtomID::atom_id(): Cannot get atom_id for POLYMER_LOWER of residue LEU 1.  Returning BOGUS ID instead.
core.conformation.Residue: [ WARNING ] missing an atom: 1  H   that depends on a nonexistent polymer connection! 
core.conformation.Residue: [ WARNING ]  --> generating it using idealized coordinates.
core.chemical.AtomICoor: [ WARNING ] IcoorAtomID::atom_id(): Cannot get atom_id for POLYMER_LOWER of residue TRP 1.  Returning BOGUS ID instead.
core.conformation.Residue: [ WARNING ] missing an atom: 1  H   that depends on a nonexistent polymer connection! 
core.conformation.Residue: [ WARNING ]  --> generating it using idealized coordinates.
core.chemical.AtomICoor: [ WARNING ] IcoorAtomID::atom_id(): Cannot get atom_id for POLYMER_LOWER of residue LEU 1.  Returning BOGUS ID instead.
core.conformation.Residue: [ WARNING ] missing an atom: 1  H   that depends on a nonexistent polymer connection! 
core.conformation.Residue: [ WARNING ]  --> generating it using idealized coordinates.
core.chemical.AtomICoor: [ WARNING ] IcoorAtomID::atom_id(): Cannot get atom_id for POLYMER_LOWER of residue LEU 1.  Returning BOGUS ID instead.
core.conformation.Residue: [ WARNING ] missing an atom: 1  H   that depends on a nonexistent polymer connection! 
core.conformation.Residue: [ WARNING ]  --> generating it using idealized coordinates.
core.chemical.AtomICoor: [ WARNING ] IcoorAtomID::atom_id(): Cannot get atom_id for POLYMER_LOWER of residue TYR 1.  Returning BOGUS ID instead.
core.conformation.Residue: [ WARNING ] missing an atom: 1  H   that depends on a nonexistent polymer connection! 
core.conformation.Residue: [ WARNING ]  --> generating it using idealized coordinates.
protocols.analysis.InterfaceAnalyzerMover: [ WARNING ] In InterfaceAnalyzerMover, calculator Sasa_1 already exists, this is hopefully correct for your purposes
protocols.analysis.InterfaceAnalyzerMover: [ WARNING ] In InterfaceAnalyzerMover, calculator InterfaceNeighborDefinition_1 already exists, this is hopefully correct for your purposes
protocols.analysis.InterfaceAnalyzerMover: [ WARNING ] In InterfaceAnalyzerMover, calculator InterfaceDeltaEnergetics_1 already exists, this is hopefully correct for your purposes
protocols.analysis.InterfaceAnalyzerMover: [ WARNING ] In InterfaceAnalyzerMover, calculator NumberHBonds_1 already exists, this is hopefully correct for your purposes
protocols.analysis.InterfaceAnalyzerMover: [ WARNING ] In InterfaceAnalyzerMover, calculator BuriedUnsatisfiedPolars_1 already exists, this is hopefully correct for your purposes
protocols.analysis.InterfaceAnalyzerMover: [ WARNING ] In InterfaceAnalyzerMover, calculator Sasa_1 already exists, this is hopefully correct for your purposes
protocols.analysis.InterfaceAnalyzerMover: [ WARNING ] In InterfaceAnalyzerMover, calculator InterfaceNeighborDefinition_1 already exists, this is hopefully correct for your purposes
protocols.analysis.InterfaceAnalyzerMover: [ WARNING ] In InterfaceAnalyzerMover, calculator InterfaceDeltaEnergetics_1 already exists, this is hopefully correct for your purposes
protocols.analysis.InterfaceAnalyzerMover: [ WARNING ] In InterfaceAnalyzerMover, calculator NumberHBonds_1 already exists, this is hopefully correct for your purposes
protocols.analysis.InterfaceAnalyzerMover: [ WARNING ] In InterfaceAnalyzerMover, calculator BuriedUnsatisfiedPolars_1 already exists, this is hopefully correct for your purposes
core.chemical.AtomICoor: [ WARNING ] IcoorAtomID::atom_id(): Cannot get atom_id for POLYMER_LOWER of residue TYR 1.  Returning BOGUS ID instead.
core.conformation.Residue: [ WARNING ] missing an atom: 1  H   that depends on a nonexistent polymer connection! 
core.conformation.Residue: [ WARNING ]  --> generating it using idealized coordinates.
basic.io.database: [ WARNING ] Unable to locate database file /sampling/antibodies/antibody_database_rosetta_design.db
basic.io.database: [ WARNING ] Unable to locate database file /sampling/antibodies/antibody_database_rosetta_design.db
core.chemical.AtomICoor: [ WARNING ] IcoorAtomID::atom_id(): Cannot get atom_id for POLYMER_LOWER of residue TRP 1.  Returning BOGUS ID instead.
core.conformation.Residue: [ WARNING ] missing an atom: 1  H   that depends on a nonexistent polymer connection! 
core.conformation.Residue: [ WARNING ]  --> generating it using idealized coordinates.
basic.io.database: [ WARNING ] Unable to locate database file /sampling/antibodies/antibody_database_rosetta_design.db
basic.io.database: [ WARNING ] Unable to locate database file /sampling/antibodies/antibody_database_rosetta_design.db
basic.io.database: [ WARNING ] Unable to locate database file /sampling/antibodies/antibody_database_rosetta_design.db
basic.io.database: [ WARNING ] Unable to locate database file /sampling/antibodies/antibody_database_rosetta_design.db
core.chemical.AtomICoor: [ WARNING ] IcoorAtomID::atom_id(): Cannot get atom_id for POLYMER_LOWER of residue LEU 1.  Returning BOGUS ID instead.
core.conformation.Residue: [ WARNING ] missing an atom: 1  H   that depends on a nonexistent polymer connection! 
core.conformation.Residue: [ WARNING ]  --> generating it using idealized coordinates.
basic.io.database: [ WARNING ] Unable to locate database file /sampling/antibodies/antibody_database_rosetta_design.db
basic.io.database: [ WARNING ] Unable to locate database file /sampling/antibodies/antibody_database_rosetta_design.db
core.chemical.AtomICoor: [ WARNING ] IcoorAtomID::atom_id(): Cannot get atom_id for POLYMER_LOWER of residue PHE 1.  Returning BOGUS ID instead.
core.conformation.Residue: [ WARNING ] missing an atom: 1  H   that depends on a nonexistent polymer connection! 
core.conformation.Residue: [ WARNING ]  --> generating it using idealized coordinates.
basic.io.database: [ WARNING ] Unable to locate database file /sampling/antibodies/antibody_database_rosetta_design.db
basic.io.database: [ WARNING ] Unable to locate database file /sampling/antibodies/antibody_database_rosetta_design.db
protocols.antibody.cluster.CDRClusterMatcher: [ WARNING ] 
protocols.antibody.cluster.CDRClusterMatcher: [ WARNING ] *** No known cluster of CDR length 10 omega of TTTTTTTTTC found. ***
protocols.antibody.cluster.CDRClusterMatcher: [ WARNING ] *** Consider using the command-line option -allow_omega_mismatches_for_north_clusters to find the closest cluster! ***
protocols.antibody.cluster.CDRClusterMatcher: [ WARNING ] 
protocols.analysis.InterfaceAnalyzerMover: [ WARNING ] In InterfaceAnalyzerMover, calculator Sasa_1 already exists, this is hopefully correct for your purposes
protocols.analysis.InterfaceAnalyzerMover: [ WARNING ] In InterfaceAnalyzerMover, calculator InterfaceNeighborDefinition_1 already exists, this is hopefully correct for your purposes
protocols.analysis.InterfaceAnalyzerMover: [ WARNING ] In InterfaceAnalyzerMover, calculator InterfaceDeltaEnergetics_1 already exists, this is hopefully correct for your purposes
protocols.analysis.InterfaceAnalyzerMover: [ WARNING ] In InterfaceAnalyzerMover, calculator NumberHBonds_1 already exists, this is hopefully correct for your purposes
protocols.analysis.InterfaceAnalyzerMover: [ WARNING ] In InterfaceAnalyzerMover, calculator BuriedUnsatisfiedPolars_1 already exists, this is hopefully correct for your purposes
basic.io.database: [ WARNING ] Unable to locate database file /sampling/antibodies/antibody_database_rosetta_design.db
core.chemical.AtomICoor: [ WARNING ] IcoorAtomID::atom_id(): Cannot get atom_id for POLYMER_LOWER of residue ILE 1.  Returning BOGUS ID instead.
core.conformation.Residue: [ WARNING ] missing an atom: 1  H   that depends on a nonexistent polymer connection! 
core.conformation.Residue: [ WARNING ]  --> generating it using idealized coordinates.
core.chemical.AtomICoor: [ WARNING ] IcoorAtomID::atom_id(): Cannot get atom_id for POLYMER_LOWER of residue TRP 1.  Returning BOGUS ID instead.
core.conformation.Residue: [ WARNING ] missing an atom: 1  H   that depends on a nonexistent polymer connection! 
core.conformation.Residue: [ WARNING ]  --> generating it using idealized coordinates.
core.chemical.AtomICoor: [ WARNING ] IcoorAtomID::atom_id(): Cannot get atom_id for POLYMER_LOWER of residue ILE 1.  Returning BOGUS ID instead.
core.conformation.Residue: [ WARNING ] missing an atom: 1  H   that depends on a nonexistent polymer connection! 
core.conformation.Residue: [ WARNING ]  --> generating it using idealized coordinates.
core.chemical.AtomICoor: [ WARNING ] IcoorAtomID::atom_id(): Cannot get atom_id for POLYMER_LOWER of residue LEU 1.  Returning BOGUS ID instead.
core.conformation.Residue: [ WARNING ] missing an atom: 1  H   that depends on a nonexistent polymer connection! 
core.conformation.Residue: [ WARNING ]  --> generating it using idealized coordinates.
core.chemical.AtomICoor: [ WARNING ] IcoorAtomID::atom_id(): Cannot get atom_id for POLYMER_LOWER of residue TYR 1.  Returning BOGUS ID instead.
core.conformation.Residue: [ WARNING ] missing an atom: 1  H   that depends on a nonexistent polymer connection! 
core.conformation.Residue: [ WARNING ]  --> generating it using idealized coordinates.
protocols.analysis.InterfaceAnalyzerMover: [ WARNING ] In InterfaceAnalyzerMover, calculator Sasa_1 already exists, this is hopefully correct for your purposes
protocols.analysis.InterfaceAnalyzerMover: [ WARNING ] In InterfaceAnalyzerMover, calculator InterfaceNeighborDefinition_1 already exists, this is hopefully correct for your purposes
protocols.analysis.InterfaceAnalyzerMover: [ WARNING ] In InterfaceAnalyzerMover, calculator InterfaceDeltaEnergetics_1 already exists, this is hopefully correct for your purposes
protocols.analysis.InterfaceAnalyzerMover: [ WARNING ] In InterfaceAnalyzerMover, calculator NumberHBonds_1 already exists, this is hopefully correct for your purposes
protocols.analysis.InterfaceAnalyzerMover: [ WARNING ] In InterfaceAnalyzerMover, calculator BuriedUnsatisfiedPolars_1 already exists, this is hopefully correct for your purposes
protocols.analysis.InterfaceAnalyzerMover: [ WARNING ] In InterfaceAnalyzerMover, calculator Sasa_1 already exists, this is hopefully correct for your purposes
protocols.analysis.InterfaceAnalyzerMover: [ WARNING ] In InterfaceAnalyzerMover, calculator InterfaceNeighborDefinition_1 already exists, this is hopefully correct for your purposes
protocols.analysis.InterfaceAnalyzerMover: [ WARNING ] In InterfaceAnalyzerMover, calculator InterfaceDeltaEnergetics_1 already exists, this is hopefully correct for your purposes
protocols.analysis.InterfaceAnalyzerMover: [ WARNING ] In InterfaceAnalyzerMover, calculator NumberHBonds_1 already exists, this is hopefully correct for your purposes
protocols.analysis.InterfaceAnalyzerMover: [ WARNING ] In InterfaceAnalyzerMover, calculator BuriedUnsatisfiedPolars_1 already exists, this is hopefully correct for your purposes
core.chemical.AtomICoor: [ WARNING ] IcoorAtomID::atom_id(): Cannot get atom_id for POLYMER_LOWER of residue TRP 1.  Returning BOGUS ID instead.
core.conformation.Residue: [ WARNING ] missing an atom: 1  H   that depends on a nonexistent polymer connection! 
core.conformation.Residue: [ WARNING ]  --> generating it using idealized coordinates.
basic.io.database: [ WARNING ] Unable to locate database file /sampling/antibodies/antibody_database_rosetta_design.db
basic.io.database: [ WARNING ] Unable to locate database file /sampling/antibodies/antibody_database_rosetta_design.db
core.chemical.AtomICoor: [ WARNING ] IcoorAtomID::atom_id(): Cannot get atom_id for POLYMER_LOWER of residue TRP 1.  Returning BOGUS ID instead.
core.conformation.Residue: [ WARNING ] missing an atom: 1  H   that depends on a nonexistent polymer connection! 
core.conformation.Residue: [ WARNING ]  --> generating it using idealized coordinates.
basic.io.database: [ WARNING ] Unable to locate database file /sampling/antibodies/antibody_database_rosetta_design.db
basic.io.database: [ WARNING ] Unable to locate database file /sampling/antibodies/antibody_database_rosetta_design.db
core.chemical.AtomICoor: [ WARNING ] IcoorAtomID::atom_id(): Cannot get atom_id for POLYMER_LOWER of residue TRP 1.  Returning BOGUS ID instead.
core.conformation.Residue: [ WARNING ] missing an atom: 1  H   that depends on a nonexistent polymer connection! 
core.conformation.Residue: [ WARNING ]  --> generating it using idealized coordinates.
basic.io.database: [ WARNING ] Unable to locate database file /sampling/antibodies/antibody_database_rosetta_design.db
basic.io.database: [ WARNING ] Unable to locate database file /sampling/antibodies/antibody_database_rosetta_design.db
core.chemical.AtomICoor: [ WARNING ] IcoorAtomID::atom_id(): Cannot get atom_id for POLYMER_LOWER of residue MET 1.  Returning BOGUS ID instead.
core.conformation.Residue: [ WARNING ] missing an atom: 1  H   that depends on a nonexistent polymer connection! 
core.conformation.Residue: [ WARNING ]  --> generating it using idealized coordinates.
basic.io.database: [ WARNING ] Unable to locate database file /sampling/antibodies/antibody_database_rosetta_design.db
basic.io.database: [ WARNING ] Unable to locate database file /sampling/antibodies/antibody_database_rosetta_design.db
core.chemical.AtomICoor: [ WARNING ] IcoorAtomID::atom_id(): Cannot get atom_id for POLYMER_LOWER of residue LEU 1.  Returning BOGUS ID instead.
core.conformation.Residue: [ WARNING ] missing an atom: 1  H   that depends on a nonexistent polymer connection! 
core.conformation.Residue: [ WARNING ]  --> generating it using idealized coordinates.
basic.io.database: [ WARNING ] Unable to locate database file /sampling/antibodies/antibody_database_rosetta_design.db
basic.io.database: [ WARNING ] Unable to locate database file /sampling/antibodies/antibody_database_rosetta_design.db
protocols.analysis.InterfaceAnalyzerMover: [ WARNING ] In InterfaceAnalyzerMover, calculator Sasa_1 already exists, this is hopefully correct for your purposes
protocols.analysis.InterfaceAnalyzerMover: [ WARNING ] In InterfaceAnalyzerMover, calculator InterfaceNeighborDefinition_1 already exists, this is hopefully correct for your purposes
protocols.analysis.InterfaceAnalyzerMover: [ WARNING ] In InterfaceAnalyzerMover, calculator InterfaceDeltaEnergetics_1 already exists, this is hopefully correct for your purposes
protocols.analysis.InterfaceAnalyzerMover: [ WARNING ] In InterfaceAnalyzerMover, calculator NumberHBonds_1 already exists, this is hopefully correct for your purposes
protocols.analysis.InterfaceAnalyzerMover: [ WARNING ] In InterfaceAnalyzerMover, calculator BuriedUnsatisfiedPolars_1 already exists, this is hopefully correct for your purposes
basic.io.database: [ WARNING ] Unable to locate database file /sampling/antibodies/antibody_database_rosetta_design.db
core.chemical.AtomICoor: [ WARNING ] IcoorAtomID::atom_id(): Cannot get atom_id for POLYMER_LOWER of residue LEU 1.  Returning BOGUS ID instead.
core.conformation.Residue: [ WARNING ] missing an atom: 1  H   that depends on a nonexistent polymer connection! 
core.conformation.Residue: [ WARNING ]  --> generating it using idealized coordinates.
core.chemical.AtomICoor: [ WARNING ] IcoorAtomID::atom_id(): Cannot get atom_id for POLYMER_LOWER of residue TRP 1.  Returning BOGUS ID instead.
core.conformation.Residue: [ WARNING ] missing an atom: 1  H   that depends on a nonexistent polymer connection! 
core.conformation.Residue: [ WARNING ]  --> generating it using idealized coordinates.
core.chemical.AtomICoor: [ WARNING ] IcoorAtomID::atom_id(): Cannot get atom_id for POLYMER_LOWER of residue ILE 1.  Returning BOGUS ID instead.
core.conformation.Residue: [ WARNING ] missing an atom: 1  H   that depends on a nonexistent polymer connection! 
core.conformation.Residue: [ WARNING ]  --> generating it using idealized coordinates.
core.chemical.AtomICoor: [ WARNING ] IcoorAtomID::atom_id(): Cannot get atom_id for POLYMER_LOWER of residue LEU 1.  Returning BOGUS ID instead.
core.conformation.Residue: [ WARNING ] missing an atom: 1  H   that depends on a nonexistent polymer connection! 
core.conformation.Residue: [ WARNING ]  --> generating it using idealized coordinates.
core.chemical.AtomICoor: [ WARNING ] IcoorAtomID::atom_id(): Cannot get atom_id for POLYMER_LOWER of residue TYR 1.  Returning BOGUS ID instead.
core.conformation.Residue: [ WARNING ] missing an atom: 1  H   that depends on a nonexistent polymer connection! 
core.conformation.Residue: [ WARNING ]  --> generating it using idealized coordinates.
protocols.analysis.InterfaceAnalyzerMover: [ WARNING ] In InterfaceAnalyzerMover, calculator Sasa_1 already exists, this is hopefully correct for your purposes
protocols.analysis.InterfaceAnalyzerMover: [ WARNING ] In InterfaceAnalyzerMover, calculator InterfaceNeighborDefinition_1 already exists, this is hopefully correct for your purposes
protocols.analysis.InterfaceAnalyzerMover: [ WARNING ] In InterfaceAnalyzerMover, calculator InterfaceDeltaEnergetics_1 already exists, this is hopefully correct for your purposes
protocols.analysis.InterfaceAnalyzerMover: [ WARNING ] In InterfaceAnalyzerMover, calculator NumberHBonds_1 already exists, this is hopefully correct for your purposes
protocols.analysis.InterfaceAnalyzerMover: [ WARNING ] In InterfaceAnalyzerMover, calculator BuriedUnsatisfiedPolars_1 already exists, this is hopefully correct for your purposes
protocols.analysis.InterfaceAnalyzerMover: [ WARNING ] In InterfaceAnalyzerMover, calculator Sasa_1 already exists, this is hopefully correct for your purposes
protocols.analysis.InterfaceAnalyzerMover: [ WARNING ] In InterfaceAnalyzerMover, calculator InterfaceNeighborDefinition_1 already exists, this is hopefully correct for your purposes
protocols.analysis.InterfaceAnalyzerMover: [ WARNING ] In InterfaceAnalyzerMover, calculator InterfaceDeltaEnergetics_1 already exists, this is hopefully correct for your purposes
protocols.analysis.InterfaceAnalyzerMover: [ WARNING ] In InterfaceAnalyzerMover, calculator NumberHBonds_1 already exists, this is hopefully correct for your purposes
protocols.analysis.InterfaceAnalyzerMover: [ WARNING ] In InterfaceAnalyzerMover, calculator BuriedUnsatisfiedPolars_1 already exists, this is hopefully correct for your purposes
core.chemical.AtomICoor: [ WARNING ] IcoorAtomID::atom_id(): Cannot get atom_id for POLYMER_LOWER of residue ILE 1.  Returning BOGUS ID instead.
core.conformation.Residue: [ WARNING ] missing an atom: 1  H   that depends on a nonexistent polymer connection! 
core.conformation.Residue: [ WARNING ]  --> generating it using idealized coordinates.
basic.io.database: [ WARNING ] Unable to locate database file /sampling/antibodies/antibody_database_rosetta_design.db
basic.io.database: [ WARNING ] Unable to locate database file /sampling/antibodies/antibody_database_rosetta_design.db
basic.io.database: [ WARNING ] Unable to locate database file /sampling/antibodies/antibody_database_rosetta_design.db
basic.io.database: [ WARNING ] Unable to locate database file /sampling/antibodies/antibody_database_rosetta_design.db
core.chemical.AtomICoor: [ WARNING ] IcoorAtomID::atom_id(): Cannot get atom_id for POLYMER_LOWER of residue ARG 1.  Returning BOGUS ID instead.
core.conformation.Residue: [ WARNING ] missing an atom: 1  H   that depends on a nonexistent polymer connection! 
core.conformation.Residue: [ WARNING ]  --> generating it using idealized coordinates.
basic.io.database: [ WARNING ] Unable to locate database file /sampling/antibodies/antibody_database_rosetta_design.db
basic.io.database: [ WARNING ] Unable to locate database file /sampling/antibodies/antibody_database_rosetta_design.db
core.chemical.AtomICoor: [ WARNING ] IcoorAtomID::atom_id(): Cannot get atom_id for POLYMER_LOWER of residue PHE 1.  Returning BOGUS ID instead.
core.conformation.Residue: [ WARNING ] missing an atom: 1  H   that depends on a nonexistent polymer connection! 
core.conformation.Residue: [ WARNING ]  --> generating it using idealized coordinates.
basic.io.database: [ WARNING ] Unable to locate database file /sampling/antibodies/antibody_database_rosetta_design.db
basic.io.database: [ WARNING ] Unable to locate database file /sampling/antibodies/antibody_database_rosetta_design.db
core.chemical.AtomICoor: [ WARNING ] IcoorAtomID::atom_id(): Cannot get atom_id for POLYMER_LOWER of residue LEU 1.  Returning BOGUS ID instead.
core.conformation.Residue: [ WARNING ] missing an atom: 1  H   that depends on a nonexistent polymer connection! 
core.conformation.Residue: [ WARNING ]  --> generating it using idealized coordinates.
basic.io.database: [ WARNING ] Unable to locate database file /sampling/antibodies/antibody_database_rosetta_design.db
basic.io.database: [ WARNING ] Unable to locate database file /sampling/antibodies/antibody_database_rosetta_design.db
protocols.antibody.cluster.CDRClusterMatcher: [ WARNING ] 
protocols.antibody.cluster.CDRClusterMatcher: [ WARNING ] *** No known cluster of CDR length 12 omega of TTTTTTTTTTTC found. ***
protocols.antibody.cluster.CDRClusterMatcher: [ WARNING ] *** Consider using the command-line option -allow_omega_mismatches_for_north_clusters to find the closest cluster! ***
protocols.antibody.cluster.CDRClusterMatcher: [ WARNING ] 
protocols.analysis.InterfaceAnalyzerMover: [ WARNING ] In InterfaceAnalyzerMover, calculator Sasa_1 already exists, this is hopefully correct for your purposes
protocols.analysis.InterfaceAnalyzerMover: [ WARNING ] In InterfaceAnalyzerMover, calculator InterfaceNeighborDefinition_1 already exists, this is hopefully correct for your purposes
protocols.analysis.InterfaceAnalyzerMover: [ WARNING ] In InterfaceAnalyzerMover, calculator InterfaceDeltaEnergetics_1 already exists, this is hopefully correct for your purposes
protocols.analysis.InterfaceAnalyzerMover: [ WARNING ] In InterfaceAnalyzerMover, calculator NumberHBonds_1 already exists, this is hopefully correct for your purposes
protocols.analysis.InterfaceAnalyzerMover: [ WARNING ] In InterfaceAnalyzerMover, calculator BuriedUnsatisfiedPolars_1 already exists, this is hopefully correct for your purposes
basic.io.database: [ WARNING ] Unable to locate database file /sampling/antibodies/antibody_database_rosetta_design.db
core.chemical.AtomICoor: [ WARNING ] IcoorAtomID::atom_id(): Cannot get atom_id for POLYMER_LOWER of residue MET 1.  Returning BOGUS ID instead.
core.conformation.Residue: [ WARNING ] missing an atom: 1  H   that depends on a nonexistent polymer connection! 
core.conformation.Residue: [ WARNING ]  --> generating it using idealized coordinates.
core.chemical.AtomICoor: [ WARNING ] IcoorAtomID::atom_id(): Cannot get atom_id for POLYMER_LOWER of residue TRP 1.  Returning BOGUS ID instead.
core.conformation.Residue: [ WARNING ] missing an atom: 1  H   that depends on a nonexistent polymer connection! 
core.conformation.Residue: [ WARNING ]  --> generating it using idealized coordinates.
core.chemical.AtomICoor: [ WARNING ] IcoorAtomID::atom_id(): Cannot get atom_id for POLYMER_LOWER of residue PHE 1.  Returning BOGUS ID instead.
core.conformation.Residue: [ WARNING ] missing an atom: 1  H   that depends on a nonexistent polymer connection! 
core.conformation.Residue: [ WARNING ]  --> generating it using idealized coordinates.
core.chemical.AtomICoor: [ WARNING ] IcoorAtomID::atom_id(): Cannot get atom_id for POLYMER_LOWER of residue LEU 1.  Returning BOGUS ID instead.
core.conformation.Residue: [ WARNING ] missing an atom: 1  H   that depends on a nonexistent polymer connection! 
core.conformation.Residue: [ WARNING ]  --> generating it using idealized coordinates.
core.chemical.AtomICoor: [ WARNING ] IcoorAtomID::atom_id(): Cannot get atom_id for POLYMER_LOWER of residue TYR 1.  Returning BOGUS ID instead.
core.conformation.Residue: [ WARNING ] missing an atom: 1  H   that depends on a nonexistent polymer connection! 
core.conformation.Residue: [ WARNING ]  --> generating it using idealized coordinates.
protocols.analysis.InterfaceAnalyzerMover: [ WARNING ] In InterfaceAnalyzerMover, calculator Sasa_1 already exists, this is hopefully correct for your purposes
protocols.analysis.InterfaceAnalyzerMover: [ WARNING ] In InterfaceAnalyzerMover, calculator InterfaceNeighborDefinition_1 already exists, this is hopefully correct for your purposes
protocols.analysis.InterfaceAnalyzerMover: [ WARNING ] In InterfaceAnalyzerMover, calculator InterfaceDeltaEnergetics_1 already exists, this is hopefully correct for your purposes
protocols.analysis.InterfaceAnalyzerMover: [ WARNING ] In InterfaceAnalyzerMover, calculator NumberHBonds_1 already exists, this is hopefully correct for your purposes
protocols.analysis.InterfaceAnalyzerMover: [ WARNING ] In InterfaceAnalyzerMover, calculator BuriedUnsatisfiedPolars_1 already exists, this is hopefully correct for your purposes
protocols.analysis.InterfaceAnalyzerMover: [ WARNING ] In InterfaceAnalyzerMover, calculator Sasa_1 already exists, this is hopefully correct for your purposes
protocols.analysis.InterfaceAnalyzerMover: [ WARNING ] In InterfaceAnalyzerMover, calculator InterfaceNeighborDefinition_1 already exists, this is hopefully correct for your purposes
protocols.analysis.InterfaceAnalyzerMover: [ WARNING ] In InterfaceAnalyzerMover, calculator InterfaceDeltaEnergetics_1 already exists, this is hopefully correct for your purposes
protocols.analysis.InterfaceAnalyzerMover: [ WARNING ] In InterfaceAnalyzerMover, calculator NumberHBonds_1 already exists, this is hopefully correct for your purposes
protocols.analysis.InterfaceAnalyzerMover: [ WARNING ] In InterfaceAnalyzerMover, calculator BuriedUnsatisfiedPolars_1 already exists, this is hopefully correct for your purposes
basic.io.database: [ WARNING ] Unable to locate database file /sampling/antibodies/antibody_database_rosetta_design.db
basic.io.database: [ WARNING ] Unable to locate database file /sampling/antibodies/antibody_database_rosetta_design.db
core.chemical.AtomICoor: [ WARNING ] IcoorAtomID::atom_id(): Cannot get atom_id for POLYMER_LOWER of residue LEU 1.  Returning BOGUS ID instead.
core.conformation.Residue: [ WARNING ] missing an atom: 1  H   that depends on a nonexistent polymer connection! 
core.conformation.Residue: [ WARNING ]  --> generating it using idealized coordinates.
basic.io.database: [ WARNING ] Unable to locate database file /sampling/antibodies/antibody_database_rosetta_design.db
basic.io.database: [ WARNING ] Unable to locate database file /sampling/antibodies/antibody_database_rosetta_design.db
core.chemical.AtomICoor: [ WARNING ] IcoorAtomID::atom_id(): Cannot get atom_id for POLYMER_LOWER of residue LEU 1.  Returning BOGUS ID instead.
core.conformation.Residue: [ WARNING ] missing an atom: 1  H   that depends on a nonexistent polymer connection! 
core.conformation.Residue: [ WARNING ]  --> generating it using idealized coordinates.
basic.io.database: [ WARNING ] Unable to locate database file /sampling/antibodies/antibody_database_rosetta_design.db
basic.io.database: [ WARNING ] Unable to locate database file /sampling/antibodies/antibody_database_rosetta_design.db
core.chemical.AtomICoor: [ WARNING ] IcoorAtomID::atom_id(): Cannot get atom_id for POLYMER_LOWER of residue TRP 1.  Returning BOGUS ID instead.
core.conformation.Residue: [ WARNING ] missing an atom: 1  H   that depends on a nonexistent polymer connection! 
core.conformation.Residue: [ WARNING ]  --> generating it using idealized coordinates.
basic.io.database: [ WARNING ] Unable to locate database file /sampling/antibodies/antibody_database_rosetta_design.db
basic.io.database: [ WARNING ] Unable to locate database file /sampling/antibodies/antibody_database_rosetta_design.db
core.chemical.AtomICoor: [ WARNING ] IcoorAtomID::atom_id(): Cannot get atom_id for POLYMER_LOWER of residue TYR 1.  Returning BOGUS ID instead.
core.conformation.Residue: [ WARNING ] missing an atom: 1  H   that depends on a nonexistent polymer connection! 
core.conformation.Residue: [ WARNING ]  --> generating it using idealized coordinates.
basic.io.database: [ WARNING ] Unable to locate database file /sampling/antibodies/antibody_database_rosetta_design.db
basic.io.database: [ WARNING ] Unable to locate database file /sampling/antibodies/antibody_database_rosetta_design.db
protocols.antibody.cluster.CDRClusterMatcher: [ WARNING ] 
protocols.antibody.cluster.CDRClusterMatcher: [ WARNING ] *** No known cluster of CDR length 9 omega of TTTTTTTTC found. ***
protocols.antibody.cluster.CDRClusterMatcher: [ WARNING ] *** Consider using the command-line option -allow_omega_mismatches_for_north_clusters to find the closest cluster! ***
protocols.antibody.cluster.CDRClusterMatcher: [ WARNING ] 
protocols.antibody.cluster.CDRClusterMatcher: [ WARNING ] 
protocols.antibody.cluster.CDRClusterMatcher: [ WARNING ] *** No known cluster of CDR length 9 omega of TTTTTTTTC found. ***
protocols.antibody.cluster.CDRClusterMatcher: [ WARNING ] *** Consider using the command-line option -allow_omega_mismatches_for_north_clusters to find the closest cluster! ***
protocols.antibody.cluster.CDRClusterMatcher: [ WARNING ] 
protocols.analysis.InterfaceAnalyzerMover: [ WARNING ] In InterfaceAnalyzerMover, calculator Sasa_1 already exists, this is hopefully correct for your purposes
protocols.analysis.InterfaceAnalyzerMover: [ WARNING ] In InterfaceAnalyzerMover, calculator InterfaceNeighborDefinition_1 already exists, this is hopefully correct for your purposes
protocols.analysis.InterfaceAnalyzerMover: [ WARNING ] In InterfaceAnalyzerMover, calculator InterfaceDeltaEnergetics_1 already exists, this is hopefully correct for your purposes
protocols.analysis.InterfaceAnalyzerMover: [ WARNING ] In InterfaceAnalyzerMover, calculator NumberHBonds_1 already exists, this is hopefully correct for your purposes
protocols.analysis.InterfaceAnalyzerMover: [ WARNING ] In InterfaceAnalyzerMover, calculator BuriedUnsatisfiedPolars_1 already exists, this is hopefully correct for your purposes
protocols.jd2.JobDistributor: [ WARNING ] The following options have been set, but have not yet been used:
basic.io.database: [ WARNING ] Unable to locate database file /sampling/antibodies/antibody_database_rosetta_design.db
core.chemical.AtomICoor: [ WARNING ] IcoorAtomID::atom_id(): Cannot get atom_id for POLYMER_LOWER of residue LEU 1.  Returning BOGUS ID instead.
core.conformation.Residue: [ WARNING ] missing an atom: 1  H   that depends on a nonexistent polymer connection! 
core.conformation.Residue: [ WARNING ]  --> generating it using idealized coordinates.
core.chemical.AtomICoor: [ WARNING ] IcoorAtomID::atom_id(): Cannot get atom_id for POLYMER_LOWER of residue TRP 1.  Returning BOGUS ID instead.
core.conformation.Residue: [ WARNING ] missing an atom: 1  H   that depends on a nonexistent polymer connection! 
core.conformation.Residue: [ WARNING ]  --> generating it using idealized coordinates.
core.chemical.AtomICoor: [ WARNING ] IcoorAtomID::atom_id(): Cannot get atom_id for POLYMER_LOWER of residue ILE 1.  Returning BOGUS ID instead.
core.conformation.Residue: [ WARNING ] missing an atom: 1  H   that depends on a nonexistent polymer connection! 
core.conformation.Residue: [ WARNING ]  --> generating it using idealized coordinates.
core.chemical.AtomICoor: [ WARNING ] IcoorAtomID::atom_id(): Cannot get atom_id for POLYMER_LOWER of residue LEU 1.  Returning BOGUS ID instead.
core.conformation.Residue: [ WARNING ] missing an atom: 1  H   that depends on a nonexistent polymer connection! 
core.conformation.Residue: [ WARNING ]  --> generating it using idealized coordinates.
core.chemical.AtomICoor: [ WARNING ] IcoorAtomID::atom_id(): Cannot get atom_id for POLYMER_LOWER of residue TYR 1.  Returning BOGUS ID instead.
core.conformation.Residue: [ WARNING ] missing an atom: 1  H   that depends on a nonexistent polymer connection! 
core.conformation.Residue: [ WARNING ]  --> generating it using idealized coordinates.
protocols.analysis.InterfaceAnalyzerMover: [ WARNING ] In InterfaceAnalyzerMover, calculator Sasa_1 already exists, this is hopefully correct for your purposes
protocols.analysis.InterfaceAnalyzerMover: [ WARNING ] In InterfaceAnalyzerMover, calculator InterfaceNeighborDefinition_1 already exists, this is hopefully correct for your purposes
protocols.analysis.InterfaceAnalyzerMover: [ WARNING ] In InterfaceAnalyzerMover, calculator InterfaceDeltaEnergetics_1 already exists, this is hopefully correct for your purposes
protocols.analysis.InterfaceAnalyzerMover: [ WARNING ] In InterfaceAnalyzerMover, calculator NumberHBonds_1 already exists, this is hopefully correct for your purposes
protocols.analysis.InterfaceAnalyzerMover: [ WARNING ] In InterfaceAnalyzerMover, calculator BuriedUnsatisfiedPolars_1 already exists, this is hopefully correct for your purposes
core.chemical.AtomICoor: [ WARNING ] IcoorAtomID::atom_id(): Cannot get atom_id for POLYMER_LOWER of residue TYR 1.  Returning BOGUS ID instead.
core.conformation.Residue: [ WARNING ] missing an atom: 1  H   that depends on a nonexistent polymer connection! 
core.conformation.Residue: [ WARNING ]  --> generating it using idealized coordinates.
basic.io.database: [ WARNING ] Unable to locate database file /sampling/antibodies/antibody_database_rosetta_design.db
basic.io.database: [ WARNING ] Unable to locate database file /sampling/antibodies/antibody_database_rosetta_design.db
core.chemical.AtomICoor: [ WARNING ] IcoorAtomID::atom_id(): Cannot get atom_id for POLYMER_LOWER of residue ILE 1.  Returning BOGUS ID instead.
core.conformation.Residue: [ WARNING ] missing an atom: 1  H   that depends on a nonexistent polymer connection! 
core.conformation.Residue: [ WARNING ]  --> generating it using idealized coordinates.
basic.io.database: [ WARNING ] Unable to locate database file /sampling/antibodies/antibody_database_rosetta_design.db
basic.io.database: [ WARNING ] Unable to locate database file /sampling/antibodies/antibody_database_rosetta_design.db
basic.io.database: [ WARNING ] Unable to locate database file /sampling/antibodies/antibody_database_rosetta_design.db
basic.io.database: [ WARNING ] Unable to locate database file /sampling/antibodies/antibody_database_rosetta_design.db
core.chemical.AtomICoor: [ WARNING ] IcoorAtomID::atom_id(): Cannot get atom_id for POLYMER_LOWER of residue LEU 1.  Returning BOGUS ID instead.
core.conformation.Residue: [ WARNING ] missing an atom: 1  H   that depends on a nonexistent polymer connection! 
core.conformation.Residue: [ WARNING ]  --> generating it using idealized coordinates.
basic.io.database: [ WARNING ] Unable to locate database file /sampling/antibodies/antibody_database_rosetta_design.db
basic.io.database: [ WARNING ] Unable to locate database file /sampling/antibodies/antibody_database_rosetta_design.db
core.chemical.AtomICoor: [ WARNING ] IcoorAtomID::atom_id(): Cannot get atom_id for POLYMER_LOWER of residue ILE 1.  Returning BOGUS ID instead.
core.conformation.Residue: [ WARNING ] missing an atom: 1  H   that depends on a nonexistent polymer connection! 
core.conformation.Residue: [ WARNING ]  --> generating it using idealized coordinates.
basic.io.database: [ WARNING ] Unable to locate database file /sampling/antibodies/antibody_database_rosetta_design.db
basic.io.database: [ WARNING ] Unable to locate database file /sampling/antibodies/antibody_database_rosetta_design.db
protocols.analysis.InterfaceAnalyzerMover: [ WARNING ] In InterfaceAnalyzerMover, calculator Sasa_1 already exists, this is hopefully correct for your purposes
protocols.analysis.InterfaceAnalyzerMover: [ WARNING ] In InterfaceAnalyzerMover, calculator InterfaceNeighborDefinition_1 already exists, this is hopefully correct for your purposes
protocols.analysis.InterfaceAnalyzerMover: [ WARNING ] In InterfaceAnalyzerMover, calculator InterfaceDeltaEnergetics_1 already exists, this is hopefully correct for your purposes
protocols.analysis.InterfaceAnalyzerMover: [ WARNING ] In InterfaceAnalyzerMover, calculator NumberHBonds_1 already exists, this is hopefully correct for your purposes
protocols.analysis.InterfaceAnalyzerMover: [ WARNING ] In InterfaceAnalyzerMover, calculator BuriedUnsatisfiedPolars_1 already exists, this is hopefully correct for your purposes
basic.io.database: [ WARNING ] Unable to locate database file /sampling/antibodies/antibody_database_rosetta_design.db
core.chemical.AtomICoor: [ WARNING ] IcoorAtomID::atom_id(): Cannot get atom_id for POLYMER_LOWER of residue LEU 1.  Returning BOGUS ID instead.
core.conformation.Residue: [ WARNING ] missing an atom: 1  H   that depends on a nonexistent polymer connection! 
core.conformation.Residue: [ WARNING ]  --> generating it using idealized coordinates.
core.chemical.AtomICoor: [ WARNING ] IcoorAtomID::atom_id(): Cannot get atom_id for POLYMER_LOWER of residue TYR 1.  Returning BOGUS ID instead.
core.conformation.Residue: [ WARNING ] missing an atom: 1  H   that depends on a nonexistent polymer connection! 
core.conformation.Residue: [ WARNING ]  --> generating it using idealized coordinates.
core.chemical.AtomICoor: [ WARNING ] IcoorAtomID::atom_id(): Cannot get atom_id for POLYMER_LOWER of residue ILE 1.  Returning BOGUS ID instead.
core.conformation.Residue: [ WARNING ] missing an atom: 1  H   that depends on a nonexistent polymer connection! 
core.conformation.Residue: [ WARNING ]  --> generating it using idealized coordinates.
core.chemical.AtomICoor: [ WARNING ] IcoorAtomID::atom_id(): Cannot get atom_id for POLYMER_LOWER of residue LEU 1.  Returning BOGUS ID instead.
core.conformation.Residue: [ WARNING ] missing an atom: 1  H   that depends on a nonexistent polymer connection! 
core.conformation.Residue: [ WARNING ]  --> generating it using idealized coordinates.
core.chemical.AtomICoor: [ WARNING ] IcoorAtomID::atom_id(): Cannot get atom_id for POLYMER_LOWER of residue TYR 1.  Returning BOGUS ID instead.
core.conformation.Residue: [ WARNING ] missing an atom: 1  H   that depends on a nonexistent polymer connection! 
core.conformation.Residue: [ WARNING ]  --> generating it using idealized coordinates.
protocols.analysis.InterfaceAnalyzerMover: [ WARNING ] In InterfaceAnalyzerMover, calculator Sasa_1 already exists, this is hopefully correct for your purposes
protocols.analysis.InterfaceAnalyzerMover: [ WARNING ] In InterfaceAnalyzerMover, calculator InterfaceNeighborDefinition_1 already exists, this is hopefully correct for your purposes
protocols.analysis.InterfaceAnalyzerMover: [ WARNING ] In InterfaceAnalyzerMover, calculator InterfaceDeltaEnergetics_1 already exists, this is hopefully correct for your purposes
protocols.analysis.InterfaceAnalyzerMover: [ WARNING ] In InterfaceAnalyzerMover, calculator NumberHBonds_1 already exists, this is hopefully correct for your purposes
protocols.analysis.InterfaceAnalyzerMover: [ WARNING ] In InterfaceAnalyzerMover, calculator BuriedUnsatisfiedPolars_1 already exists, this is hopefully correct for your purposes
protocols.analysis.InterfaceAnalyzerMover: [ WARNING ] In InterfaceAnalyzerMover, calculator Sasa_1 already exists, this is hopefully correct for your purposes
protocols.analysis.InterfaceAnalyzerMover: [ WARNING ] In InterfaceAnalyzerMover, calculator InterfaceNeighborDefinition_1 already exists, this is hopefully correct for your purposes
protocols.analysis.InterfaceAnalyzerMover: [ WARNING ] In InterfaceAnalyzerMover, calculator InterfaceDeltaEnergetics_1 already exists, this is hopefully correct for your purposes
protocols.analysis.InterfaceAnalyzerMover: [ WARNING ] In InterfaceAnalyzerMover, calculator NumberHBonds_1 already exists, this is hopefully correct for your purposes
protocols.analysis.InterfaceAnalyzerMover: [ WARNING ] In InterfaceAnalyzerMover, calculator BuriedUnsatisfiedPolars_1 already exists, this is hopefully correct for your purposes
core.chemical.AtomICoor: [ WARNING ] IcoorAtomID::atom_id(): Cannot get atom_id for POLYMER_LOWER of residue TRP 1.  Returning BOGUS ID instead.
core.conformation.Residue: [ WARNING ] missing an atom: 1  H   that depends on a nonexistent polymer connection! 
core.conformation.Residue: [ WARNING ]  --> generating it using idealized coordinates.
basic.io.database: [ WARNING ] Unable to locate database file /sampling/antibodies/antibody_database_rosetta_design.db
basic.io.database: [ WARNING ] Unable to locate database file /sampling/antibodies/antibody_database_rosetta_design.db
core.chemical.AtomICoor: [ WARNING ] IcoorAtomID::atom_id(): Cannot get atom_id for POLYMER_LOWER of residue TYR 1.  Returning BOGUS ID instead.
core.conformation.Residue: [ WARNING ] missing an atom: 1  H   that depends on a nonexistent polymer connection! 
core.conformation.Residue: [ WARNING ]  --> generating it using idealized coordinates.
basic.io.database: [ WARNING ] Unable to locate database file /sampling/antibodies/antibody_database_rosetta_design.db
basic.io.database: [ WARNING ] Unable to locate database file /sampling/antibodies/antibody_database_rosetta_design.db
core.chemical.AtomICoor: [ WARNING ] IcoorAtomID::atom_id(): Cannot get atom_id for POLYMER_LOWER of residue LEU 1.  Returning BOGUS ID instead.
core.conformation.Residue: [ WARNING ] missing an atom: 1  H   that depends on a nonexistent polymer connection! 
core.conformation.Residue: [ WARNING ]  --> generating it using idealized coordinates.
basic.io.database: [ WARNING ] Unable to locate database file /sampling/antibodies/antibody_database_rosetta_design.db
basic.io.database: [ WARNING ] Unable to locate database file /sampling/antibodies/antibody_database_rosetta_design.db
core.chemical.AtomICoor: [ WARNING ] IcoorAtomID::atom_id(): Cannot get atom_id for POLYMER_LOWER of residue LEU 1.  Returning BOGUS ID instead.
core.conformation.Residue: [ WARNING ] missing an atom: 1  H   that depends on a nonexistent polymer connection! 
core.conformation.Residue: [ WARNING ]  --> generating it using idealized coordinates.
basic.io.database: [ WARNING ] Unable to locate database file /sampling/antibodies/antibody_database_rosetta_design.db
basic.io.database: [ WARNING ] Unable to locate database file /sampling/antibodies/antibody_database_rosetta_design.db
basic.io.database: [ WARNING ] Unable to locate database file /sampling/antibodies/antibody_database_rosetta_design.db
basic.io.database: [ WARNING ] Unable to locate database file /sampling/antibodies/antibody_database_rosetta_design.db
protocols.analysis.InterfaceAnalyzerMover: [ WARNING ] In InterfaceAnalyzerMover, calculator Sasa_1 already exists, this is hopefully correct for your purposes
protocols.analysis.InterfaceAnalyzerMover: [ WARNING ] In InterfaceAnalyzerMover, calculator InterfaceNeighborDefinition_1 already exists, this is hopefully correct for your purposes
protocols.analysis.InterfaceAnalyzerMover: [ WARNING ] In InterfaceAnalyzerMover, calculator InterfaceDeltaEnergetics_1 already exists, this is hopefully correct for your purposes
protocols.analysis.InterfaceAnalyzerMover: [ WARNING ] In InterfaceAnalyzerMover, calculator NumberHBonds_1 already exists, this is hopefully correct for your purposes
protocols.analysis.InterfaceAnalyzerMover: [ WARNING ] In InterfaceAnalyzerMover, calculator BuriedUnsatisfiedPolars_1 already exists, this is hopefully correct for your purposes
basic.io.database: [ WARNING ] Unable to locate database file /sampling/antibodies/antibody_database_rosetta_design.db
core.chemical.AtomICoor: [ WARNING ] IcoorAtomID::atom_id(): Cannot get atom_id for POLYMER_LOWER of residue LEU 1.  Returning BOGUS ID instead.
core.conformation.Residue: [ WARNING ] missing an atom: 1  H   that depends on a nonexistent polymer connection! 
core.conformation.Residue: [ WARNING ]  --> generating it using idealized coordinates.
core.chemical.AtomICoor: [ WARNING ] IcoorAtomID::atom_id(): Cannot get atom_id for POLYMER_LOWER of residue TRP 1.  Returning BOGUS ID instead.
core.conformation.Residue: [ WARNING ] missing an atom: 1  H   that depends on a nonexistent polymer connection! 
core.conformation.Residue: [ WARNING ]  --> generating it using idealized coordinates.
core.chemical.AtomICoor: [ WARNING ] IcoorAtomID::atom_id(): Cannot get atom_id for POLYMER_LOWER of residue ILE 1.  Returning BOGUS ID instead.
core.conformation.Residue: [ WARNING ] missing an atom: 1  H   that depends on a nonexistent polymer connection! 
core.conformation.Residue: [ WARNING ]  --> generating it using idealized coordinates.
core.chemical.AtomICoor: [ WARNING ] IcoorAtomID::atom_id(): Cannot get atom_id for POLYMER_LOWER of residue LEU 1.  Returning BOGUS ID instead.
core.conformation.Residue: [ WARNING ] missing an atom: 1  H   that depends on a nonexistent polymer connection! 
core.conformation.Residue: [ WARNING ]  --> generating it using idealized coordinates.
core.chemical.AtomICoor: [ WARNING ] IcoorAtomID::atom_id(): Cannot get atom_id for POLYMER_LOWER of residue TYR 1.  Returning BOGUS ID instead.
core.conformation.Residue: [ WARNING ] missing an atom: 1  H   that depends on a nonexistent polymer connection! 
core.conformation.Residue: [ WARNING ]  --> generating it using idealized coordinates.
protocols.analysis.InterfaceAnalyzerMover: [ WARNING ] In InterfaceAnalyzerMover, calculator Sasa_1 already exists, this is hopefully correct for your purposes
protocols.analysis.InterfaceAnalyzerMover: [ WARNING ] In InterfaceAnalyzerMover, calculator InterfaceNeighborDefinition_1 already exists, this is hopefully correct for your purposes
protocols.analysis.InterfaceAnalyzerMover: [ WARNING ] In InterfaceAnalyzerMover, calculator InterfaceDeltaEnergetics_1 already exists, this is hopefully correct for your purposes
protocols.analysis.InterfaceAnalyzerMover: [ WARNING ] In InterfaceAnalyzerMover, calculator NumberHBonds_1 already exists, this is hopefully correct for your purposes
protocols.analysis.InterfaceAnalyzerMover: [ WARNING ] In InterfaceAnalyzerMover, calculator BuriedUnsatisfiedPolars_1 already exists, this is hopefully correct for your purposes
protocols.analysis.InterfaceAnalyzerMover: [ WARNING ] In InterfaceAnalyzerMover, calculator Sasa_1 already exists, this is hopefully correct for your purposes
protocols.analysis.InterfaceAnalyzerMover: [ WARNING ] In InterfaceAnalyzerMover, calculator InterfaceNeighborDefinition_1 already exists, this is hopefully correct for your purposes
protocols.analysis.InterfaceAnalyzerMover: [ WARNING ] In InterfaceAnalyzerMover, calculator InterfaceDeltaEnergetics_1 already exists, this is hopefully correct for your purposes
protocols.analysis.InterfaceAnalyzerMover: [ WARNING ] In InterfaceAnalyzerMover, calculator NumberHBonds_1 already exists, this is hopefully correct for your purposes
protocols.analysis.InterfaceAnalyzerMover: [ WARNING ] In InterfaceAnalyzerMover, calculator BuriedUnsatisfiedPolars_1 already exists, this is hopefully correct for your purposes
core.chemical.AtomICoor: [ WARNING ] IcoorAtomID::atom_id(): Cannot get atom_id for POLYMER_LOWER of residue ILE 1.  Returning BOGUS ID instead.
core.conformation.Residue: [ WARNING ] missing an atom: 1  H   that depends on a nonexistent polymer connection! 
core.conformation.Residue: [ WARNING ]  --> generating it using idealized coordinates.
basic.io.database: [ WARNING ] Unable to locate database file /sampling/antibodies/antibody_database_rosetta_design.db
basic.io.database: [ WARNING ] Unable to locate database file /sampling/antibodies/antibody_database_rosetta_design.db
basic.io.database: [ WARNING ] Unable to locate database file /sampling/antibodies/antibody_database_rosetta_design.db
basic.io.database: [ WARNING ] Unable to locate database file /sampling/antibodies/antibody_database_rosetta_design.db
core.chemical.AtomICoor: [ WARNING ] IcoorAtomID::atom_id(): Cannot get atom_id for POLYMER_LOWER of residue PHE 1.  Returning BOGUS ID instead.
core.conformation.Residue: [ WARNING ] missing an atom: 1  H   that depends on a nonexistent polymer connection! 
core.conformation.Residue: [ WARNING ]  --> generating it using idealized coordinates.
basic.io.database: [ WARNING ] Unable to locate database file /sampling/antibodies/antibody_database_rosetta_design.db
basic.io.database: [ WARNING ] Unable to locate database file /sampling/antibodies/antibody_database_rosetta_design.db
basic.io.database: [ WARNING ] Unable to locate database file /sampling/antibodies/antibody_database_rosetta_design.db
basic.io.database: [ WARNING ] Unable to locate database file /sampling/antibodies/antibody_database_rosetta_design.db
core.chemical.AtomICoor: [ WARNING ] IcoorAtomID::atom_id(): Cannot get atom_id for POLYMER_LOWER of residue TRP 1.  Returning BOGUS ID instead.
core.conformation.Residue: [ WARNING ] missing an atom: 1  H   that depends on a nonexistent polymer connection! 
core.conformation.Residue: [ WARNING ]  --> generating it using idealized coordinates.
basic.io.database: [ WARNING ] Unable to locate database file /sampling/antibodies/antibody_database_rosetta_design.db
basic.io.database: [ WARNING ] Unable to locate database file /sampling/antibodies/antibody_database_rosetta_design.db
protocols.analysis.InterfaceAnalyzerMover: [ WARNING ] In InterfaceAnalyzerMover, calculator Sasa_1 already exists, this is hopefully correct for your purposes
protocols.analysis.InterfaceAnalyzerMover: [ WARNING ] In InterfaceAnalyzerMover, calculator InterfaceNeighborDefinition_1 already exists, this is hopefully correct for your purposes
protocols.analysis.InterfaceAnalyzerMover: [ WARNING ] In InterfaceAnalyzerMover, calculator InterfaceDeltaEnergetics_1 already exists, this is hopefully correct for your purposes
protocols.analysis.InterfaceAnalyzerMover: [ WARNING ] In InterfaceAnalyzerMover, calculator NumberHBonds_1 already exists, this is hopefully correct for your purposes
protocols.analysis.InterfaceAnalyzerMover: [ WARNING ] In InterfaceAnalyzerMover, calculator BuriedUnsatisfiedPolars_1 already exists, this is hopefully correct for your purposes
basic.io.database: [ WARNING ] Unable to locate database file /sampling/antibodies/antibody_database_rosetta_design.db
core.chemical.AtomICoor: [ WARNING ] IcoorAtomID::atom_id(): Cannot get atom_id for POLYMER_LOWER of residue LEU 1.  Returning BOGUS ID instead.
core.conformation.Residue: [ WARNING ] missing an atom: 1  H   that depends on a nonexistent polymer connection! 
core.conformation.Residue: [ WARNING ]  --> generating it using idealized coordinates.
core.chemical.AtomICoor: [ WARNING ] IcoorAtomID::atom_id(): Cannot get atom_id for POLYMER_LOWER of residue TYR 1.  Returning BOGUS ID instead.
core.conformation.Residue: [ WARNING ] missing an atom: 1  H   that depends on a nonexistent polymer connection! 
core.conformation.Residue: [ WARNING ]  --> generating it using idealized coordinates.
core.chemical.AtomICoor: [ WARNING ] IcoorAtomID::atom_id(): Cannot get atom_id for POLYMER_LOWER of residue ILE 1.  Returning BOGUS ID instead.
core.conformation.Residue: [ WARNING ] missing an atom: 1  H   that depends on a nonexistent polymer connection! 
core.conformation.Residue: [ WARNING ]  --> generating it using idealized coordinates.
core.chemical.AtomICoor: [ WARNING ] IcoorAtomID::atom_id(): Cannot get atom_id for POLYMER_LOWER of residue LEU 1.  Returning BOGUS ID instead.
core.conformation.Residue: [ WARNING ] missing an atom: 1  H   that depends on a nonexistent polymer connection! 
core.conformation.Residue: [ WARNING ]  --> generating it using idealized coordinates.
core.chemical.AtomICoor: [ WARNING ] IcoorAtomID::atom_id(): Cannot get atom_id for POLYMER_LOWER of residue TYR 1.  Returning BOGUS ID instead.
core.conformation.Residue: [ WARNING ] missing an atom: 1  H   that depends on a nonexistent polymer connection! 
core.conformation.Residue: [ WARNING ]  --> generating it using idealized coordinates.
protocols.analysis.InterfaceAnalyzerMover: [ WARNING ] In InterfaceAnalyzerMover, calculator Sasa_1 already exists, this is hopefully correct for your purposes
protocols.analysis.InterfaceAnalyzerMover: [ WARNING ] In InterfaceAnalyzerMover, calculator InterfaceNeighborDefinition_1 already exists, this is hopefully correct for your purposes
protocols.analysis.InterfaceAnalyzerMover: [ WARNING ] In InterfaceAnalyzerMover, calculator InterfaceDeltaEnergetics_1 already exists, this is hopefully correct for your purposes
protocols.analysis.InterfaceAnalyzerMover: [ WARNING ] In InterfaceAnalyzerMover, calculator NumberHBonds_1 already exists, this is hopefully correct for your purposes
protocols.analysis.InterfaceAnalyzerMover: [ WARNING ] In InterfaceAnalyzerMover, calculator BuriedUnsatisfiedPolars_1 already exists, this is hopefully correct for your purposes
protocols.analysis.InterfaceAnalyzerMover: [ WARNING ] In InterfaceAnalyzerMover, calculator Sasa_1 already exists, this is hopefully correct for your purposes
protocols.analysis.InterfaceAnalyzerMover: [ WARNING ] In InterfaceAnalyzerMover, calculator InterfaceNeighborDefinition_1 already exists, this is hopefully correct for your purposes
protocols.analysis.InterfaceAnalyzerMover: [ WARNING ] In InterfaceAnalyzerMover, calculator InterfaceDeltaEnergetics_1 already exists, this is hopefully correct for your purposes
protocols.analysis.InterfaceAnalyzerMover: [ WARNING ] In InterfaceAnalyzerMover, calculator NumberHBonds_1 already exists, this is hopefully correct for your purposes
protocols.analysis.InterfaceAnalyzerMover: [ WARNING ] In InterfaceAnalyzerMover, calculator BuriedUnsatisfiedPolars_1 already exists, this is hopefully correct for your purposes
core.chemical.AtomICoor: [ WARNING ] IcoorAtomID::atom_id(): Cannot get atom_id for POLYMER_LOWER of residue LEU 1.  Returning BOGUS ID instead.
core.conformation.Residue: [ WARNING ] missing an atom: 1  H   that depends on a nonexistent polymer connection! 
core.conformation.Residue: [ WARNING ]  --> generating it using idealized coordinates.
basic.io.database: [ WARNING ] Unable to locate database file /sampling/antibodies/antibody_database_rosetta_design.db
basic.io.database: [ WARNING ] Unable to locate database file /sampling/antibodies/antibody_database_rosetta_design.db
core.chemical.AtomICoor: [ WARNING ] IcoorAtomID::atom_id(): Cannot get atom_id for POLYMER_LOWER of residue TYR 1.  Returning BOGUS ID instead.
core.conformation.Residue: [ WARNING ] missing an atom: 1  H   that depends on a nonexistent polymer connection! 
core.conformation.Residue: [ WARNING ]  --> generating it using idealized coordinates.
basic.io.database: [ WARNING ] Unable to locate database file /sampling/antibodies/antibody_database_rosetta_design.db
basic.io.database: [ WARNING ] Unable to locate database file /sampling/antibodies/antibody_database_rosetta_design.db
core.chemical.AtomICoor: [ WARNING ] IcoorAtomID::atom_id(): Cannot get atom_id for POLYMER_LOWER of residue MET 1.  Returning BOGUS ID instead.
core.conformation.Residue: [ WARNING ] missing an atom: 1  H   that depends on a nonexistent polymer connection! 
core.conformation.Residue: [ WARNING ]  --> generating it using idealized coordinates.
basic.io.database: [ WARNING ] Unable to locate database file /sampling/antibodies/antibody_database_rosetta_design.db
basic.io.database: [ WARNING ] Unable to locate database file /sampling/antibodies/antibody_database_rosetta_design.db
core.chemical.AtomICoor: [ WARNING ] IcoorAtomID::atom_id(): Cannot get atom_id for POLYMER_LOWER of residue TYR 1.  Returning BOGUS ID instead.
core.conformation.Residue: [ WARNING ] missing an atom: 1  H   that depends on a nonexistent polymer connection! 
core.conformation.Residue: [ WARNING ]  --> generating it using idealized coordinates.
basic.io.database: [ WARNING ] Unable to locate database file /sampling/antibodies/antibody_database_rosetta_design.db
basic.io.database: [ WARNING ] Unable to locate database file /sampling/antibodies/antibody_database_rosetta_design.db
core.chemical.AtomICoor: [ WARNING ] IcoorAtomID::atom_id(): Cannot get atom_id for POLYMER_LOWER of residue TYR 1.  Returning BOGUS ID instead.
core.conformation.Residue: [ WARNING ] missing an atom: 1  H   that depends on a nonexistent polymer connection! 
core.conformation.Residue: [ WARNING ]  --> generating it using idealized coordinates.
basic.io.database: [ WARNING ] Unable to locate database file /sampling/antibodies/antibody_database_rosetta_design.db
basic.io.database: [ WARNING ] Unable to locate database file /sampling/antibodies/antibody_database_rosetta_design.db
protocols.analysis.InterfaceAnalyzerMover: [ WARNING ] In InterfaceAnalyzerMover, calculator Sasa_1 already exists, this is hopefully correct for your purposes
protocols.analysis.InterfaceAnalyzerMover: [ WARNING ] In InterfaceAnalyzerMover, calculator InterfaceNeighborDefinition_1 already exists, this is hopefully correct for your purposes
protocols.analysis.InterfaceAnalyzerMover: [ WARNING ] In InterfaceAnalyzerMover, calculator InterfaceDeltaEnergetics_1 already exists, this is hopefully correct for your purposes
protocols.analysis.InterfaceAnalyzerMover: [ WARNING ] In InterfaceAnalyzerMover, calculator NumberHBonds_1 already exists, this is hopefully correct for your purposes
protocols.analysis.InterfaceAnalyzerMover: [ WARNING ] In InterfaceAnalyzerMover, calculator BuriedUnsatisfiedPolars_1 already exists, this is hopefully correct for your purposes
basic.io.database: [ WARNING ] Unable to locate database file /sampling/antibodies/antibody_database_rosetta_design.db
core.chemical.AtomICoor: [ WARNING ] IcoorAtomID::atom_id(): Cannot get atom_id for POLYMER_LOWER of residue ILE 1.  Returning BOGUS ID instead.
core.conformation.Residue: [ WARNING ] missing an atom: 1  H   that depends on a nonexistent polymer connection! 
core.conformation.Residue: [ WARNING ]  --> generating it using idealized coordinates.
core.chemical.AtomICoor: [ WARNING ] IcoorAtomID::atom_id(): Cannot get atom_id for POLYMER_LOWER of residue TRP 1.  Returning BOGUS ID instead.
core.conformation.Residue: [ WARNING ] missing an atom: 1  H   that depends on a nonexistent polymer connection! 
core.conformation.Residue: [ WARNING ]  --> generating it using idealized coordinates.
core.chemical.AtomICoor: [ WARNING ] IcoorAtomID::atom_id(): Cannot get atom_id for POLYMER_LOWER of residue ILE 1.  Returning BOGUS ID instead.
core.conformation.Residue: [ WARNING ] missing an atom: 1  H   that depends on a nonexistent polymer connection! 
core.conformation.Residue: [ WARNING ]  --> generating it using idealized coordinates.
core.chemical.AtomICoor: [ WARNING ] IcoorAtomID::atom_id(): Cannot get atom_id for POLYMER_LOWER of residue LEU 1.  Returning BOGUS ID instead.
core.conformation.Residue: [ WARNING ] missing an atom: 1  H   that depends on a nonexistent polymer connection! 
core.conformation.Residue: [ WARNING ]  --> generating it using idealized coordinates.
core.chemical.AtomICoor: [ WARNING ] IcoorAtomID::atom_id(): Cannot get atom_id for POLYMER_LOWER of residue TYR 1.  Returning BOGUS ID instead.
core.conformation.Residue: [ WARNING ] missing an atom: 1  H   that depends on a nonexistent polymer connection! 
core.conformation.Residue: [ WARNING ]  --> generating it using idealized coordinates.
protocols.analysis.InterfaceAnalyzerMover: [ WARNING ] In InterfaceAnalyzerMover, calculator Sasa_1 already exists, this is hopefully correct for your purposes
protocols.analysis.InterfaceAnalyzerMover: [ WARNING ] In InterfaceAnalyzerMover, calculator InterfaceNeighborDefinition_1 already exists, this is hopefully correct for your purposes
protocols.analysis.InterfaceAnalyzerMover: [ WARNING ] In InterfaceAnalyzerMover, calculator InterfaceDeltaEnergetics_1 already exists, this is hopefully correct for your purposes
protocols.analysis.InterfaceAnalyzerMover: [ WARNING ] In InterfaceAnalyzerMover, calculator NumberHBonds_1 already exists, this is hopefully correct for your purposes
protocols.analysis.InterfaceAnalyzerMover: [ WARNING ] In InterfaceAnalyzerMover, calculator BuriedUnsatisfiedPolars_1 already exists, this is hopefully correct for your purposes
protocols.analysis.InterfaceAnalyzerMover: [ WARNING ] In InterfaceAnalyzerMover, calculator Sasa_1 already exists, this is hopefully correct for your purposes
protocols.analysis.InterfaceAnalyzerMover: [ WARNING ] In InterfaceAnalyzerMover, calculator InterfaceNeighborDefinition_1 already exists, this is hopefully correct for your purposes
protocols.analysis.InterfaceAnalyzerMover: [ WARNING ] In InterfaceAnalyzerMover, calculator InterfaceDeltaEnergetics_1 already exists, this is hopefully correct for your purposes
protocols.analysis.InterfaceAnalyzerMover: [ WARNING ] In InterfaceAnalyzerMover, calculator NumberHBonds_1 already exists, this is hopefully correct for your purposes
protocols.analysis.InterfaceAnalyzerMover: [ WARNING ] In InterfaceAnalyzerMover, calculator BuriedUnsatisfiedPolars_1 already exists, this is hopefully correct for your purposes
core.chemical.AtomICoor: [ WARNING ] IcoorAtomID::atom_id(): Cannot get atom_id for POLYMER_LOWER of residue TYR 1.  Returning BOGUS ID instead.
core.conformation.Residue: [ WARNING ] missing an atom: 1  H   that depends on a nonexistent polymer connection! 
core.conformation.Residue: [ WARNING ]  --> generating it using idealized coordinates.
basic.io.database: [ WARNING ] Unable to locate database file /sampling/antibodies/antibody_database_rosetta_design.db
basic.io.database: [ WARNING ] Unable to locate database file /sampling/antibodies/antibody_database_rosetta_design.db
core.chemical.AtomICoor: [ WARNING ] IcoorAtomID::atom_id(): Cannot get atom_id for POLYMER_LOWER of residue TYR 1.  Returning BOGUS ID instead.
core.conformation.Residue: [ WARNING ] missing an atom: 1  H   that depends on a nonexistent polymer connection! 
core.conformation.Residue: [ WARNING ]  --> generating it using idealized coordinates.
basic.io.database: [ WARNING ] Unable to locate database file /sampling/antibodies/antibody_database_rosetta_design.db
basic.io.database: [ WARNING ] Unable to locate database file /sampling/antibodies/antibody_database_rosetta_design.db
core.chemical.AtomICoor: [ WARNING ] IcoorAtomID::atom_id(): Cannot get atom_id for POLYMER_LOWER of residue ILE 1.  Returning BOGUS ID instead.
core.conformation.Residue: [ WARNING ] missing an atom: 1  H   that depends on a nonexistent polymer connection! 
core.conformation.Residue: [ WARNING ]  --> generating it using idealized coordinates.
basic.io.database: [ WARNING ] Unable to locate database file /sampling/antibodies/antibody_database_rosetta_design.db
basic.io.database: [ WARNING ] Unable to locate database file /sampling/antibodies/antibody_database_rosetta_design.db
core.chemical.AtomICoor: [ WARNING ] IcoorAtomID::atom_id(): Cannot get atom_id for POLYMER_LOWER of residue TYR 1.  Returning BOGUS ID instead.
core.conformation.Residue: [ WARNING ] missing an atom: 1  H   that depends on a nonexistent polymer connection! 
core.conformation.Residue: [ WARNING ]  --> generating it using idealized coordinates.
basic.io.database: [ WARNING ] Unable to locate database file /sampling/antibodies/antibody_database_rosetta_design.db
basic.io.database: [ WARNING ] Unable to locate database file /sampling/antibodies/antibody_database_rosetta_design.db
core.chemical.AtomICoor: [ WARNING ] IcoorAtomID::atom_id(): Cannot get atom_id for POLYMER_LOWER of residue PHE 1.  Returning BOGUS ID instead.
core.conformation.Residue: [ WARNING ] missing an atom: 1  H   that depends on a nonexistent polymer connection! 
core.conformation.Residue: [ WARNING ]  --> generating it using idealized coordinates.
basic.io.database: [ WARNING ] Unable to locate database file /sampling/antibodies/antibody_database_rosetta_design.db
basic.io.database: [ WARNING ] Unable to locate database file /sampling/antibodies/antibody_database_rosetta_design.db
protocols.analysis.InterfaceAnalyzerMover: [ WARNING ] In InterfaceAnalyzerMover, calculator Sasa_1 already exists, this is hopefully correct for your purposes
protocols.analysis.InterfaceAnalyzerMover: [ WARNING ] In InterfaceAnalyzerMover, calculator InterfaceNeighborDefinition_1 already exists, this is hopefully correct for your purposes
protocols.analysis.InterfaceAnalyzerMover: [ WARNING ] In InterfaceAnalyzerMover, calculator InterfaceDeltaEnergetics_1 already exists, this is hopefully correct for your purposes
protocols.analysis.InterfaceAnalyzerMover: [ WARNING ] In InterfaceAnalyzerMover, calculator NumberHBonds_1 already exists, this is hopefully correct for your purposes
protocols.analysis.InterfaceAnalyzerMover: [ WARNING ] In InterfaceAnalyzerMover, calculator BuriedUnsatisfiedPolars_1 already exists, this is hopefully correct for your purposes