Reply To: high resolution protein docking doesn’t work

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December 10, 2010 at 7:54 am #4715
Anonymous

    Thank you very much. Here is the log:

    core.init: command: docking_protocol.linuxgccrelease @flags2
    core.init: ‘RNG device’ seed mode, using ‘/dev/urandom’, seed=-547989175 seed_offset=0 real_seed=-547989175
    core.init.random: RandomGenerator:init: Normal mode, seed=-547989175 RG_type=mt19937
    core.io.database: Database file opened: /soft/rosetta3.1/database/env_log.txt
    core.io.database: Database file opened: /soft/rosetta3.1/database/cbeta_den.txt
    core.io.database: Database file opened: /soft/rosetta3.1/database/pair_log.txt
    core.io.database: Database file opened: /soft/rosetta3.1/database/cenpack_log.txt
    core.io.database: Database file opened: /soft/rosetta3.1/database/interchain_env_log.txt
    core.io.database: Database file opened: /soft/rosetta3.1/database/interchain_pair_log.txt
    core.scoring.etable: Starting energy table calculation
    core.scoring.etable: smooth_etable: changing atr/rep split to bottom of energy well
    core.scoring.etable: smooth_etable: spline smoothing lj etables (maxdis = 6)
    core.scoring.etable: smooth_etable: spline smoothing solvation etables (max_dis = 6)
    core.scoring.etable: Finished calculating energy tables.
    core.io.database: Database file opened: /soft/rosetta3.1/database/pdb_pair_stats_fine
    core.io.database: Database file opened: /soft/rosetta3.1/database/P_AA
    core.io.database: Database file opened: /soft/rosetta3.1/database/P_AA_n
    core.io.database: Database file opened: /soft/rosetta3.1/database/P_AA_pp
    core.options: option[ out::file::fullatom ]() re-interpreted as setting option[ out::file::residue_type_set ]() to fa_standard
    core.init: command: docking_protocol.linuxgccrelease @flags2
    core.init: ‘RNG device’ seed mode, using ‘/dev/urandom’, seed=-61886964 seed_offset=0 real_seed=-61886964
    core.init.random: RandomGenerator:init: Normal mode, seed=-61886964 RG_type=mt19937
    protocols.jobdist.JobDistributors: Looking for an available job: 1 1 relax.pdb 1
    protocols.jobdist.JobDistributors: Looking for an available job: 2 1 relax.pdb 2
    protocols.jobdist.JobDistributors: Looking for an available job: 3 1 relax.pdb 3
    protocols.jobdist.JobDistributors: Looking for an available job: 4 1 relax.pdb 4
    protocols.jobdist.main: Starting relax_0004 …
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    protocols.docking.DockingProtocol: Setting docking foldtree
    protocols.docking.DockingProtocol: old fold tree: FOLD_TREE EDGE 1 228 -1 EDGE 1 229 1 EDGE 229 402 -1
    protocols.docking.DockingProtocol:
    protocols.docking.DockingProtocol: new fold tree: FOLD_TREE EDGE 1 85 -1 EDGE 85 228 -1 EDGE 85 360 1 EDGE 360 229 -1 EDGE 360 402 -1
    protocols.docking.DockingProtocol:
    protocols.docking.DockingHighRes: in DockingHighRes.apply
    Warning: Unable to locate database file Dunbrack02.lib.bin
    core.scoring.dunbrack: Dunbrack library took 4 seconds to load from ASCII
    Warning: Unable to locate database file Dunbrack02.lib.bin
    Warning: Unable to locate database file Dunbrack02.lib.bin
    core.scoring.dunbrack: Opening file /tmp/dun021AKknu for output.
    core.scoring.dunbrack: Moving temporary file to /soft/rosetta3.1/database/Dunbrack02.lib.bin
    protocols.docking.DockingHighRes: ::::::::::::::::::DOCK_MCM:::::::::::::::::::
    core.pack.task: Packer task: initialize from command line()
    core.pack.interaction_graph.interaction_graph_factory: Instantiating DensePDInteractionGraph
    core.pack.pack_rotamers: built 434 rotamers at 51 positions.
    core.pack.pack_rotamers: IG: 210952 bytes
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Pcore.init: command: docking_protocol.linuxgccrelease @flags2
    core.init: ‘RNG device’ seed mode, using ‘/dev/urandom’, seed=850133497 seed_offset=0 real_seed=850133497
    core.init.random: RandomGenerator:init: Normal mode, seed=850133497 RG_type=mt19937
    core.io.database: Database file opened: /soft/rosetta3.1/database/env_log.txt
    core.io.database: Database file opened: /soft/rosetta3.1/database/cbeta_den.txt
    core.io.database: Database file opened: /soft/rosetta3.1/database/pair_log.txt
    core.io.database: Database file opened: /soft/rosetta3.1/database/cenpack_log.txt
    core.io.database: Database file opened: /soft/rosetta3.1/database/interchain_env_log.txt
    core.io.database: Database file opened: /soft/rosetta3.1/database/interchain_pair_log.txt
    core.scoring.etable: Starting energy table calculation
    core.scoring.etable: smooth_etable: changing atr/rep split to bottom of energy well
    core.scoring.etable: smooth_etable: spline smoothing lj etables (maxdis = 6)
    core.scoring.etable: smooth_etable: spline smoothing solvation etables (max_dis = 6)
    core.scoring.etable: Finished calculating energy tables.
    core.io.database: Database file opened: /soft/rosetta3.1/database/pdb_pair_stats_fine
    core.io.database: Database file opened: /soft/rosetta3.1/database/P_AA
    core.io.database: Database file opened: /soft/rosetta3.1/database/P_AA_n
    core.io.database: Database file opened: /soft/rosetta3.1/database/P_AA_pp
    core.options: option[ out::file::fullatom ]() re-interpreted as setting option[ out::file::residue_type_set ]() to fa_standard
    core.init: command: docking_protocol.linuxgccrelease @flags2
    core.init: ‘RNG device’ seed mode, using ‘/dev/urandom’, seed=2024095980 seed_offset=0 real_seed=2024095980
    core.init.random: RandomGenerator:init: Normal mode, seed=2024095980 RG_type=mt19937
    protocols.jobdist.JobDistributors: Looking for an available job: 1 1 relax.pdb 1
    protocols.jobdist.JobDistributors: Looking for an available job: 2 1 relax.pdb 2
    protocols.jobdist.main: Starting relax_0002 …
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    protocols.docking.DockingProtocol: Setting docking foldtree
    protocols.docking.DockingProtocol: old fold tree: FOLD_TREE EDGE 1 228 -1 EDGE 1 229 1 EDGE 229 402 -1
    protocols.docking.DockingProtocol:
    protocols.docking.DockingProtocol: new fold tree: FOLD_TREE EDGE 1 85 -1 EDGE 85 228 -1 EDGE 85 360 1 EDGE 360 229 -1 EDGE 360 402 -1
    protocols.docking.DockingProtocol:
    protocols.docking.DockingHighRes: in DockingHighRes.apply
    Warning: Unable to locate database file Dunbrack02.lib.bin
    core.scoring.dunbrack: Dunbrack library took 3.97 seconds to load from ASCII
    Warning: Unable to locate database file Dunbrack02.lib.bin
    Warning: Unable to locate database file Dunbrack02.lib.bin
    core.scoring.dunbrack: Opening file /tmp/dun02QSCd6r for output.
    core.scoring.dunbrack: Moving temporary file to /soft/rosetta3.1/database/Dunbrack02.lib.bin
    protocols.docking.DockingHighRes: ::::::::::::::::::DOCK_MCM:::::::::::::::::::
    core.pack.task: Packer task: initialize from command line()
    core.pack.interaction_graph.interaction_graph_factory: Instantiating DensePDInteractionGraph
    core.pack.pack_rotamers: built 434 rotamers at 51 positions.
    core.pack.pack_rotamers: IG: 210952 bytes
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command lcore.init: command: docking_protocol.linuxgccrelease @flags2
    core.init: ‘RNG device’ seed mode, using ‘/dev/urandom’, seed=2074012388 seed_offset=0 real_seed=2074012388
    core.init.random: RandomGenerator:init: Normal mode, seed=2074012388 RG_type=mt19937
    core.io.database: Database file opened: /soft/rosetta3.1/database/env_log.txt
    core.io.database: Database file opened: /soft/rosetta3.1/database/cbeta_den.txt
    core.io.database: Database file opened: /soft/rosetta3.1/database/pair_log.txt
    core.io.database: Database file opened: /soft/rosetta3.1/database/cenpack_log.txt
    core.io.database: Database file opened: /soft/rosetta3.1/database/interchain_env_log.txt
    core.io.database: Database file opened: /soft/rosetta3.1/database/interchain_pair_log.txt
    core.scoring.etable: Starting energy table calculation
    core.scoring.etable: smooth_etable: changing atr/rep split to bottom of energy well
    core.scoring.etable: smooth_etable: spline smoothing lj etables (maxdis = 6)
    core.scoring.etable: smooth_etable: spline smoothing solvation etables (max_dis = 6)
    core.scoring.etable: Finished calculating energy tables.
    core.io.database: Database file opened: /soft/rosetta3.1/database/pdb_pair_stats_fine
    core.io.database: Database file opened: /soft/rosetta3.1/database/P_AA
    core.io.database: Database file opened: /soft/rosetta3.1/database/P_AA_n
    core.io.database: Database file opened: /soft/rosetta3.1/database/P_AA_pp
    core.options: option[ out::file::fullatom ]() re-interpreted as setting option[ out::file::residue_type_set ]() to fa_standard
    core.init: command: docking_protocol.linuxgccrelease @flags2
    core.init: ‘RNG device’ seed mode, using ‘/dev/urandom’, seed=-98731217 seed_offset=0 real_seed=-98731217
    core.init.random: RandomGenerator:init: Normal mode, seed=-98731217 RG_type=mt19937
    protocols.jobdist.JobDistributors: Looking for an available job: 1 1 relax.pdb 1
    protocols.jobdist.JobDistributors: Looking for an available job: 2 1 relax.pdb 2
    protocols.jobdist.JobDistributors: Looking for an available job: 3 1 relax.pdb 3
    protocols.jobdist.JobDistributors: Looking for an available job: 4 1 relax.pdb 4
    protocols.jobdist.JobDistributors: Looking for an available job: 5 1 relax.pdb 5
    protocols.jobdist.main: Starting relax_0005 …
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    protocols.docking.DockingProtocol: Setting docking foldtree
    protocols.docking.DockingProtocol: old fold tree: FOLD_TREE EDGE 1 228 -1 EDGE 1 229 1 EDGE 229 402 -1
    protocols.docking.DockingProtocol:
    protocols.docking.DockingProtocol: new fold tree: FOLD_TREE EDGE 1 85 -1 EDGE 85 228 -1 EDGE 85 360 1 EDGE 360 229 -1 EDGE 360 402 -1
    protocols.docking.DockingProtocol:
    protocols.docking.DockingHighRes: in DockingHighRes.apply
    Warning: Unable to locate database file Dunbrack02.lib.bin
    core.scoring.dunbrack: Dunbrack library took 5.96 seconds to load from ASCII
    Warning: Unable to locate database file Dunbrack02.lib.bin
    Warning: Unable to locate database file Dunbrack02.lib.bin
    core.scoring.dunbrack: Opening file /tmp/dun02AST7Et for output.
    core.scoring.dunbrack: Moving temporary file to /soft/rosetta3.1/database/Dunbrack02.lib.bin
    protocols.docking.DockingHighRes: ::::::::::::::::::DOCK_MCM:::::::::::::::::::
    core.pack.task: Packer task: initialize from command line()
    core.pack.interaction_graph.interaction_graph_factory: Instantiating DensePDInteractionGraph
    core.pack.pack_rotamers: built 434 rotamers at 51 positions.
    core.pack.pack_rotamers: IG: 210952 bytes
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command licore.init: command: docking_protocol.linuxgccrelease @flags2
    core.init: ‘RNG device’ seed mode, using ‘/dev/urandom’, seed=-449616428 seed_offset=0 real_seed=-449616428
    core.init.random: RandomGenerator:init: Normal mode, seed=-449616428 RG_type=mt19937
    core.io.database: Database file opened: /soft/rosetta3.1/database/env_log.txt
    core.io.database: Database file opened: /soft/rosetta3.1/database/cbeta_den.txt
    core.io.database: Database file opened: /soft/rosetta3.1/database/pair_log.txt
    core.io.database: Database file opened: /soft/rosetta3.1/database/cenpack_log.txt
    core.io.database: Database file opened: /soft/rosetta3.1/database/interchain_env_log.txt
    core.io.database: Database file opened: /soft/rosetta3.1/database/interchain_pair_log.txt
    core.scoring.etable: Starting energy table calculation
    core.scoring.etable: smooth_etable: changing atr/rep split to bottom of energy well
    core.scoring.etable: smooth_etable: spline smoothing lj etables (maxdis = 6)
    core.scoring.etable: smooth_etable: spline smoothing solvation etables (max_dis = 6)
    core.scoring.etable: Finished calculating energy tables.
    core.io.database: Database file opened: /soft/rosetta3.1/database/pdb_pair_stats_fine
    core.io.database: Database file opened: /soft/rosetta3.1/database/P_AA
    core.io.database: Database file opened: /soft/rosetta3.1/database/P_AA_n
    core.io.database: Database file opened: /soft/rosetta3.1/database/P_AA_pp
    core.options: option[ out::file::fullatom ]() re-interpreted as setting option[ out::file::residue_type_set ]() to fa_standard
    core.init: command: docking_protocol.linuxgccrelease @flags2
    core.init: ‘RNG device’ seed mode, using ‘/dev/urandom’, seed=-1409266343 seed_offset=0 real_seed=-1409266343
    core.init.random: RandomGenerator:init: Normal mode, seed=-1409266343 RG_type=mt19937
    protocols.jobdist.JobDistributors: Looking for an available job: 1 1 relax.pdb 1
    protocols.jobdist.JobDistributors: Looking for an available job: 2 1 relax.pdb 2
    protocols.jobdist.JobDistributors: Looking for an available job: 3 1 relax.pdb 3
    protocols.jobdist.JobDistributors: Looking for an available job: 4 1 relax.pdb 4
    protocols.jobdist.JobDistributors: Looking for an available job: 5 1 relax.pdb 5
    protocols.jobdist.JobDistributors: Looking for an available job: 6 1 relax.pdb 6
    protocols.jobdist.main: Starting relax_0006 …
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    protocols.docking.DockingProtocol: Setting docking foldtree
    protocols.docking.DockingProtocol: old fold tree: FOLD_TREE EDGE 1 228 -1 EDGE 1 229 1 EDGE 229 402 -1
    protocols.docking.DockingProtocol:
    protocols.docking.DockingProtocol: new fold tree: FOLD_TREE EDGE 1 85 -1 EDGE 85 228 -1 EDGE 85 360 1 EDGE 360 229 -1 EDGE 360 402 -1
    protocols.docking.DockingProtocol:
    protocols.docking.DockingHighRes: in DockingHighRes.apply
    Warning: Unable to locate database file Dunbrack02.lib.bin
    core.scoring.dunbrack: Dunbrack library took 7.09 seconds to load from ASCII
    Warning: Unable to locate database file Dunbrack02.lib.bin
    Warning: Unable to locate database file Dunbrack02.lib.bin
    core.scoring.dunbrack: Opening file /tmp/dun02Xtx3RE for output.
    core.scoring.dunbrack: Moving temporary file to /soft/rosetta3.1/database/Dunbrack02.lib.bin
    protocols.docking.DockingHighRes: ::::::::::::::::::DOCK_MCM:::::::::::::::::::
    core.pack.task: Packer task: initialize from command line()
    core.pack.interaction_graph.interaction_graph_factory: Instantiating DensePDInteractionGraph
    core.pack.pack_rotamers: built 434 rotamers at 51 positions.
    core.pack.pack_rotamers: IG: 210952 bytes
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: core.init: command: docking_protocol.linuxgccrelease @flags2
    core.init: ‘RNG device’ seed mode, using ‘/dev/urandom’, seed=1685200335 seed_offset=0 real_seed=1685200335
    core.init.random: RandomGenerator:init: Normal mode, seed=1685200335 RG_type=mt19937
    core.io.database: Database file opened: /soft/rosetta3.1/database/env_log.txt
    core.io.database: Database file opened: /soft/rosetta3.1/database/cbeta_den.txt
    core.io.database: Database file opened: /soft/rosetta3.1/database/pair_log.txt
    core.io.database: Database file opened: /soft/rosetta3.1/database/cenpack_log.txt
    core.io.database: Database file opened: /soft/rosetta3.1/database/interchain_env_log.txt
    core.io.database: Database file opened: /soft/rosetta3.1/database/interchain_pair_log.txt
    core.scoring.etable: Starting energy table calculation
    core.scoring.etable: smooth_etable: changing atr/rep split to bottom of energy well
    core.scoring.etable: smooth_etable: spline smoothing lj etables (maxdis = 6)
    core.scoring.etable: smooth_etable: spline smoothing solvation etables (max_dis = 6)
    core.scoring.etable: Finished calculating energy tables.
    core.io.database: Database file opened: /soft/rosetta3.1/database/pdb_pair_stats_fine
    core.io.database: Database file opened: /soft/rosetta3.1/database/P_AA
    core.io.database: Database file opened: /soft/rosetta3.1/database/P_AA_n
    core.io.database: Database file opened: /soft/rosetta3.1/database/P_AA_pp
    core.options: option[ out::file::fullatom ]() re-interpreted as setting option[ out::file::residue_type_set ]() to fa_standard
    core.init: command: docking_protocol.linuxgccrelease @flags2
    core.init: ‘RNG device’ seed mode, using ‘/dev/urandom’, seed=-98971307 seed_offset=0 real_seed=-98971307
    core.init.random: RandomGenerator:init: Normal mode, seed=-98971307 RG_type=mt19937
    protocols.jobdist.JobDistributors: Looking for an available job: 1 1 relax.pdb 1
    protocols.jobdist.JobDistributors: Looking for an available job: 2 1 relax.pdb 2
    protocols.jobdist.JobDistributors: Looking for an available job: 3 1 relax.pdb 3
    protocols.jobdist.main: Starting relax_0003 …
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    protocols.docking.DockingProtocol: Setting docking foldtree
    protocols.docking.DockingProtocol: old fold tree: FOLD_TREE EDGE 1 228 -1 EDGE 1 229 1 EDGE 229 402 -1
    protocols.docking.DockingProtocol:
    protocols.docking.DockingProtocol: new fold tree: FOLD_TREE EDGE 1 85 -1 EDGE 85 228 -1 EDGE 85 360 1 EDGE 360 229 -1 EDGE 360 402 -1
    protocols.docking.DockingProtocol:
    protocols.docking.DockingHighRes: in DockingHighRes.apply
    Warning: Unable to locate database file Dunbrack02.lib.bin
    core.scoring.dunbrack: Dunbrack library took 7.07 seconds to load from ASCII
    Warning: Unable to locate database file Dunbrack02.lib.bin
    Warning: Unable to locate database file Dunbrack02.lib.bin
    core.scoring.dunbrack: Opening file /tmp/dun02EsL6B5 for output.
    core.scoring.dunbrack: Moving temporary file to /soft/rosetta3.1/database/Dunbrack02.lib.bin
    protocols.docking.DockingHighRes: ::::::::::::::::::DOCK_MCM:::::::::::::::::::
    core.pack.task: Packer task: initialize from command line()
    core.pack.interaction_graph.interaction_graph_factory: Instantiating DensePDInteractionGraph
    core.pack.pack_rotamers: built 434 rotamers at 51 positions.
    core.pack.pack_rotamers: IG: 210952 bytes
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initicore.init: command: docking_protocol.linuxgccrelease @flags2
    core.init: ‘RNG device’ seed mode, using ‘/dev/urandom’, seed=2084526778 seed_offset=0 real_seed=2084526778
    core.init.random: RandomGenerator:init: Normal mode, seed=2084526778 RG_type=mt19937
    core.io.database: Database file opened: /soft/rosetta3.1/database/env_log.txt
    core.io.database: Database file opened: /soft/rosetta3.1/database/cbeta_den.txt
    core.io.database: Database file opened: /soft/rosetta3.1/database/pair_log.txt
    core.io.database: Database file opened: /soft/rosetta3.1/database/cenpack_log.txt
    core.io.database: Database file opened: /soft/rosetta3.1/database/interchain_env_log.txt
    core.io.database: Database file opened: /soft/rosetta3.1/database/interchain_pair_log.txt
    core.scoring.etable: Starting energy table calculation
    core.scoring.etable: smooth_etable: changing atr/rep split to bottom of energy well
    core.scoring.etable: smooth_etable: spline smoothing lj etables (maxdis = 6)
    core.scoring.etable: smooth_etable: spline smoothing solvation etables (max_dis = 6)
    core.scoring.etable: Finished calculating energy tables.
    core.io.database: Database file opened: /soft/rosetta3.1/database/pdb_pair_stats_fine
    core.io.database: Database file opened: /soft/rosetta3.1/database/P_AA
    core.io.database: Database file opened: /soft/rosetta3.1/database/P_AA_n
    core.io.database: Database file opened: /soft/rosetta3.1/database/P_AA_pp
    core.options: option[ out::file::fullatom ]() re-interpreted as setting option[ out::file::residue_type_set ]() to fa_standard
    core.init: command: docking_protocol.linuxgccrelease @flags2
    core.init: ‘RNG device’ seed mode, using ‘/dev/urandom’, seed=-117393692 seed_offset=0 real_seed=-117393692
    core.init.random: RandomGenerator:init: Normal mode, seed=-117393692 RG_type=mt19937
    protocols.jobdist.JobDistributors: Looking for an available job: 1 1 relax.pdb 1
    protocols.jobdist.main: Starting relax_0001 …
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    protocols.docking.DockingProtocol: Setting docking foldtree
    protocols.docking.DockingProtocol: old fold tree: FOLD_TREE EDGE 1 228 -1 EDGE 1 229 1 EDGE 229 402 -1
    protocols.docking.DockingProtocol:
    protocols.docking.DockingProtocol: new fold tree: FOLD_TREE EDGE 1 85 -1 EDGE 85 228 -1 EDGE 85 360 1 EDGE 360 229 -1 EDGE 360 402 -1
    protocols.docking.DockingProtocol:
    protocols.docking.DockingHighRes: in DockingHighRes.apply
    Warning: Unable to locate database file Dunbrack02.lib.bin
    core.scoring.dunbrack: Dunbrack library took 7.22 seconds to load from ASCII
    Warning: Unable to locate database file Dunbrack02.lib.bin
    Warning: Unable to locate database file Dunbrack02.lib.bin
    core.scoring.dunbrack: Opening file /tmp/dun02RdsiAw for output.
    core.scoring.dunbrack: Moving temporary file to /soft/rosetta3.1/database/Dunbrack02.lib.bin
    protocols.docking.DockingHighRes: ::::::::::::::::::DOCK_MCM:::::::::::::::::::
    core.pack.task: Packer task: initialize from command line()
    core.pack.interaction_graph.interaction_graph_factory: Instantiating DensePDInteractionGraph
    core.pack.pack_rotamers: built 434 rotamers at 51 positions.
    core.pack.pack_rotamers: IG: 210952 bytes
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.interaction_graph.interaction_graph_factory: Instantiating Deine()
    core.pack.interaction_graph.interaction_graph_factory: Instantiating DensePDInteractionGraph
    core.pack.pack_rotamers: built 434 rotamers at 51 positions.
    core.pack.pack_rotamers: IG: 210952 bytes
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.interaction_graph.interaction_graph_factory: Instantiating DensePDInteractionGraph
    core.pack.pack_rotamers: built 434 rotamers at 51 positions.
    core.pack.pack_rotamers: IG: 210952 bytes
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.interaction_graph.interaction_graph_factory: Instantiating DensePDInteractionGraph
    core.pack.pack_rotamers: built 434 rotamers at 51 positions.
    core.pack.pack_rotamers: IG: 210952 bytes
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.interaction_graph.interaction_graph_factory: Instantiating DensePDInteractionGraph
    core.pack.pack_rotamers: built 434 rotamers at 51 positions.
    core.pack.pack_rotamers: IG: 210952 bytes
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.interaction_graph.interaction_graph_factory: Instantiating DensePDInteractionGraph
    core.pack.pack_rotamers: built 434 rotamers at 51 positions.
    core.pack.pack_rotamers: IG: 210952 bytes
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    protocols.moves.RigidBodyMover: Translate: Jump (before): RT -0.0542331 0.444298 -0.894236 0.896892 -0.371974 -0.239208 -0.438912 -0.815006 -0.378314 31.1896 4.39459 17.4186
    protocols.moves.RigidBodyMover: Translate: Jump (after): RT -0.0542331 0.444298 -0.894236 0.896892 -0.371974 -0.239208 -0.438912 -0.815006 -0.378314 894.449 145.051 502.186
    protocols.moves.RigidBodyMover: Translate: Jump (before): RT -0.0542331 0.444298 -0.894236 0.896892 -0.371974 -0.239208 -0.438912 -0.815006 -0.378314 31.1896 4.39459 17.4186
    protocols.moves.RigidBodyMover: Translate: Jump (after): RT -0.0542331 0.444298acker task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.interaction_graph.interaction_graph_factory: Instantiating DensePDInteractionGraph
    core.pack.pack_rotamers: built 435 rotamers at 51 positions.
    core.pack.pack_rotamers: IG: 209456 bytes
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.interaction_graph.interaction_graph_factory: Instantiating DensePDInteractionGraph
    core.pack.pack_rotamers: built 435 rotamers at 51 positions.
    core.pack.pack_rotamers: IG: 209012 bytes
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.interaction_graph.interaction_graph_factory: Instantiating DensePDInteractionGraph
    core.pack.pack_rotamers: built 435 rotamers at 51 positions.
    core.pack.pack_rotamers: IG: 209012 bytes
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.interaction_graph.interaction_graph_factory: Instantiating DensePDInteractionGraph
    core.pack.pack_rotamers: built 435 rotamers at 51 positions.
    core.pack.pack_rotamers: IG: 209012 bytes
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.interaction_graph.interaction_graph_factory: Instantiating DensePDInteractionGraph
    core.pack.pack_rotamers: built 435 rotamers at 51 positions.
    core.pack.pack_rotamers: IG: 209012 bytes
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    protocols.moves.RigidBodyMover: Translate: Jump (before): RT -0.0542331 0.444298 -0.894236 0.896892 -0.371974 -0.239208 -0.438912 -0.815006 -0.378314 31.1896 4.39459 17.4186
    protocols.moves.RigidBodyMover: Translate: Jump (after): RT -0.0542331 0.444298 -0.894236 0.896892 -0.371974 -0.239208 -0.438912 -0.815006 -0.378314 894.449 145.051 502.186
    protocols.moves.RigidBodyMover: Translate: Jump (before): RT -0.0542331 0.444298 -0.894236 0.8968ne()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.interaction_graph.interaction_graph_factory: Instantiating DensePDInteractionGraph
    core.pack.pack_rotamers: built 434 rotamers at 51 positions.
    core.pack.pack_rotamers: IG: 210952 bytes
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.interaction_graph.interaction_graph_factory: Instantiating DensePDInteractionGraph
    core.pack.pack_rotamers: built 434 rotamers at 51 positions.
    core.pack.pack_rotamers: IG: 210952 bytes
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.interaction_graph.interaction_graph_factory: Instantiating DensePDInteractionGraph
    core.pack.pack_rotamers: built 434 rotamers at 51 positions.
    core.pack.pack_rotamers: IG: 210952 bytes
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.interaction_graph.interaction_graph_factory: Instantiating DensePDInteractionGraph
    core.pack.pack_rotamers: built 434 rotamers at 51 positions.
    core.pack.pack_rotamers: IG: 210952 bytes
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.interaction_graph.interaction_graph_factory: Instantiating DensePDInteractionGraph
    core.pack.pack_rotamers: built 425 rotamers at 50 positions.
    core.pack.pack_rotamers: IG: 199752 bytes
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    protocols.moves.RigidBodyMover: Translate: Jump (before): RT -0.0542331 0.444298 -0.894236 0.896892 -0.371974 -0.239208 -0.438912 -0.815006 -0.378314 31.1896 4.39459 17.4186
    protocols.moves.RigidBodyMover: Translate: Jump (after): RT -0.0542331 0.444298 -0.894236 0.896892 -0.371974 -0.239208 -0.438912 -0.815006 -0.378314 894.449 145.051 502.186
    protocols.movinitialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.interaction_graph.interaction_graph_factory: Instantiating DensePDInteractionGraph
    core.pack.pack_rotamers: built 434 rotamers at 51 positions.
    core.pack.pack_rotamers: IG: 210876 bytes
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.interaction_graph.interaction_graph_factory: Instantiating DensePDInteractionGraph
    core.pack.pack_rotamers: built 434 rotamers at 51 positions.
    core.pack.pack_rotamers: IG: 210876 bytes
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.interaction_graph.interaction_graph_factory: Instantiating DensePDInteractionGraph
    core.pack.pack_rotamers: built 431 rotamers at 51 positions.
    core.pack.pack_rotamers: IG: 208800 bytes
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.interaction_graph.interaction_graph_factory: Instantiating DensePDInteractionGraph
    core.pack.pack_rotamers: built 431 rotamers at 51 positions.
    core.pack.pack_rotamers: IG: 208800 bytes
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.interaction_graph.interaction_graph_factory: Instantiating DensePDInteractionGraph
    core.pack.pack_rotamers: built 431 rotamers at 51 positions.
    core.pack.pack_rotamers: IG: 208800 bytes
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    protocols.moves.RigidBodyMover: Translate: Jump (before): RT -0.0542331 0.444298 -0.894236 0.896892 -0.371974 -0.239208 -0.438912 -0.815006 -0.378314 31.1896 4.39459 17.4186
    protocols.moves.RigidBodyMover: Translate: Jump (after): RT -0.0542331 0.444298 -0.894236 0.896892 -0alize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.interaction_graph.interaction_graph_factory: Instantiating DensePDInteractionGraph
    core.pack.pack_rotamers: built 434 rotamers at 51 positions.
    core.pack.pack_rotamers: IG: 210952 bytes
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.interaction_graph.interaction_graph_factory: Instantiating DensePDInteractionGraph
    core.pack.pack_rotamers: built 428 rotamers at 51 positions.
    core.pack.pack_rotamers: IG: 207876 bytes
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.interaction_graph.interaction_graph_factory: Instantiating DensePDInteractionGraph
    core.pack.pack_rotamers: built 428 rotamers at 51 positions.
    core.pack.pack_rotamers: IG: 207876 bytes
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.interaction_graph.interaction_graph_factory: Instantiating DensePDInteractionGraph
    core.pack.pack_rotamers: built 425 rotamers at 50 positions.
    core.pack.pack_rotamers: IG: 202660 bytes
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.interaction_graph.interaction_graph_factory: Instantiating DensePDInteractionGraph
    core.pack.pack_rotamers: built 425 rotamers at 50 positions.
    core.pack.pack_rotamers: IG: 202660 bytes
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    protocols.moves.RigidBodyMover: Translate: Jump (before): RT -0.0542331 0.444298 -0.894236 0.896892 -0.371974 -0.239208 -0.438912 -0.815006 -0.378314 31.1896 4.39459 17.4186
    protocols.moves.RigidBodyMover: Translate: Jump (after): RT -0.0542331 0.444298 -0.894236 0.896892 -0.371974 -0.239208 -0.438912 -0.815006 -0.378314 894.449 145.051 502.186
    protocols.moves.RigidBodyMover: Translate: Jump (before): RT -0.0542331 0.444298 -0.894236 0.896892 -0.371974 -0.239208 -0.438912 -0.815006 -0.378314 31.1896 4.39459 17.4186
    protocols.moves.RigidBodyMover: Translate: Jump (after): RT -0.0542331 0.444298 -0.894236 0.896892 -0.371974 -0.239208 -0.438912 -0.815006 -0.378314 894.449 145.051 502.186
    protocols.jobdist.main: Finished relax_0003 in 55 seconds.
    protocols.jobdist.JobDistributors: Looking for an available job: 4 1 relax.pdb 4
    protocols.jobdist.JobDistributors: Looking for an available job: 5 1 relax.pdb 5
    protocols.jobdist.JobDistributors: Looking for an available job: 6 1 relax.pdb 6
    protocols.jobdist.JobDistributors: Looking for an available job: 7 1 relax.pdb 7
    protocols.jobdist.JobDistributors: Looking for an available job: 8 1 relax.pdb 8
    protocols.jobdist.JobDistributors: Looking for an available job: 9 1 relax.pdb 9
    protocols.jobdist.JobDistributors: Looking for an available job: 10 1 relax.pdb 10
    protocols.jobdist.main: Finished all 1 structures in 55 seconds.
    Done!

    nsePDInteractionGraph
    core.pack.pack_rotamers: built 434 rotamers at 51 positions.
    core.pack.pack_rotamers: IG: 210952 bytes
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.interaction_graph.interaction_graph_factory: Instantiating DensePDInteractionGraph
    core.pack.pack_rotamers: built 434 rotamers at 51 positions.
    core.pack.pack_rotamers: IG: 210952 bytes
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.interaction_graph.interaction_graph_factory: Instantiating DensePDInteractionGraph
    core.pack.pack_rotamers: built 434 rotamers at 51 positions.
    core.pack.pack_rotamers: IG: 210952 bytes
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.interaction_graph.interaction_graph_factory: Instantiating DensePDInteractionGraph
    core.pack.pack_rotamers: built 434 rotamers at 51 positions.
    core.pack.pack_rotamers: IG: 210952 bytes
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.interaction_graph.interaction_graph_factory: Instantiating DensePDInteractionGraph
    core.pack.pack_rotamers: built 434 rotamers at 51 positions.
    core.pack.pack_rotamers: IG: 210952 bytes
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    protocols.moves.RigidBodyMover: Translate: Jump (before): RT -0.0542331 0.444298 -0.894236 0.896892 -0.371974 -0.239208 -0.438912 -0.815006 -0.378314 31.1896 4.39459 17.4186
    protocols.moves.RigidBodyMover: Translate: Jump (after): RT -0.0542331 0.444298 -0.894236 0.896892 -0.371974 -0.239208 -0.438912 -0.815006 -0.378314 894.449 145.051 502.186
    protocols.moves.RigidBodyMover: Translate: Jump (before): RT -0.0542331 0.444298 -0.894236 0.896892 -0.371974 -0.239208 -0.438912 -0.815006 -0.378314 31.1896 4.39459 17.4186
    protocols.moves.RigidBodyMover: Translate: Jump (after): RT -0.0542331 0.444298 -0.894236 0.896892 -0.371974 -0.239208 -0.438912 -0.815006 -0.378314 894.449 145.051 502.186
    protocols.jobdist.main: Finished relax_0001 in 60 seconds.
    protocols.jobdist.JobDistributors: Looking for an available job: 2 1 relax.pdb 2
    protocols.jobdist.JobDistributors: Looking for an available job: 3 1 relax.pdb 3
    protocols.jobdist.JobDistributors: Looking for an available job: 4 1 relax.pdb 4
    protocols.jobdist.JobDistributors: Looking for an available job: 5 1 relax.pdb 5
    protocols.jobdist.JobDistributors: Looking for an available job: 6 1 relax.pdb 6
    protocols.jobdist.JobDistributors: Looking for an available job: 7 1 relax.pdb 7
    protocols.jobdist.JobDistributors: Looking for an available job: 8 1 relax.pdb 8
    protocols.jobdist.JobDistributors: Looking for an available job: 9 1 relax.pdb 9
    protocols.jobdist.JobDistributors: Looking for an available job: 10 1 relax.pdb 10
    protocols.jobdist.main: Finished all 1 structures in 60 seconds.
    Done!

    -0.894236 0.896892 -0.371974 -0.239208 -0.438912 -0.815006 -0.378314 894.449 145.051 502.186
    protocols.jobdist.main: Finished relax_0002 in 41 seconds.
    protocols.jobdist.JobDistributors: Looking for an available job: 3 1 relax.pdb 3
    protocols.jobdist.JobDistributors: Looking for an available job: 4 1 relax.pdb 4
    protocols.jobdist.JobDistributors: Looking for an available job: 5 1 relax.pdb 5
    protocols.jobdist.JobDistributors: Looking for an available job: 6 1 relax.pdb 6
    protocols.jobdist.JobDistributors: Looking for an available job: 7 1 relax.pdb 7
    protocols.jobdist.main: Starting relax_0007 …
    protocols.docking.DockingProtocol: Setting docking foldtree
    protocols.docking.DockingProtocol: old fold tree: FOLD_TREE EDGE 1 228 -1 EDGE 1 229 1 EDGE 229 402 -1
    protocols.docking.DockingProtocol:
    protocols.docking.DockingProtocol: new fold tree: FOLD_TREE EDGE 1 85 -1 EDGE 85 228 -1 EDGE 85 360 1 EDGE 360 229 -1 EDGE 360 402 -1
    protocols.docking.DockingProtocol:
    protocols.docking.DockingHighRes: in DockingHighRes.apply
    core.pack.task: Packer task: initialize from command line()
    core.pack.interaction_graph.interaction_graph_factory: Instantiating DensePDInteractionGraph
    core.pack.pack_rotamers: built 405 rotamers at 47 positions.
    core.pack.pack_rotamers: IG: 189636 bytes
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.interaction_graph.interaction_graph_factory: Instantiating DensePDInteractionGraph
    core.pack.pack_rotamers: built 434 rotamers at 51 positions.
    core.pack.pack_rotamers: IG: 210952 bytes
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.interaction_graph.interaction_graph_factory: Instantiating DensePDInteractionGraph
    core.pack.pack_rotamers: built 434 rotamers at 51 positions.
    core.pack.pack_rotamers: IG: 210952 bytes
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.interaction_graph.interaction_graph_factory: Instantiating DensePDInteractionGraph
    core.pack.pack_rotamers: built 434 rotamers at 51 positions.
    core.pack.pack_rotamers: IG: 210952 bytes
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.interaction_graph.interaction_graph_factory: Instantiating De92 -0.371974 -0.239208 -0.438912 -0.815006 -0.378314 31.1896 4.39459 17.4186
    protocols.moves.RigidBodyMover: Translate: Jump (after): RT -0.0542331 0.444298 -0.894236 0.896892 -0.371974 -0.239208 -0.438912 -0.815006 -0.378314 894.449 145.051 502.186
    protocols.jobdist.main: Finished relax_0004 in 46 seconds.
    protocols.jobdist.JobDistributors: Looking for an available job: 5 1 relax.pdb 5
    protocols.jobdist.JobDistributors: Looking for an available job: 6 1 relax.pdb 6
    protocols.jobdist.JobDistributors: Looking for an available job: 7 1 relax.pdb 7
    protocols.jobdist.JobDistributors: Looking for an available job: 8 1 relax.pdb 8
    protocols.jobdist.main: Starting relax_0008 …
    protocols.docking.DockingProtocol: Setting docking foldtree
    protocols.docking.DockingProtocol: old fold tree: FOLD_TREE EDGE 1 228 -1 EDGE 1 229 1 EDGE 229 402 -1
    protocols.docking.DockingProtocol:
    protocols.docking.DockingProtocol: new fold tree: FOLD_TREE EDGE 1 85 -1 EDGE 85 228 -1 EDGE 85 360 1 EDGE 360 229 -1 EDGE 360 402 -1
    protocols.docking.DockingProtocol:
    protocols.docking.DockingHighRes: in DockingHighRes.apply
    core.pack.task: Packer task: initialize from command line()
    core.pack.interaction_graph.interaction_graph_factory: Instantiating DensePDInteractionGraph
    core.pack.pack_rotamers: built 405 rotamers at 47 positions.
    core.pack.pack_rotamers: IG: 189636 bytes
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.interaction_graph.interaction_graph_factory: Instantiating DensePDInteractionGraph
    core.pack.pack_rotamers: built 434 rotamers at 51 positions.
    core.pack.pack_rotamers: IG: 210952 bytes
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.interaction_graph.interaction_graph_factory: Instantiating DensePDInteractionGraph
    core.pack.pack_rotamers: built 434 rotamers at 51 positions.
    core.pack.pack_rotamers: IG: 210952 bytes
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.interaction_graph.interaction_graph_factory: Instantiating DensePDInteractionGraph
    core.pack.pack_rotamers: built 426 rotamers at 50 positions.
    core.pack.pack_rotamers: IG: 200028 bytes
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command l.371974 -0.239208 -0.438912 -0.815006 -0.378314 894.449 145.051 502.186
    protocols.moves.RigidBodyMover: Translate: Jump (before): RT -0.0542331 0.444298 -0.894236 0.896892 -0.371974 -0.239208 -0.438912 -0.815006 -0.378314 31.1896 4.39459 17.4186
    protocols.moves.RigidBodyMover: Translate: Jump (after): RT -0.0542331 0.444298 -0.894236 0.896892 -0.371974 -0.239208 -0.438912 -0.815006 -0.378314 894.449 145.051 502.186
    protocols.jobdist.main: Finished relax_0006 in 54 seconds.
    protocols.jobdist.JobDistributors: Looking for an available job: 7 1 relax.pdb 7
    protocols.jobdist.JobDistributors: Looking for an available job: 8 1 relax.pdb 8
    protocols.jobdist.JobDistributors: Looking for an available job: 9 1 relax.pdb 9
    protocols.jobdist.JobDistributors: Looking for an available job: 10 1 relax.pdb 10
    protocols.jobdist.main: Starting relax_0010 …
    protocols.docking.DockingProtocol: Setting docking foldtree
    protocols.docking.DockingProtocol: old fold tree: FOLD_TREE EDGE 1 228 -1 EDGE 1 229 1 EDGE 229 402 -1
    protocols.docking.DockingProtocol:
    protocols.docking.DockingProtocol: new fold tree: FOLD_TREE EDGE 1 85 -1 EDGE 85 228 -1 EDGE 85 360 1 EDGE 360 229 -1 EDGE 360 402 -1
    protocols.docking.DockingProtocol:
    protocols.docking.DockingHighRes: in DockingHighRes.apply
    core.pack.task: Packer task: initialize from command line()
    core.pack.interaction_graph.interaction_graph_factory: Instantiating DensePDInteractionGraph
    core.pack.pack_rotamers: built 405 rotamers at 47 positions.
    core.pack.pack_rotamers: IG: 189636 bytes
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.interaction_graph.interaction_graph_factory: Instantiating DensePDInteractionGraph
    core.pack.pack_rotamers: built 434 rotamers at 51 positions.
    core.pack.pack_rotamers: IG: 210952 bytes
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.interaction_graph.interaction_graph_factory: Instantiating DensePDInteractionGraph
    core.pack.pack_rotamers: built 434 rotamers at 51 positions.
    core.pack.pack_rotamers: IG: 210952 bytes
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.interaction_graph.interaction_graph_factory: Instantiating DensePDInteractionGraph
    core.pack.pack_rotamers: built 434 rotamers at 51 positions.
    core.pack.pack_rotamers: IG: 210952 bytes
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    cores.RigidBodyMover: Translate: Jump (before): RT -0.0542331 0.444298 -0.894236 0.896892 -0.371974 -0.239208 -0.438912 -0.815006 -0.378314 31.1896 4.39459 17.4186
    protocols.moves.RigidBodyMover: Translate: Jump (after): RT -0.0542331 0.444298 -0.894236 0.896892 -0.371974 -0.239208 -0.438912 -0.815006 -0.378314 894.449 145.051 502.186
    protocols.jobdist.main: Finished relax_0005 in 49 seconds.
    protocols.jobdist.JobDistributors: Looking for an available job: 6 1 relax.pdb 6
    protocols.jobdist.JobDistributors: Looking for an available job: 7 1 relax.pdb 7
    protocols.jobdist.JobDistributors: Looking for an available job: 8 1 relax.pdb 8
    protocols.jobdist.JobDistributors: Looking for an available job: 9 1 relax.pdb 9
    protocols.jobdist.main: Starting relax_0009 …
    protocols.docking.DockingProtocol: Setting docking foldtree
    protocols.docking.DockingProtocol: old fold tree: FOLD_TREE EDGE 1 228 -1 EDGE 1 229 1 EDGE 229 402 -1
    protocols.docking.DockingProtocol:
    protocols.docking.DockingProtocol: new fold tree: FOLD_TREE EDGE 1 85 -1 EDGE 85 228 -1 EDGE 85 360 1 EDGE 360 229 -1 EDGE 360 402 -1
    protocols.docking.DockingProtocol:
    protocols.docking.DockingHighRes: in DockingHighRes.apply
    core.pack.task: Packer task: initialize from command line()
    core.pack.interaction_graph.interaction_graph_factory: Instantiating DensePDInteractionGraph
    core.pack.pack_rotamers: built 405 rotamers at 47 positions.
    core.pack.pack_rotamers: IG: 189636 bytes
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.interaction_graph.interaction_graph_factory: Instantiating DensePDInteractionGraph
    core.pack.pack_rotamers: built 434 rotamers at 51 positions.
    core.pack.pack_rotamers: IG: 210952 bytes
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.interaction_graph.interaction_graph_factory: Instantiating DensePDInteractionGraph
    core.pack.pack_rotamers: built 434 rotamers at 51 positions.
    core.pack.pack_rotamers: IG: 210952 bytes
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.interaction_graph.interaction_graph_factory: Instantiating DensePDInteractionGraph
    core.pack.pack_rotamers: built 434 rotamers at 51 positions.
    core.pack.pack_rotamers: IG: 210892 bytes
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: inmpiexec_dream (handle_stdin_input 1089): stdin problem; if pgm is run in background, redirect from /dev/null
    mpiexec_dream (handle_stdin_input 1090): e.g.: mpiexec -n 4 a.out < /dev/null &
    nsePDInteractionGraph
    core.pack.pack_rotamers: built 434 rotamers at 51 positions.
    core.pack.pack_rotamers: IG: 210952 bytes
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.interaction_graph.interaction_graph_factory: Instantiating DensePDInteractionGraph
    core.pack.pack_rotamers: built 434 rotamers at 51 positions.
    core.pack.pack_rotamers: IG: 210952 bytes
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.interaction_graph.interaction_graph_factory: Instantiating DensePDInteractionGraph
    core.pack.pack_rotamers: built 434 rotamers at 51 positions.
    core.pack.pack_rotamers: IG: 210952 bytes
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    protocols.moves.RigidBodyMover: Translate: Jump (before): RT -0.0542331 0.444298 -0.894236 0.896892 -0.371974 -0.239208 -0.438912 -0.815006 -0.378314 31.1896 4.39459 17.4186
    protocols.moves.RigidBodyMover: Translate: Jump (after): RT -0.0542331 0.444298 -0.894236 0.896892 -0.371974 -0.239208 -0.438912 -0.815006 -0.378314 894.449 145.051 502.186
    protocols.moves.RigidBodyMover: Translate: Jump (before): RT -0.0542331 0.444298 -0.894236 0.896892 -0.371974 -0.239208 -0.438912 -0.815006 -0.378314 31.1896 4.39459 17.4186
    protocols.moves.RigidBodyMover: Translate: Jump (after): RT -0.0542331 0.444298 -0.894236 0.896892 -0.371974 -0.239208 -0.438912 -0.815006 -0.378314 894.449 145.051 502.186
    protocols.jobdist.main: Finished relax_0007 in 36 seconds.
    protocols.jobdist.JobDistributors: Looking for an available job: 8 1 relax.pdb 8
    protocols.jobdist.JobDistributors: Looking for an available job: 9 1 relax.pdb 9
    protocols.jobdist.JobDistributors: Looking for an available job: 10 1 relax.pdb 10
    protocols.jobdist.main: Finished all 2 structures in 78 seconds.
    Done!

    ine()
    core.pack.interaction_graph.interaction_graph_factory: Instantiating DensePDInteractionGraph
    core.pack.pack_rotamers: built 426 rotamers at 50 positions.
    core.pack.pack_rotamers: IG: 200028 bytes
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.interaction_graph.interaction_graph_factory: Instantiating DensePDInteractionGraph
    core.pack.pack_rotamers: built 426 rotamers at 50 positions.
    core.pack.pack_rotamers: IG: 200028 bytes
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.interaction_graph.interaction_graph_factory: Instantiating DensePDInteractionGraph
    core.pack.pack_rotamers: built 435 rotamers at 51 positions.
    core.pack.pack_rotamers: IG: 211256 bytes
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    protocols.moves.RigidBodyMover: Translate: Jump (before): RT -0.0542331 0.444298 -0.894236 0.896892 -0.371974 -0.239208 -0.438912 -0.815006 -0.378314 31.1896 4.39459 17.4186
    protocols.moves.RigidBodyMover: Translate: Jump (after): RT -0.0542331 0.444298 -0.894236 0.896892 -0.371974 -0.239208 -0.438912 -0.815006 -0.378314 894.449 145.051 502.186
    protocols.moves.RigidBodyMover: Translate: Jump (before): RT -0.0542331 0.444298 -0.894236 0.896892 -0.371974 -0.239208 -0.438912 -0.815006 -0.378314 31.1896 4.39459 17.4186
    protocols.moves.RigidBodyMover: Translate: Jump (after): RT -0.0542331 0.444298 -0.894236 0.896892 -0.371974 -0.239208 -0.438912 -0.815006 -0.378314 894.449 145.051 502.186
    protocols.jobdist.main: Finished relax_0008 in 32 seconds.
    protocols.jobdist.JobDistributors: Looking for an available job: 9 1 relax.pdb 9
    protocols.jobdist.JobDistributors: Looking for an available job: 10 1 relax.pdb 10
    protocols.jobdist.main: Finished all 2 structures in 78 seconds.
    Done!

    itialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.interaction_graph.interaction_graph_factory: Instantiating DensePDInteractionGraph
    core.pack.pack_rotamers: built 434 rotamers at 51 positions.
    core.pack.pack_rotamers: IG: 210892 bytes
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.interaction_graph.interaction_graph_factory: Instantiating DensePDInteractionGraph
    core.pack.pack_rotamers: built 434 rotamers at 51 positions.
    core.pack.pack_rotamers: IG: 210892 bytes
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.interaction_graph.interaction_graph_factory: Instantiating DensePDInteractionGraph
    core.pack.pack_rotamers: built 434 rotamers at 51 positions.
    core.pack.pack_rotamers: IG: 210892 bytes
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    protocols.moves.RigidBodyMover: Translate: Jump (before): RT -0.0542331 0.444298 -0.894236 0.896892 -0.371974 -0.239208 -0.438912 -0.815006 -0.378314 31.1896 4.39459 17.4186
    protocols.moves.RigidBodyMover: Translate: Jump (after): RT -0.0542331 0.444298 -0.894236 0.896892 -0.371974 -0.239208 -0.438912 -0.815006 -0.378314 894.449 145.051 502.186
    protocols.moves.RigidBodyMover: Translate: Jump (before): RT -0.0542331 0.444298 -0.894236 0.896892 -0.371974 -0.239208 -0.438912 -0.815006 -0.378314 31.1896 4.39459 17.4186
    protocols.moves.RigidBodyMover: Translate: Jump (after): RT -0.0542331 0.444298 -0.894236 0.896892 -0.371974 -0.239208 -0.438912 -0.815006 -0.378314 894.449 145.051 502.186
    protocols.jobdist.main: Finished relax_0009 in 35 seconds.
    protocols.jobdist.JobDistributors: Looking for an available job: 10 1 relax.pdb 10
    protocols.jobdist.main: Finished all 2 structures in 84 seconds.
    Done!

    e.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.interaction_graph.interaction_graph_factory: Instantiating DensePDInteractionGraph
    core.pack.pack_rotamers: built 434 rotamers at 51 positions.
    core.pack.pack_rotamers: IG: 209444 bytes
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.interaction_graph.interaction_graph_factory: Instantiating DensePDInteractionGraph
    core.pack.pack_rotamers: built 434 rotamers at 51 positions.
    core.pack.pack_rotamers: IG: 209444 bytes
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    core.pack.interaction_graph.interaction_graph_factory: Instantiating DensePDInteractionGraph
    core.pack.pack_rotamers: built 433 rotamers at 51 positions.
    core.pack.pack_rotamers: IG: 209860 bytes
    core.pack.task: Packer task: initialize from command line()
    core.pack.task: Packer task: initialize from command line()
    protocols.moves.RigidBodyMover: Translate: Jump (before): RT -0.0542331 0.444298 -0.894236 0.896892 -0.371974 -0.239208 -0.438912 -0.815006 -0.378314 31.1896 4.39459 17.4186
    protocols.moves.RigidBodyMover: Translate: Jump (after): RT -0.0542331 0.444298 -0.894236 0.896892 -0.371974 -0.239208 -0.438912 -0.815006 -0.378314 894.449 145.051 502.186
    protocols.moves.RigidBodyMover: Translate: Jump (before): RT -0.0542331 0.444298 -0.894236 0.896892 -0.371974 -0.239208 -0.438912 -0.815006 -0.378314 31.1896 4.39459 17.4186
    protocols.moves.RigidBodyMover: Translate: Jump (after): RT -0.0542331 0.444298 -0.894236 0.896892 -0.371974 -0.239208 -0.438912 -0.815006 -0.378314 894.449 145.051 502.186
    protocols.jobdist.main: Finished relax_0010 in 30 seconds.
    protocols.jobdist.main: Finished all 2 structures in 84 seconds.
    Done!