scripting_documentation/RosettaScripts/xsd/mover_ConnectJumps

Autogenerated Tag Syntax Documentation:

The ConnectJumps, as the Doxygen calls it, is deprecated. Use BridgeChains instead.

<ConnectJumps name="(&string;)" chain1="(&non_negative_integer;)"
        chain2="(&non_negative_integer;)" segment1="(&string;)"
        segment2="(&string;)" motif="(&string;)" cutpoint="(&string;)"
        ideal_abego="(false &bool;)" extend_ss="(true &string;)"
        overlap="(&non_negative_integer;)" dry_run="(&non_negative_integer;)"
        trials="(&non_negative_integer;)" scorefxn="(&string;)" />

chain1: Indicates the chain which is to be located at the N-terminal end of the new fragment. Building will begin at the C-terminal residue of the jump.
chain2: Indicates the chain which is to be located at the C-terminal end of the new fragment.
segment1: XSD XRW: TO DO
segment2: XSD XRW: TO DO
motif: The secondary structure + abego to be used for the backbone region to be rebuilt. Taken from input pose if not specified. The format of this string is: "[Length][SS][ABEGO]-[Length2][SS2][ABEGO2]-...-[LengthN][SSN][ABEGON]" For example, "1LX-5HA-1LB-1LA-1LB-6EB" will build a one residue loop of any abego, followed by a 5-residue helix, followed by a 3-residue loop of ABEGO BAB, followed by a 6-residue strand.
cutpoint: XSD XRW: TO DO
ideal_abego: XSD XRW: TO DO
extend_ss: Gives the SS types that can be extended during the connection. Extensions are part of the loop and are expected to have secondary structure of 'L'. An empty string or '0' means not to extend any secondary structures and use only the ideal loop ABEGOS, e.g. EA, GG for Strand--Strand connections. With extend_ss='E', ABEGO values of EA, EAB, BEA, BEAB, BGG, GGB, and BGGB are allowed. extend_ss='1' means that all SS types can be extended.
overlap: Build overlap of nested FoldArchitectMover
dry_run: Sets folder of FoldArchitectMover to RandomTorsionPoseFolder instead of RemodelLoopMoverPoseFolde
trials: iterations per phase of nested FoldArchitectMover
scorefxn: Name of score function to use

scripting_documentation/RosettaScripts/xsd/mover_ConnectJumps_type