Rosetta
2020.11
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Public Member Functions | |
def | __init__ |
def | apply |
Public Attributes | |
residue_selector | |
surface_type | |
opacity | |
color | |
colorscheme | |
Show the specified surface for each initialized `.pdb` file, `Pose` or `PackedPose` object. Parameters ---------- first : optional `residue_selector` An instance of `pyrosetta.rosetta.core.select.residue_selector.ResidueSelector` to select residues on which to apply the surface. Default: None second : optional `surface_type` `str` indicating surface type to be displayed. py3Dmol supports the following options: "VDW": Van der Waals surface "MS": Molecular surface "SES": Solvent excluded surface "SAS": Solvent accessible surface Default: "VDW" third : optional `opacity` `float` or `int` between 0 and 1 for opacity of the displayed surface. Default: 0.5 fourth : optional `color` `str` indicating a standard color (e.g. "grey") of the surface to be displayed. Either `color` or `colorscheme` may be specified, where `colorscheme` overrides `color`. Default: None fifth : optional `colorscheme` `str` indicating the color scheme of the surface to be displayed. Either `color` or `colorscheme` may be specified, where `colorscheme` overrides `color`. Options include: A lower-case standard color followed by "Carbon" (e.g. "yellowCarbon") "ssPyMOL": PyMol secondary colorscheme "ssJmol": Jmol secondary colorscheme "Jmol": Jmol primary colorscheme "default": default colorscheme "amino": amino acid colorscheme "shapely": shapely protien colorscheme "nucleic": nucleic acid colorscheme "chain": standard chain colorscheme "chainHetatm": chain Hetatm colorscheme Default: None Reference: https://3dmol.csb.pitt.edu/doc/types.html#ColorschemeSpec Returns ------- A Viewer instance.
def pyrosetta.distributed.viewer.modules.setSurface.__init__ | ( | self, | |
residue_selector = None , |
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surface_type = "VDW" , |
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opacity = 0.5 , |
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color = None , |
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colorscheme = None |
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) |
Referenced by pyrosetta.distributed.tasks.taskbase.TaskBase.__setstate__().
def pyrosetta.distributed.viewer.modules.setSurface.apply | ( | self, | |
viewer, | |||
pose, | |||
pdbstring | |||
) |
References pyrosetta.distributed.viewer.modules._pdbstring_to_pose(), pyrosetta.distributed.viewer.modules._pose_to_residue_chain_tuples(), pyrosetta.distributed.viewer.modules.setBackgroundColor.color, pyrosetta.distributed.viewer.modules.setDisulfides.color, pyrosetta.distributed.viewer.modules.setHydrogenBonds.color, pyrosetta.distributed.viewer.modules.setHydrogens.color, pyrosetta.distributed.viewer.modules.setSurface.color, pyrosetta.distributed.viewer.modules.setStyle.colorscheme, pyrosetta.distributed.viewer.modules.setSurface.colorscheme, pyrosetta.distributed.viewer.modules.setSurface.opacity, pyrosetta.distributed.viewer.modules.setStyle.residue_selector, pyrosetta.distributed.viewer.modules.setSurface.residue_selector, and pyrosetta.distributed.viewer.modules.setSurface.surface_type.
Referenced by pyrosetta.distributed.tasks.rosetta_scripts.BaseRosettaScriptsTask.execute().
pyrosetta.distributed.viewer.modules.setSurface.color |
Referenced by pyrosetta.distributed.viewer.modules.setSurface.apply().
pyrosetta.distributed.viewer.modules.setSurface.colorscheme |
Referenced by pyrosetta.distributed.viewer.modules.setSurface.apply().
pyrosetta.distributed.viewer.modules.setSurface.opacity |
Referenced by pyrosetta.distributed.viewer.modules.setSurface.apply().
pyrosetta.distributed.viewer.modules.setSurface.residue_selector |
pyrosetta.distributed.viewer.modules.setSurface.surface_type |
Referenced by pyrosetta.distributed.viewer.modules.setSurface.apply().