pwem.viewers.viewer_chimera module¶
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class
pwem.viewers.viewer_chimera.
Chimera
[source]¶ Bases:
object
Helper class to execute chimera and handle its environment.
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classmethod
createCoordinateAxisFile
(dim, bildFileName='/tmp/axis.bild', sampling=1, r1=0.1)[source]¶ Create a coordinate system, Along each dimension we place a small sphere in the negative axis. In this way chimera shows the system of coordinates origin in the window center
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classmethod
getEnviron
()[source]¶ Return the proper environ to launch chimera. CHIMERA_HOME variable is read from the ~/.config/scipion.conf file.
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classmethod
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class
pwem.viewers.viewer_chimera.
ChimeraClientView
(inputFile, **kwargs)[source]¶ Bases:
pwem.viewers.viewer_chimera.ChimeraView
View for calling an external command.
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class
pwem.viewers.viewer_chimera.
ChimeraView
(inputFile, **kwargs)[source]¶ Bases:
pyworkflow.viewer.CommandView
View for calling an external command.
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class
pwem.viewers.viewer_chimera.
ChimeraViewer
(**kwargs)[source]¶ Bases:
pyworkflow.viewer.Viewer
Wrapper to visualize PDB object with Chimera.
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pwem.viewers.viewer_chimera.
mapVolsWithColorkey
(displayVolFileName, mapVolFileName, stepColors, colorList, voldim, volOrigin=None, step=-1, sampling=1.0, scriptFileName='/tmp/chimeraColor.py', bgColorImage='white', showAxis=True, fontSize=12)[source]¶ colors surface of volume ‘displayVolFileName’ using values from ‘mapVolFikeName’. A colorkey is created using the values in stepColors and the color in colorList.