Your guide to YASARA View
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Essentials
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What you really have to know
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Selections
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Tell YASARA what you want
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Commands
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Tell YASARA what to do
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Recipes
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Answer complex questions
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Macros
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Automate your work with Yanaconda
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Plugins
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Extend YASARA with your own functions
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Plugins allow you to add your own menu options
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Plugins can be written in Yanaconda or Python
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Python can be downloaded from www.python.org
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Plugins must stick to format conventions
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Plugins can access most YASARA functions
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Python plugins can access a number of predefined variables
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Object descriptors identify selected objects
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Molecule descriptors identify selected molecules
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Residue descriptors identify selected residues
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Atom descriptors identify selected atoms
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Python plugins run in a separate thread
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Plugins can be speeded up by switching off the console
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Plugins can be run from the command line and in console mode
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Debugging is done by adding temporary print commands
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Scripts
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Use YASARA as a Python module
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Troubleshooting
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Get things going