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MAViewer displays a multiple alignment
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Methods
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Hide
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Hide ( self )
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Quit
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Quit ( self )
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__init__
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__init__ (
self,
fileNameOrSeqs,
fileType=None,
autoAssociate=1,
title=None,
quitCB=None,
frame=None,
ownSeqs=None,
)
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addSpecials
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addSpecials ( self, specials )
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associate
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associate (
self,
models,
seq=None,
force=1,
minLength=10,
showMatches=1,
showErrors=1,
)
associate models with sequences
models is normally a list of models, but it can be
a Sequence instance, in which case it should be a
Sequence of a particular chain of a model.
if seq is given, associate only with that sequence,
otherwise consider all sequences in alignment.
If force is 1, then if no association meets the
built-in association criteria, then use Needleman-
Wunsch to force an association with at least one
sequence.
If models is None, then some or all of the
sequences have residues attributes indicating
their corresponding model. Set up the proper
associations.
If a chain is less than minLength residues,
ignore it.
showMatches and showErrors control whether
regions will be created indicating matches and errors.
A complete, error-free matchup will not have
regions created regardless.
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customUI
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customUI ( self, parent )
Function to allow customization of the interface
parent is the interior frame of the dialog.
It can be populated with custom widgets as desired.
A frame should be returned by this function, in which
the MAViewer UI will be placed.
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delSpecials
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delSpecials ( self, specials )
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destroy
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destroy ( self )
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disassociate
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disassociate ( self, mol )
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emHide
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emHide ( self )
Extension manager method
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emName
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emName ( self )
Extension manager method
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emQuit
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emQuit ( self )
Extension manager method
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emRaise
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emRaise ( self )
Extension manager method
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fillInUI
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fillInUI ( self, parent )
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readFile
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readFile (
self,
fileName,
fileType,
)
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Exceptions
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IOError, "Found no sequences in file %s" % fileName
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realign
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realign (
self,
input,
fileType=None,
)
Switch to a different alignment of the same sequences
input is list of Sequences or file name
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save
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save ( self )
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saveString
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saveString ( self )
returns a string that can be used by restoreMAV()
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