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Packages that use GeneralException | |
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Alignments | Provides class for dealing with "alignments" and the sites in an alignment. |
Ancestors | Provides classed to calculate ancestral reconstruction. |
Exceptions | Provides exceptions that are common across the package. |
Likelihood | Provides classes for calculating the likelihood of a tree given a model and an alignment. |
Models | Provides classes for defing a phylogenetic model. |
Optimizers | Provides classes for optimising a likelihood. |
Parameters | Provides classes for defining parameters used in the various calculations. |
Trees | Provides classes to define a tree and any constraints on that tree. |
Uses of GeneralException in Alignments |
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Subclasses of GeneralException in Alignments | |
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class |
AlignmentException
Exception related to an alignment (currently only input errors) |
Uses of GeneralException in Ancestors |
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Subclasses of GeneralException in Ancestors | |
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class |
AncestralException
Exception related to ancestral reconstruction |
Uses of GeneralException in Exceptions |
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Subclasses of GeneralException in Exceptions | |
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class |
InputException
General excpetion for an exeption in or about an input file |
class |
OutputException
Exception for problems writing an output file |
Uses of GeneralException in Likelihood |
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Subclasses of GeneralException in Likelihood | |
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static class |
Likelihood.LikelihoodException
Exception related to a likelihood calculation |
Uses of GeneralException in Models |
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Subclasses of GeneralException in Models | |
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class |
Model.ModelException
Exception thrown when there is a problem with the model |
class |
RateCategory.RateException
Exception thrown if there is a problem within a RateClass |
Uses of GeneralException in Optimizers |
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Subclasses of GeneralException in Optimizers | |
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static class |
Optimizer.OptimizerException
Exception for when there is a problem with an optimiser. |
Uses of GeneralException in Parameters |
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Subclasses of GeneralException in Parameters | |
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class |
Parameters.ParameterException
Exception related to the parameters |
Uses of GeneralException in Trees |
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Subclasses of GeneralException in Trees | |
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class |
TreeException
Exception thrown when there is a problem with a tree |
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