Value Errors#

exception pyhmmer.errors.AlphabetMismatch(ValueError)#

A value error caused by an alphabet mismatch.

This error is raised on occasions where several arguments to a function have mismatching alphabets. For instance, passing a DigitalSequence to a Builder with different alphabets:

>>> seq = easel.DigitalSequence(easel.Alphabet.dna())
>>> builder = plan7.Builder(easel.Alphabet.amino())
>>> builder.build(seq, plan7.Background(seq.alphabet))
Traceback (most recent call last):
  ...
pyhmmer.errors.AlphabetMismatch: Expected amino alphabet, found DNA alphabet

Added in version 0.3.0.

__init__(self, expected, actual=None)#: –

exception pyhmmer.errors.MissingCutoffs(ValueError)#

The model is missing bitscore cutoffs required by the pipeline.

Added in version 0.8.2.

Added in version 0.10.8: The model_name and bit_cutoffs displayed in the error message.

__init__(self, model_name=None, bit_cutoffs=None)#: –

exception pyhmmer.errors.InvalidHMM(ValueError)#

A value error caused by a HMM that fails validation.

Added in version 0.10.3.

__init__(self, hmm, message)#: –

exception pyhmmer.errors.InvalidParameter(ValueError)#

An invalid parameter value was given.

Added in version 0.8.2.

__init__(self, name, value, *, choices=None, hint=None)#: –

Value Errors#

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