Package Bio :: Package SearchIO :: Package HmmerIO :: Module hmmer3_domtab :: Class Hmmer3DomtabHmmhitWriter

Class Hmmer3DomtabHmmhitWriter

object --+
         |
        Hmmer3DomtabHmmhitWriter

Known Subclasses:

Hmmer3DomtabHmmqueryWriter

Writer for hmmer3-domtab output format which writes hit coordinates
as HMM profile coordinates.

Instance Methods

[hide private]

__init__(self, handle)
x.__init__(...) initializes x; see x.__class__.__doc__ for signature

source code

write_file(self, qresults)
Writes to the handle.

source code

_build_header(self, first_qresult=None)
Returns the header string of a domain HMMER table output.

source code

_build_row(self, qresult)
Returns a string or one row or more of the QueryResult object.

source code

Inherited from object: __delattr__, __getattribute__, __hash__, __new__, __reduce__, __reduce_ex__, __repr__, __setattr__, __str__

Class Variables

[hide private]

hmm_as_hit = True

Properties

[hide private]

Inherited from object: __class__

Method Details

[hide private]

init(self, handle)
(Constructor)

source code

x.__init__(...) initializes x; see x.__class__.__doc__ for signature

Overrides: object.__init__: (inherited documentation)

write_file(self, qresults)

source code

Writes to the handle.

Returns a tuple of how many QueryResult, Hit, and HSP objects were written.

Class Hmmer3DomtabHmmhitWriter

__init__(self, handle) (Constructor)

write_file(self, qresults)

init(self, handle)
(Constructor)