Package obitools :: Package ecopcr :: Module taxonomy :: Class TaxonomyDump
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Class TaxonomyDump

source code


Instance Methods [hide private]
 
__init__(self, taxdir)
The taxonomy database constructor
source code
 
_bsearchTaxon(self, taxid) source code
 
_readNodeTable(self, file) source code

Inherited from Taxonomy: findIndex, findRankByName, findTaxonByName, findTaxonByTaxid, getFamily, getGenus, getOrder, getRank, getRankId, getScientificName, getSpecies, getTaxonAtRank, isAncestor, lastCommonTaxon, parentalTreeIterator, rankIterator, subTreeIterator

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

Static Methods [hide private]
 
_taxonCmp(t1, t2) source code
 
_nameIterator(file) source code
 
_mergedNodeIterator(file) source code
 
_deletedNodeIterator(file) source code
Properties [hide private]

Inherited from object: __class__

Method Details [hide private]

__init__(self, taxdir)
(Constructor)

source code 

The taxonomy database constructor

Parameters:
  • path - path to the ecoPCR database including the database prefix name
Overrides: object.__init__
(inherited documentation)