view commons/core/sql/ITableSeqAdaptator.py @ 14:c79b9ae3f65f

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date Fri, 19 Apr 2013 10:13:11 -0400
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# Copyright INRA (Institut National de la Recherche Agronomique)
# http://www.inra.fr
# http://urgi.versailles.inra.fr
#
# This software is governed by the CeCILL license under French law and
# abiding by the rules of distribution of free software.  You can  use, 
# modify and/ or redistribute the software under the terms of the CeCILL
# license as circulated by CEA, CNRS and INRIA at the following URL
# "http://www.cecill.info". 
#
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# modify and redistribute granted by the license, users are provided only
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## Interface for TableSeqAdaptator
#
class ITableSeqAdaptator(object):

    ## Retrieve all the distinct accession names in a list.
    #
    # @return lAccessions list of accessions
    #
    # @warning old name was getListAccession
    #
    def getAccessionsList( self ):
        pass
    
    ## Save sequences in a fasta file from a list of accession names.
    # 
    # @param lAccessions list of accessions
    # @param outFileName string Fasta file
    #
    # @warning old name saveListAccessionInFastaFile
    #
    def saveAccessionsListInFastaFile( self, lAccessions, outFileName ):
        pass
    
    ## insert bioseq instance
    #
    # @param seq bioseq 
    # @param delayed boolean must the insert be delayed 
    # 
    # @warning old name was insASeq
    #
    def insert(self, seq, delayed = False):
        pass