Bio.File.UndoHandle

All Samples(37) | Call(31) | Derive(0) | Import(6)

src/b/i/biopython-1.63/Bio/SeqIO/PdbIO.py biopython(Download)

    # Deduce the PDB ID from the PDB header
    # ENH: or filename?
    from Bio.File import UndoHandle
    undo_handle = UndoHandle(handle)
    firstline = undo_handle.peekline()

src/b/i/biopython-HEAD/Bio/SeqIO/PdbIO.py biopython(Download)

    # Deduce the PDB ID from the PDB header
    # ENH: or filename?
    from Bio.File import UndoHandle
    undo_handle = UndoHandle(handle)
    firstline = undo_handle.peekline()

src/b/i/biopython-1.63/Bio/SearchIO/FastaIO.py biopython(Download)

from Bio._py3k import _as_bytes, _bytes_to_string
from Bio.Alphabet import generic_dna, generic_protein
from Bio.File import UndoHandle
from Bio.SearchIO._index import SearchIndexer
from Bio.SearchIO._model import QueryResult, Hit, HSP, HSPFragment

    def __init__(self, handle, __parse_hit_table=False):
        self.handle = UndoHandle(handle)
        self._preamble = self._parse_preamble()
 
    def __iter__(self):

    def __init__(self, filename):
        SearchIndexer.__init__(self, filename)
        self._handle = UndoHandle(self._handle)
 
    def __iter__(self):

src/b/i/biopython-HEAD/Bio/SearchIO/FastaIO.py biopython(Download)

from Bio._py3k import _as_bytes, _bytes_to_string
from Bio.Alphabet import generic_dna, generic_protein
from Bio.File import UndoHandle
from Bio.SearchIO._index import SearchIndexer
from Bio.SearchIO._model import QueryResult, Hit, HSP, HSPFragment

    def __init__(self, handle, __parse_hit_table=False):
        self.handle = UndoHandle(handle)
        self._preamble = self._parse_preamble()
 
    def __iter__(self):

    def __init__(self, filename):
        SearchIndexer.__init__(self, filename)
        self._handle = UndoHandle(self._handle)
 
    def __iter__(self):

src/b/i/biopython-1.63/Bio/UniGene/UniGene.py biopython(Download)

    def feed( self, handle ):
        if isinstance(handle, Bio.File.UndoHandle):
            uhandle = handle
        else:
            uhandle = Bio.File.UndoHandle(handle)

if( __name__ == '__main__' ):
    with open( 'Hs13225.htm') as handle:
        undo_handle = Bio.File.UndoHandle( handle )
        unigene_parser = UniGeneParser()
        unigene_parser.parse( handle )

src/b/i/biopython-1.63/Bio/Blast/NCBIStandalone.py biopython(Download)

            uhandle = handle
        else:
            uhandle = File.UndoHandle(handle)
 
        # Try to fast-forward to the beginning of the blast report.

                "I expected a file handle or file-like object, got %s"
                % type(handle))
        self._uhandle = File.UndoHandle(handle)
        self._parser = parser
        self._header = []

src/b/i/biopython-HEAD/Bio/Blast/NCBIStandalone.py biopython(Download)

            uhandle = handle
        else:
            uhandle = File.UndoHandle(handle)
 
        # Try to fast-forward to the beginning of the blast report.

                "I expected a file handle or file-like object, got %s"
                % type(handle))
        self._uhandle = File.UndoHandle(handle)
        self._parser = parser
        self._header = []

src/b/i/biopython---popgen-HEAD/src/PopGen/Gio/PedIO.py biopython---popgen(Download)

            uhandle = handle
        else:
            uhandle = File.UndoHandle(handle)
 
        consumer.start_record()

src/b/i/biopython---popgen-HEAD/src/PopGen/GenePop/__init__.py biopython---popgen(Download)

            uhandle = handle
        else:
            uhandle = File.UndoHandle(handle)
 
        consumer.start_record()

src/b/i/biopython---popgen-HEAD/src/PopGen/FStat/__init__.py biopython---popgen(Download)

            uhandle = handle
        else:
            uhandle = File.UndoHandle(handle)

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