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src/b/i/biopython-1.63/Bio/SearchIO/HmmerIO/_base.py   biopython(Download)
 
from Bio._py3k import _as_bytes
from Bio.SearchIO._index import SearchIndexer
 
 
class _BaseHmmerTextIndexer(SearchIndexer):

src/b/i/biopython-HEAD/Bio/SearchIO/HmmerIO/_base.py   biopython(Download)
 
from Bio._py3k import _as_bytes
from Bio.SearchIO._index import SearchIndexer
 
 
class _BaseHmmerTextIndexer(SearchIndexer):

src/b/i/biopython-1.63/Bio/SearchIO/HmmerIO/hmmer3_tab.py   biopython(Download)
from Bio._py3k import _as_bytes, _bytes_to_string
from Bio.Alphabet import generic_protein
from Bio.SearchIO._index import SearchIndexer
from Bio.SearchIO._model import QueryResult, Hit, HSP, HSPFragment
 
class Hmmer3TabIndexer(SearchIndexer):
 
    """Indexer class for HMMER table output."""
 
    _parser = Hmmer3TabParser

src/b/i/biopython-1.63/Bio/SearchIO/ExonerateIO/_base.py   biopython(Download)
import re
 
from Bio.SearchIO._index import SearchIndexer
from Bio.SearchIO._model import QueryResult, Hit, HSP, HSPFragment
from Bio.SeqUtils import seq1
class _BaseExonerateIndexer(SearchIndexer):
 
    """Indexer class for Exonerate plain text."""
 
    _parser = None # should be defined by subclass

src/b/i/biopython-1.63/Bio/SearchIO/BlastIO/blast_xml.py   biopython(Download)
 
from Bio.Alphabet import generic_dna, generic_protein
from Bio.SearchIO._index import SearchIndexer
from Bio.SearchIO._model import QueryResult, Hit, HSP, HSPFragment
 
class BlastXmlIndexer(SearchIndexer):
    """Indexer class for BLAST XML output."""
 
    _parser = BlastXmlParser
    qstart_mark = _as_bytes('<Iteration>')

src/b/i/biopython-1.63/Bio/SearchIO/BlastIO/blast_tab.py   biopython(Download)
from Bio._py3k import basestring
 
from Bio.SearchIO._index import SearchIndexer
from Bio.SearchIO._model import QueryResult, Hit, HSP, HSPFragment
 
class BlastTabIndexer(SearchIndexer):
 
    """Indexer class for BLAST+ tab output."""
 
    _parser = BlastTabParser

src/b/i/biopython-HEAD/Bio/SearchIO/HmmerIO/hmmer3_tab.py   biopython(Download)
from Bio._py3k import _as_bytes, _bytes_to_string
from Bio.Alphabet import generic_protein
from Bio.SearchIO._index import SearchIndexer
from Bio.SearchIO._model import QueryResult, Hit, HSP, HSPFragment
 
class Hmmer3TabIndexer(SearchIndexer):
 
    """Indexer class for HMMER table output."""
 
    _parser = Hmmer3TabParser

src/b/i/biopython-HEAD/Bio/SearchIO/ExonerateIO/_base.py   biopython(Download)
import re
 
from Bio.SearchIO._index import SearchIndexer
from Bio.SearchIO._model import QueryResult, Hit, HSP, HSPFragment
from Bio.SeqUtils import seq1
class _BaseExonerateIndexer(SearchIndexer):
 
    """Indexer class for Exonerate plain text."""
 
    _parser = None # should be defined by subclass

src/b/i/biopython-HEAD/Bio/SearchIO/BlastIO/blast_xml.py   biopython(Download)
 
from Bio.Alphabet import generic_dna, generic_protein
from Bio.SearchIO._index import SearchIndexer
from Bio.SearchIO._model import QueryResult, Hit, HSP, HSPFragment
 
class BlastXmlIndexer(SearchIndexer):
    """Indexer class for BLAST XML output."""
 
    _parser = BlastXmlParser
    qstart_mark = _as_bytes('<Iteration>')

src/b/i/biopython-HEAD/Bio/SearchIO/BlastIO/blast_tab.py   biopython(Download)
from Bio._py3k import basestring
 
from Bio.SearchIO._index import SearchIndexer
from Bio.SearchIO._model import QueryResult, Hit, HSP, HSPFragment
 
class BlastTabIndexer(SearchIndexer):
 
    """Indexer class for BLAST+ tab output."""
 
    _parser = BlastTabParser

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