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Viewing changes to algo/blast/core/blast_parameters.h

  • Committer: Bazaar Package Importer
  • Author(s): Barry deFreese
  • Date: 2006-07-19 23:28:07 UTC
  • mfrom: (1.1.5 upstream)
  • Revision ID: james.westby@ubuntu.com-20060719232807-et3cdmcjgmnyleyx
Tags: 6.1.20060507-3ubuntu1
Re-merge with Debian

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algo/blast/core/blast_parameters.h
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/* $Id: blast_parameters.h,v 1.6 2005/11/16 14:31:36 madden Exp $
 
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/* $Id: blast_parameters.h,v 1.9 2006/01/03 17:46:53 papadopo Exp $
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 * ===========================================================================
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 *
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 *                            PUBLIC DOMAIN NOTICE
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                           value in options. */
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   Int4 x_dropoff; /**< Raw X-dropoff value used in the ungapped extension */
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   Int4 cutoff_score; /**< Cutoff score for saving ungapped hits. */
 
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   Int4 reduced_nucl_cutoff_score; /**< reduced cutoff score for early pruning 
 
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                                        of ungapped nucleotide alignments */
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   ESeedContainerType container_type; /**< How to store offset pairs for initial
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                                        seeds? */
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   ESeedExtensionMethod extension_method; /**< How should exact matches be 
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                                            extended? */
 
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   Int4 nucl_score_table[256]; /**< the combined score of all match/mismatch
 
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                                    combinations for aligning four bases */
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} BlastInitialWordParameters;
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/** Computed values used as parameters for gapped alignments */