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Viewing changes to algo/blast/api/blast_returns.c

  • Committer: Bazaar Package Importer
  • Author(s): Aaron M. Ucko
  • Date: 2008-07-14 19:43:15 UTC
  • mfrom: (2.1.12 intrepid)
  • Revision ID: james.westby@ubuntu.com-20080714194315-ed44u9ek7txva2rz
Tags: 6.1.20080302-3
http://bugs.debian.org/490437
tools/readdb.c: enable madvise()-based code on all glibc (hence all
Debian) systems, not just Linux.  (Closes: #490437.)

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algo/blast/api/blast_returns.c
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/* $Id: blast_returns.c,v 1.34 2006/10/13 18:44:29 papadopo Exp $
 
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/* $Id: blast_returns.c,v 1.38 2007/07/10 15:28:07 papadopo Exp $
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* ===========================================================================
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*
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*                            PUBLIC DOMAIN NOTICE
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 */
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#ifndef SKIP_DOXYGEN_PROCESSING
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static char const rcsid[] = "$Id: blast_returns.c,v 1.34 2006/10/13 18:44:29 papadopo Exp $";
 
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static char const rcsid[] = "$Id: blast_returns.c,v 1.38 2007/07/10 15:28:07 papadopo Exp $";
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#endif /* SKIP_DOXYGEN_PROCESSING */
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#include <algo/blast/api/blast_returns.h>
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       add_string_to_buffer(buffer, &ret_buffer, &ret_buffer_length);
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   }
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   if (search_params->threshold) {
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       sprintf(buffer, "Neighboring words threshold: %ld", 
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               (long) search_params->threshold);
 
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       if (search_params->threshold == floor(search_params->threshold))
 
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           sprintf(buffer, "Neighboring words threshold: %ld", 
 
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                   (long)search_params->threshold);
 
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       else
 
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           sprintf(buffer, "Neighboring words threshold: %.2f", 
 
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                   search_params->threshold);
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       add_string_to_buffer(buffer, &ret_buffer, &ret_buffer_length);
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   }
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   if (search_params->window_size) {
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         itr = BlastSeqSrcIteratorFree(itr);
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      }
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   }
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   if (program_number == eBlastTypeTblastn || 
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       program_number == eBlastTypeRpsTblastn ||
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       program_number == eBlastTypeTblastx)
 
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   if (Blast_SubjectIsTranslated(program_number) ||
 
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       program_number == eBlastTypeRpsTblastn)
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      total_length /= 3;
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   (*db_stats)->dblength = total_length;
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      /** FIXME: Should this be different for RPS BLAST? */
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      (*db_stats)->qlen = qlen;
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      (*db_stats)->eff_qlen = qlen - ((*db_stats)->hsp_length);
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      (*db_stats)->eff_dblength = 
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          total_length - num_entries*((*db_stats)->hsp_length);
 
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      (*db_stats)->eff_dblength = total_length;
 
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      if (eff_len_options->db_length == 0) {
 
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         (*db_stats)->eff_dblength -= (Int8)num_entries *
 
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                                        ((*db_stats)->hsp_length);
 
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      }
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      (*db_stats)->eff_searchsp = 
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          query_info->contexts[query_info->first_context].eff_searchsp;
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      if (eff_len_options &&