PolyTableFunctions.cc

/*

Copyright (C) 2003-2009 Kevin Thornton, krthornt[]@[]uci.edu

Remove the brackets to email me.

This file is part of libsequence.

libsequence is free software: you can redistribute it and/or modify
it under the terms of the GNU General Public License as published by
the Free Software Foundation, either version 3 of the License, or
(at your option) any later version.

libsequence is distributed in the hope that it will be useful,
but WITHOUT ANY WARRANTY; without even the implied warranty of
MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.  See the
GNU General Public License for more details.

You should have received a copy of the GNU General Public License
long with libsequence.  If not, see <http://www.gnu.org/licenses/>.

*/

#include <Sequence/PolyTableFunctions.hpp>
#include <Sequence/SeqAlphabets.hpp>
#include <Sequence/PolyTable.hpp>
#include <algorithm>
#include <set>
#include <cctype>

namespace Sequence
{
  bool containsCharacter(const PolyTable * t,
                         const char ch)
  {
    for( PolyTable::const_data_iterator itr = t->begin() ;
         itr < t->end() ;
         ++itr )
      {
        if ( itr->find(ch) != std::string::npos )
          {
            return true;
          }
      }
    return false;
  }

  bool polyTableValid(const PolyTable * table)
  {
    for ( PolyTable::const_data_iterator itr = table->begin() ;
          itr < table->end() ; 
          ++itr )
      {
        if ( (std::find_if(itr->begin(),itr->end(),invalidPolyChar()) != itr->end())
             || ( itr->length() != table->numsites() ) )
          {
            return false;
          }
      }
    return true;
  }
}