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// Copyright (C) 1999-2003 Paul O. Lewis
//
// This file is part of NCL (Nexus Class Library) version 2.0.
//
// NCL 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 2 of the License, or
// (at your option) any later version.
//
// NCL 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
// along with NCL; if not, write to the Free Software Foundation, Inc.,
// 59 Temple Place, Suite 330, Boston, MA 02111-1307 USA
//
#ifndef NCL_NXSTAXABLOCK_H
#define NCL_NXSTAXABLOCK_H
/*----------------------------------------------------------------------------------------------------------------------
| This class handles reading and storage for the NxsReader block TAXA. It overrides the member functions Read and
| Reset, which are abstract virtual functions in the base class NxsBlock. The taxon names are stored in an vector of
| strings (taxonLabels) that is accessible through the member functions GetTaxonLabel(int), AddTaxonLabel(NxsString),
| ChangeTaxonLabel(int, NxsString), and GetNumTaxonLabels().
*/
class NxsTaxaBlock
: public NxsBlock
{
friend class NxsDataBlock;
friend class NxsAllelesBlock;
friend class NxsCharactersBlock;
friend class NxsDistancesBlock;
public:
NxsTaxaBlock();
virtual ~NxsTaxaBlock();
virtual unsigned AddTaxonLabel(NxsString s);
void ChangeTaxonLabel(unsigned i, NxsString s);
unsigned FindTaxon(NxsString label);
bool IsAlreadyDefined(NxsString label);
unsigned GetMaxTaxonLabelLength();
unsigned GetNumTaxonLabels();
NxsString GetTaxonLabel(unsigned i);
bool NeedsQuotes(unsigned i);
virtual void Report(ostream &out);
virtual void Reset();
class NxsX_NoSuchTaxon {}; /* thrown if FindTaxon cannot locate a supplied taxon label in the taxonLabels vector */
protected:
unsigned ntax; /* number of taxa */
NxsStringVector taxonLabels; /* storage for list of taxon labels */
NxsBoolVector needsQuotes; /* needsQuotes[i] true if label i needs to be quoted when output */
virtual void Read(NxsToken &token);
private:
void SetNtax(unsigned n);
};
// The following typedef maintains compatibility with existing code.
// The TaxaBlock class name is deprecated; please use NxsTaxaBlock instead.
//
typedef NxsTaxaBlock TaxaBlock;
#endif
|
