bpp-seq-omics  2.4.1
RemoveEmptySequencesMafIterator.h
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1 //
2 // File: RemoveEmptySequencesMafIterator.h
3 // Authors: Julien Dutheil
4 // Created: Tue Apr 26 2016
5 //
6 
7 /*
8 Copyright or © or Copr. Bio++ Development Team, (2014)
9 
10 This software is a computer program whose purpose is to provide classes
11 for sequences analysis.
12 
13 This software is governed by the CeCILL license under French law and
14 abiding by the rules of distribution of free software. You can use,
15 modify and/ or redistribute the software under the terms of the CeCILL
16 license as circulated by CEA, CNRS and INRIA at the following URL
17 "http://www.cecill.info".
18 
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22 economic rights, and the successive licensors have only limited
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25 In this respect, the user's attention is drawn to the risks associated
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38 */
39 
40 #ifndef _REMOVEEMPTYSEQUENCESMAFITERATOR_H_
41 #define _REMOVEEMPTYSEQUENCESMAFITERATOR_H_
42 
43 #include "MafIterator.h"
44 
45 //From the STL:
46 #include <iostream>
47 #include <string>
48 
49 namespace bpp {
50 
56 {
57  private:
59 
60  public:
67  RemoveEmptySequencesMafIterator(MafIterator* iterator, bool unresolvedAsGaps = false):
68  AbstractFilterMafIterator(iterator), unresolvedAsGaps_(unresolvedAsGaps)
69  {}
70 
71  private:
75  {}
76 
78  {
80  return *this;
81  }
82 
83  private:
85 
86 };
87 
88 } // end of namespace bpp.
89 
90 #endif //_REMOVEEMPTYSEQUENCESMAFITERATOR_H_
Helper class for developping filter for maf blocks.
Definition: MafIterator.h:151
A synteny block data structure, the basic unit of a MAF alignement file.
Definition: MafBlock.h:57
Interface to loop over maf alignment blocks.
Definition: MafIterator.h:59
Remove ga-only or unresolved and gap-only sequences in each block.
RemoveEmptySequencesMafIterator(MafIterator *iterator, bool unresolvedAsGaps=false)
Creates a new RemoveEmptySequencesMafIterator object.
RemoveEmptySequencesMafIterator & operator=(const RemoveEmptySequencesMafIterator &iterator)
RemoveEmptySequencesMafIterator(const RemoveEmptySequencesMafIterator &iterator)