Sequence::newick_stream_marginal_tree Class Reference
[Classes and functions related to simulating data under coalescent models]

Class that provides a typecast-on-output of a marginal tree to a newick tree Example use: More...

#include <Sequence/Coalescent/SimTypes.hpp>

List of all members.

Public Member Functions
	newick_stream_marginal_tree (const marginal &m)
	newick_stream_marginal_tree (const marginal *m)
	newick_stream_marginal_tree (arg::const_iterator m)
	newick_stream_marginal_tree (arg::iterator m)
std::vector< node >	get_tree () const
std::ostream &	print (std::ostream &o) const
std::istream &	read (std::istream &i)

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Detailed Description

Class that provides a typecast-on-output of a marginal tree to a newick tree Example use:

  //assume we've done something useful to get
  //data into an arg called sample_history
  //tlength is the total length of the region being simulated
  int seg = 0,nsegs=sample_history.size();
  arg::iterator i = sample_history.begin(),j=i;
  ++j;
  for( seg=0 ; seg < nsegs ; ++seg,++i,++j)
  {
  int length = ( (seg<nsegs-1) ? (j->beg-i->beg) : (tlength-i->beg) );
  cout << '[' 
  << length
  << ']'
  << newick_stream_marginal_tree(i)
  << '\n';
  }

Definition at line 219 of file SimTypes.hpp.

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Member Function Documentation

std::vector< node > Sequence::newick_stream_marginal_tree::get_tree

(

)

const

if a tree has been read in from a stream, return it, else return an empty tree

Definition at line 433 of file CoalescentSimTypes.cc.

std::ostream & Sequence::newick_stream_marginal_tree::print

(

std::ostream &

o

)

const

Write the marginal tree in Newick format to stream o

Definition at line 442 of file CoalescentSimTypes.cc.

std::istream & Sequence::newick_stream_marginal_tree::read

(

std::istream &

i

)

Read a Newick tree from stream i

Warning:

Not implemented!

Definition at line 451 of file CoalescentSimTypes.cc.

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The documentation for this class was generated from the following files:

• SimTypes.hpp
• CoalescentSimTypes.cc