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LSDIndexChannelTree.cpp
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//=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=
//
// LSDIndexChannelTree
// Land Surface Dynamics IndexChannelTree
//
// An object within the University
// of Edinburgh Land Surface Dynamics group topographic toolbox
// for retaining information of channel trees.
//
// Data is a collection of pointers to LSDIndexChannels
//
// Developed by:
// Simon M. Mudd
// Martin D. Hurst
// David T. Milodowski
// Stuart W.D. Grieve
// Declan A. Valters
// Fiona Clubb
//
// Copyright (C) 2013 Simon M. Mudd 2013
//
// Developer can be contacted by simon.m.mudd _at_ ed.ac.uk
//
// Simon Mudd
// University of Edinburgh
// School of GeoSciences
// Drummond Street
// Edinburgh, EH8 9XP
// Scotland
// United Kingdom
//
// This program 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.
//
// This program 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 this program;
// if not, write to:
// Free Software Foundation, Inc.,
// 51 Franklin Street, Fifth Floor,
// Boston, MA 02110-1301
// USA
//
//=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=
//=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=
//
// LSDIndexChannelTree.cpp
// source code for the LSDIndexChannelTree object
// this object spawns vectors of LSDIndexChannels
// they can be indexed by the LSDCahnnel network, but can also be independant of the
// channel network, storing longest channels from sources, for example
// This object is designed to be flexible, it can be used either with the
// LSDFlowInfo or LSDJunctionNetwork object
// LSD stands for Land Surface Dynamics
//
//=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=
//
// This object is written by
// Simon M. Mudd, University of Edinburgh
// David Milodowski, University of Edinburgh
// Martin D. Hurst, British Geological Survey
//
//=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=
//
// Version 1.0 03/09/2013
//
//=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=
//-----------------------------------------------------------------
//DOCUMENTATION URL: http://www.geos.ed.ac.uk/~s0675405/LSD_Docs/
//-----------------------------------------------------------------
#include <vector>
#include <string>
#include <fstream>
#include "TNT/tnt.h"
#include "LSDStatsTools.hpp"
#include "LSDFlowInfo.hpp"
#include "LSDRaster.hpp"
#include "LSDIndexChannel.hpp"
#include "LSDChannel.hpp"
#include "LSDIndexChannelTree.hpp"
#include "LSDFlowInfo.hpp"
#include "LSDJunctionNetwork.hpp"
using namespace std;
using namespace TNT;
#ifndef LSDIndexChannelTree_CPP
#define LSDIndexChannelTree_CPP
//=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=
//
// Create function. Start from a starting junction (generated by the LSDJunctionNetwork object)
//
// SMM 01/09/2012
//
//=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=
void LSDIndexChannelTree::create(LSDFlowInfo& FlowInfo, LSDJunctionNetwork& ChannelNetwork, int starting_junction)
{
NRows = FlowInfo.get_NRows();
NCols = FlowInfo.get_NCols();
DataResolution = FlowInfo.get_DataResolution();
XMinimum = FlowInfo.get_XMinimum();
YMinimum = FlowInfo.get_YMinimum();
NoDataValue = ChannelNetwork.get_NoDataValue();
organization_switch = 0;
// get the upstream junctions
upstream_junction_list = ChannelNetwork.get_upslope_junctions(starting_junction);
// get the number of upstream junctions
int n_us_junctions = upstream_junction_list.size();
int this_junction;
outlet_junction = starting_junction;
outlet_node = ChannelNetwork.get_Node_of_Junction(starting_junction);
for(int i = 0; i< n_us_junctions; i++)
{
this_junction = upstream_junction_list[i];
IndexChannelVector.push_back( ChannelNetwork.generate_link_index_channel_from_junction(this_junction,FlowInfo) );
}
}
//=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=
//Create function. Start from a starting junction (generated by the LSDJunctionNetwork object)
// This has an organization switch that allows the user to organize based on
// either a junction network (as in LSDJunctionNetwork) or from a mainstem
//
// SMM 01/09/2012
//
//=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=
void LSDIndexChannelTree::create(LSDFlowInfo& FlowInfo, LSDJunctionNetwork& ChannelNetwork,
int starting_junction, int org_switch, LSDRaster& DistanceFromOutlet)
{
NRows = FlowInfo.get_NRows();
NCols = FlowInfo.get_NCols();
DataResolution = FlowInfo.get_DataResolution();
XMinimum = FlowInfo.get_XMinimum();
YMinimum = FlowInfo.get_YMinimum();
NoDataValue = ChannelNetwork.get_NoDataValue();
organization_switch = org_switch;
if (organization_switch == 0)
{
// get the upstream junctions
upstream_junction_list = ChannelNetwork.get_upslope_junctions(starting_junction);
// get the number of upstream junctions
int n_us_junctions = upstream_junction_list.size();
int this_junction;
outlet_junction = starting_junction;
outlet_node = ChannelNetwork.get_Node_of_Junction(starting_junction);
for(int i = 0; i< n_us_junctions; i++)
{
this_junction = upstream_junction_list[i];
IndexChannelVector.push_back( ChannelNetwork.generate_link_index_channel_from_junction(this_junction,FlowInfo) );
}
}
else if (organization_switch == 1)
{
int nodes_in_channel;
// initiate the main stem
LSDIndexChannel main_stem = ChannelNetwork.generate_longest_index_channel_in_basin(starting_junction,
FlowInfo, DistanceFromOutlet);
// truncate the final node so the tributary algorithm does not pick up a bigger channel as a 'tributary'
main_stem.truncate_final_node();
nodes_in_channel = main_stem.get_n_nodes_in_channel();
IndexChannelVector.push_back(main_stem);
receiver_channel.push_back(0);
node_on_receiver_channel.push_back(nodes_in_channel-1);
// now get the tributaries for the main stem
vector<int> tributary_junctions;
vector<int> node_of_tributaries;
ChannelNetwork.extract_tributary_junctions_to_main_stem(main_stem, FlowInfo, tributary_junctions, node_of_tributaries);
// get the number of main stem tributaries
int n_main_stem_tributaries = tributary_junctions.size();
//cout << "number main_stem trib: " << n_main_stem_tributaries << endl;
// now loop through the tributaries, getting the longest channel for each, and linking them to the main stem
for (int trib = 0; trib<n_main_stem_tributaries; trib++)
{
//cout << "trib junction: " << tributary_junctions[trib] << " node on main stem: "
// << node_of_tributaries[trib] << endl;
LSDIndexChannel main_stem_tributary= ChannelNetwork.generate_longest_index_channel_in_basin(tributary_junctions[trib],
FlowInfo, DistanceFromOutlet);
IndexChannelVector.push_back(main_stem_tributary);
// in this case the receiver is the main stem (index 0) so push back zero
receiver_channel.push_back(0);
node_on_receiver_channel.push_back(node_of_tributaries[trib]);
}
}
else
{
cout << "LINE 1xx LSDIndexChannelTree Invalid ortganization switch!" << endl;
exit(EXIT_FAILURE);
}
}
//=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=
// this is the same create function as above except it includes a pruning method that rejects
// some of the subbasins based on various criteria set by an integer called pruning switch
// pruning_switch == 0 channels are only added if they exceed a threshold drainage area
// pruning_switch == 1 channels are only added if the ratio between them and the mainstem
// exceeds a certain value (pruning_threshold)
// pruning_switch == 2 channels are only added if the ratio between them and the area of the
// mainstem _at the junction_ exceeds a certain value
//
// SMM 01/09/2012
//
//=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=
void LSDIndexChannelTree::create(LSDFlowInfo& FlowInfo, LSDJunctionNetwork& ChannelNetwork,
int starting_junction, int org_switch, LSDRaster& DistanceFromOutlet,
int pruning_switch, float pruning_threshold)
{
NRows = FlowInfo.get_NRows();
NCols = FlowInfo.get_NCols();
DataResolution = FlowInfo.get_DataResolution();
XMinimum = FlowInfo.get_XMinimum();
YMinimum = FlowInfo.get_YMinimum();
NoDataValue = ChannelNetwork.get_NoDataValue();
float pixel_area = DataResolution*DataResolution;
organization_switch = org_switch;
if (organization_switch == 0)
{
// get the upstream junctions
upstream_junction_list = ChannelNetwork.get_upslope_junctions(starting_junction);
// get the number of upstream junctions
int n_us_junctions = upstream_junction_list.size();
int this_junction;
outlet_junction = starting_junction;
outlet_node = ChannelNetwork.get_Node_of_Junction(starting_junction);
for(int i = 0; i< n_us_junctions; i++)
{
this_junction = upstream_junction_list[i];
IndexChannelVector.push_back( ChannelNetwork.generate_link_index_channel_from_junction(this_junction,FlowInfo) );
}
}
else if (organization_switch == 1)
{
int nodes_in_channel;
// initiate the main stem
LSDIndexChannel main_stem = ChannelNetwork.generate_longest_index_channel_in_basin(starting_junction,
FlowInfo, DistanceFromOutlet);
// truncate the final node so the tributary algorithm does not pick up a bigger channel as a 'tributary'
main_stem.truncate_final_node();
nodes_in_channel = main_stem.get_n_nodes_in_channel();
IndexChannelVector.push_back(main_stem);
receiver_channel.push_back(0);
node_on_receiver_channel.push_back(nodes_in_channel-1);
float main_stem_drainage_area = float(main_stem.get_contributing_pixels_at_outlet(FlowInfo))*pixel_area;
float contributing_pixel_area;
// now get the tributaries for the main stem
vector<int> tributary_junctions;
vector<int> node_of_tributaries;
ChannelNetwork.extract_tributary_junctions_to_main_stem(main_stem, FlowInfo, tributary_junctions, node_of_tributaries);
// get the number of main stem tributaries
int n_main_stem_tributaries = tributary_junctions.size();
//cout << "number main_stem trib: " << n_main_stem_tributaries << endl;
// now loop through the tributaries, getting the longest channel for each, and linking them to the main stem
for (int trib = 0; trib<n_main_stem_tributaries; trib++)
{
LSDIndexChannel main_stem_tributary= ChannelNetwork.generate_longest_index_channel_in_basin(tributary_junctions[trib],
FlowInfo, DistanceFromOutlet);
contributing_pixel_area = pixel_area*float(main_stem_tributary.get_contributing_pixels_at_penultimate_node(FlowInfo));
// enter pruning logic
if (pruning_switch == 0)
{
if (contributing_pixel_area >pruning_threshold)
{
IndexChannelVector.push_back(main_stem_tributary);
// in this case the receiver is the main stem (index 0) so push back zero
receiver_channel.push_back(0);
node_on_receiver_channel.push_back(node_of_tributaries[trib]);
}
}
else if (pruning_switch == 1)
{
//cout << "tributary number: " << trib << " ratio: " << contributing_pixel_area/main_stem_drainage_area << endl;
if (contributing_pixel_area/main_stem_drainage_area >pruning_threshold)
{
IndexChannelVector.push_back(main_stem_tributary);
// in this case the receiver is the main stem (index 0) so push back zero
receiver_channel.push_back(0);
node_on_receiver_channel.push_back(node_of_tributaries[trib]);
}
}
else if (pruning_switch == 2)
{
float main_stem_junc_area = float(main_stem.get_contributing_pixels_at_node(node_of_tributaries[trib], FlowInfo))*
pixel_area;
if ( contributing_pixel_area/main_stem_junc_area > pruning_threshold)
{
IndexChannelVector.push_back(main_stem_tributary);
// in this case the receiver is the main stem (index 0) so push back zero
receiver_channel.push_back(0);
node_on_receiver_channel.push_back(node_of_tributaries[trib]);
}
}
else
{
IndexChannelVector.push_back(main_stem_tributary);
// in this case the receiver is the main stem (index 0) so push back zero
receiver_channel.push_back(0);
node_on_receiver_channel.push_back(node_of_tributaries[trib]);
}
}
}
else
{
cout << "LINE 1xx LSDIndexChannelTree Invalid ortganization switch!" << endl;
exit(EXIT_FAILURE);
}
}
//=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-
//=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-
// this function calculates the chi value starting from the bottom node of the channel tree and working its way up
// note that junctions are the top of the channel
//
// It only works with the 0 organization switch (that is, organized on the basis of the LSDJunctionNetwork object)
//
// SMM 01/09/2012
//
//=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=
vector< vector<float> > LSDIndexChannelTree::calculate_chi_from_channel_tree(LSDFlowInfo& FlowInfo, LSDJunctionNetwork& ChannelNetwork,
float m_over_n, float A_0)
{
if(organization_switch != 0)
{
cout << "LSDIndexChannelTree you can't run LSDIndexChannelTree::calculate_chi_from_channel_tree with this channel organization" << endl;
exit(EXIT_FAILURE);
}
float root2 = 1.41421356;
float diag_length = root2*DataResolution;
float dx;
float pixel_area = DataResolution*DataResolution;
int curr_node;
//cout << "diag length:" << diag_length << " and data resolution: " << DataResolution << endl;
vector< vector<float> > chi_vectors;
int n_channels = IndexChannelVector.size();
// read through the tree
cout << "the number of channels is: " << n_channels << endl;
if (n_channels == 0)
{
cout << "LINE 70 LSDIndexChannelTree, empty channel network" << endl;
exit(EXIT_FAILURE);
}
int n_nodes_in_link;
//int current_node_index;
// the junctions are at the top of the channel segment.
// this will get the channel downslope of the starting junction
// on the first channel you need to assign a chi value of 0
n_nodes_in_link = IndexChannelVector[0].get_n_nodes_in_channel();
// the bottom node is at chi of zero
// initiate the chi vector
vector<float> empty_vec;
vector<float> chi_temp(n_nodes_in_link,0.0);
// now loop up through the channel, adding chi values
// note, the channel index are arranges with upstream element first, so you need to go through the channel
// in reverse order
//cout << "YOYOMA nodes in channel: " << n_nodes_in_link << endl;
for (int ChIndex = n_nodes_in_link-2; ChIndex>=0; ChIndex--)
{
//cout << "ChIndex is: " << ChIndex << endl;
curr_node = IndexChannelVector[0].get_node_in_channel(ChIndex);
if (FlowInfo.retrieve_flow_length_code_of_node(curr_node) == 2)
{
dx = diag_length;
}
else
{
dx = DataResolution;
}
//cout << "dx is: " << dx << endl;
chi_temp[ChIndex] = dx*(pow( (A_0/ (float(
FlowInfo.retrieve_contributing_pixels_of_node(curr_node))*pixel_area) ),
m_over_n))
+ chi_temp[ChIndex+1];
}
// add the chi_vector to the vector of vecotrs
chi_vectors.push_back(chi_temp);
int junction_of_this_link;
int receiver_junction_of_this_link;
int receiver_channel_index;
// the chi iterator
vector< vector<float> >::iterator chi_iter;
// loop through the rest of the channels, calcualting chi as you go
for (int i = 1; i<n_channels; i++)
{
n_nodes_in_link = IndexChannelVector[i].get_n_nodes_in_channel();
// reset chi_temp
chi_temp = empty_vec;
chi_temp.resize(n_nodes_in_link,-99);
//cout << endl << "link number: " << " this link has " << n_nodes_in_link << " nodes" <<endl;
// within this loop all channels are upstream of the source junction.
// the end node of a channel (its downstream node) is the start node (its upstream node)
// if its receiver channel. So you need to find the reciever vector. To do this you need to
// know the index of the channel in the IndexChannelVector that is the downstream junction
junction_of_this_link = upstream_junction_list[i];
// get index in the upslope_junctions_list of the reciever junction
// because of the fastscape ordering, this should already have a chi vector assigned
receiver_junction_of_this_link = ChannelNetwork.get_Receiver_of_Junction(junction_of_this_link);
receiver_channel_index = ChannelNetwork.map_junction_to_upslope_junction_list(upstream_junction_list, receiver_junction_of_this_link);
//cout << " the reciever_junc is " << receiver_junction_of_this_link
// << " which is indexed at " << receiver_channel_index << endl;
// now get the most uplsope chi of the reciever channel
chi_iter = chi_vectors.begin();
for (int j = 0; j<receiver_channel_index; j++)
{
chi_iter++;
}
chi_temp[n_nodes_in_link-1] = (*chi_iter)[0];
cout << "the downstream chi is " << chi_temp[n_nodes_in_link-1] << endl;
// now loop upslope through the channel. The chi values increment
// from the channel pixel immediately downslope.
for (int ChIndex = n_nodes_in_link-2; ChIndex>=0; ChIndex--)
{
curr_node = IndexChannelVector[i].get_node_in_channel(ChIndex);
if (FlowInfo.retrieve_flow_length_code_of_node(curr_node) == 2)
{
dx = diag_length;
}
else
{
dx = DataResolution;
}
chi_temp[ChIndex] = dx*(pow( (A_0/ (float(
FlowInfo.retrieve_contributing_pixels_of_node(curr_node))*pixel_area) ),
m_over_n))
+ chi_temp[ChIndex+1];
//cout << "link " << i<<", node " << curr_node << " and chi: " << chi_temp[ChIndex] << " and chi_temp+1: " << chi_temp[ChIndex+1] << endl;
}
chi_vectors.push_back(chi_temp);
}
return chi_vectors;
}
//=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=
//=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=
//=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=
// this function prints chi values. It is used on the channel tree when channels are organized by links
// (that is organization switch == 0
//
// SMM 01/09/2012
//
//=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=
void LSDIndexChannelTree::print_chi_vs_elevation_from_channel_tree(LSDRaster& Elevation, LSDFlowInfo& FlowInfo, LSDJunctionNetwork& ChannelNetwork,
float m_over_n, float A_0, string chi_vs_elev_fname)
{
if(organization_switch != 0)
{
cout << "LSDIndexChannelTree you can't run LSDIndexChannelTree::print_chi_vs_elevation_from_channel_tree with this channel organization" << endl;
exit(EXIT_FAILURE);
}
int n_channels = IndexChannelVector.size();
int n_nodes_in_link,current_node_index;
vector< vector<float> > chi_vectors = calculate_chi_from_channel_tree(FlowInfo, ChannelNetwork,
m_over_n, A_0);
// the chi iterator
vector< vector<float> >::iterator chi_iter;
chi_iter = chi_vectors.begin();
float current_chi;
float current_elev;
int curr_row,curr_col;
ofstream chi_elev_out;
chi_elev_out.open(chi_vs_elev_fname.c_str());
for (int i = 0; i<n_channels; i++)
{
n_nodes_in_link = IndexChannelVector[i].get_n_nodes_in_channel();
for (int this_node = 0; this_node<n_nodes_in_link; this_node++)
{
current_node_index = IndexChannelVector[i].get_node_in_channel(this_node);
current_chi = (*chi_iter)[this_node];
FlowInfo.retrieve_current_row_and_col(current_node_index,curr_row,curr_col);
current_elev = Elevation.get_data_element(curr_row,curr_col);
//cout << "current_node: " << current_node_index << " and chi: " << current_chi << endl;
//chi_elev_out << current_chi << " " << current_elev << endl;
}
chi_iter++;
}
chi_elev_out.close();
}
//=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=
//=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=
// this function minimizes the R^2 of the main stem channel assuming it is in steady state
// that is assuming the entire main stem is undergoing the same uplift
//
// SMM 01/09/2012
//
//=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=
float LSDIndexChannelTree::fit_m_over_n_mainstem(vector<float>& m_over_n_values, vector<float>& R_squared,
float A_0, LSDFlowInfo& FlowInfo, LSDRaster& Elevation_Raster,
float start_movn, float increment_movn, int n_movn)
{
float downslope_chi = 0.0;
// we loop through m_over_n values getting R_2 for each
vector<float> R_squared_local;
vector<float> m_over_n_values_local;
float this_movn;
float max_r2 = 0;
float max_movn = 0;
//cout << "LSDIndexChannelTree::fit_m_over_n_mainstem n_movn is: " << n_movn << endl;
for(int i = 0; i<n_movn; i++)
{
this_movn = start_movn+ float(i)*increment_movn;
m_over_n_values_local.push_back(this_movn);
LSDChannel MainStem(downslope_chi, this_movn, A_0, IndexChannelVector[0], FlowInfo, Elevation_Raster);
vector<float> chi = MainStem.get_Chi();
vector<float> elev = MainStem.get_Elevation();
vector<float> residuals;
// do least squares regression
vector<float> results = simple_linear_regression(chi, elev, residuals);
//cout << "LSDIndexChannelTree::fit_m_over_n_mainstem m_ov_n: " << this_movn << " and R2: " << results[2] << endl;
// replace max_r2 if it is the maximum r2 value
if(results[2] > max_r2)
{
max_r2 = results[2];
max_movn = this_movn;
}
R_squared_local.push_back(results[2]);
}
//cout << "The best fit m over n ratio is:" <<max_movn << endl;
return max_movn;
}
//=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=
// this function works on organiation_switch == 1, where you have a main stem channel and the longest
// tributaries to this channel.
// It takes these Index channels and then turns them into channels with full drainage area,
// chi and elevation data
//
// SMM 01/09/2012
//
//=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=
vector<LSDChannel> LSDIndexChannelTree::retrieve_LSDChannels_from_tree(float m_over_n, float A_0, LSDFlowInfo& FlowInfo,
LSDRaster& Elevation_Raster)
{
if (organization_switch != 1)
{
cout << "LSDIndexChannelTree you can't run LSDIndexChannelTree::retrieve_LSDChannels_from_tree" << endl;
cout << "with this channel organization, organization switch: " << organization_switch << endl;
exit(EXIT_FAILURE);
}
vector<LSDChannel> vector_of_channels;
int receiver_chann;
// get the main stem chi
float downslope_chi = 0.0;
LSDChannel MainStem(downslope_chi, m_over_n, A_0, IndexChannelVector[0], FlowInfo, Elevation_Raster);
vector_of_channels.push_back(MainStem);
// now loop through the tributaries
int n_tributaries = IndexChannelVector.size();
if (n_tributaries > 1)
{
for(int trib = 1; trib<n_tributaries; trib++)
{
// figure out what channel this drains to
receiver_chann = receiver_channel[trib];
// get the chi value at the tributary
downslope_chi = vector_of_channels[receiver_chann].retrieve_chi_at_channel_node(node_on_receiver_channel[trib]);
// make the new channel
LSDChannel TempTrib(downslope_chi, m_over_n, A_0, IndexChannelVector[trib], FlowInfo, Elevation_Raster);
// add it to the vector
vector_of_channels.push_back(TempTrib);
}
}
return vector_of_channels;
}
//=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=
// this function uses the segment fitting tool to look for the best fit values of m over n
//
// SMM 01/09/2012
//
//=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=
float LSDIndexChannelTree::search_for_best_fit_m_over_n(float A_0, int n_movern, float d_movern,float start_movern,
int minimum_segment_length, float sigma, int target_nodes,
LSDFlowInfo& FlowInfo, LSDRaster& Elevation_Raster, string fname)
{
float m_over_n;
int n_channels = IndexChannelVector.size();
// data structures to hold information about segments from all channels
// these are the best fit data for individual channels
vector< vector<float> > b_vecvec(n_channels);
vector< vector<float> > m_vecvec(n_channels);
vector< vector<float> > DW_vecvec(n_channels);
vector< vector<float> > r2_vecvec(n_channels);
vector< vector<float> > thinned_chi_vecvec(n_channels);
vector< vector<float> > thinned_elev_vecvec(n_channels);
vector< vector<float> > fitted_elev_vecvec(n_channels);
vector< vector<int> > node_ref_thinned_vecvec(n_channels);
vector<vector<int> > these_segment_lengths_vecvec(n_channels);
vector<float> MLE_vec(n_channels);
vector<int> n_segments_vec(n_channels);
vector<int> n_data_nodes_vec(n_channels);
vector<float> AICc_vec(n_channels, 9999);
vector<float> best_m_over_n(n_channels);
// data structures to hold information about segments from all channels
// these are the best fit data for the cumulative channels
vector< vector<float> > cum_b_vecvec(n_channels);
vector< vector<float> > cum_m_vecvec(n_channels);
vector< vector<float> > cum_DW_vecvec(n_channels);
vector< vector<float> > cum_r2_vecvec(n_channels);
vector< vector<float> > cum_thinned_chi_vecvec(n_channels);
vector< vector<float> > cum_thinned_elev_vecvec(n_channels);
vector< vector<float> > cum_fitted_elev_vecvec(n_channels);
vector< vector<int> > cum_node_ref_thinned_vecvec(n_channels);
vector<vector<int> > cum_these_segment_lengths_vecvec(n_channels);
// these data are for the cumulative AICs
vector<float> AICc_combined_vec(n_movern);
vector<float> m_over_n_vec(n_movern);
// these are from the individual channels, which are replaced each time a new channel is analyzed
vector<float> m_vec;
vector<float> b_vec;
vector<float> r2_vec;
vector<float> DW_vec;
vector<float> fitted_y;
int n_data_nodes;
int this_n_segments;
float this_MLE, this_AIC, this_AICc;
vector<int> these_segment_lengths;
vector<float> chi_thinned;
vector<float> elev_thinned;
vector<float> elev_fitted;
vector<int> node_ref_thinned;
// some data about the AICc
// loop through m_over_n values
for(int movn = 0; movn< n_movern; movn++)
{
m_over_n = float(movn)*d_movern+start_movern;
// get the vector of channels for this m_over_n
vector<LSDChannel> vector_of_channels = retrieve_LSDChannels_from_tree(m_over_n, A_0, FlowInfo,
Elevation_Raster);
vector<float> MLEs_thischan(n_channels);
vector<int> n_segs_thischan(n_channels);
vector<int> n_datanodes_thischan(n_channels);
// now loop through channels
for (int chan = 0; chan<n_channels; chan++)
{
// get the channels for this m over n ratio
vector_of_channels[chan].find_most_likeley_segments(minimum_segment_length, sigma, target_nodes,
b_vec, m_vec, r2_vec,DW_vec,chi_thinned, elev_thinned,
elev_fitted, node_ref_thinned,these_segment_lengths,
this_MLE, this_n_segments, n_data_nodes,
this_AIC, this_AICc );
// check to see if the AICc value is the smallest
// if so add the data to the best fit data elements
if (this_AICc < AICc_vec[chan])
{
b_vecvec[chan] = b_vec;
m_vecvec[chan] = m_vec;
DW_vecvec[chan] = DW_vec;
r2_vecvec[chan] = r2_vec;
thinned_chi_vecvec[chan] = chi_thinned;
thinned_elev_vecvec[chan] = elev_thinned;
fitted_elev_vecvec[chan] = elev_fitted;
node_ref_thinned_vecvec[chan] = node_ref_thinned;
these_segment_lengths_vecvec[chan] = these_segment_lengths;
MLE_vec[chan] = this_MLE;
n_segments_vec[chan] = this_n_segments;
n_data_nodes_vec[chan] = n_data_nodes;
AICc_vec[chan] = this_AICc;
best_m_over_n[chan] = m_over_n;
}
// add the data from this channel to the vectors that will be used to calcualte cumulative AICc
MLEs_thischan[chan] = this_MLE;
n_segs_thischan[chan] = this_n_segments;
n_datanodes_thischan[chan] = n_data_nodes;
}
//now calculate the cumulative AICc for this m over n
float thismn_AIC;
float thismn_AICc;
int n_total_segments = 0;
int n_total_nodes = 0;
float cumulative_MLE = 1;
for (int chan = 0; chan<n_channels; chan++)
{
//cout << "JUMBO m_ov_n node: " << movn << " chan: " << chan << " MLE: " << MLEs_thischan[chan] << endl;
n_total_segments += n_segs_thischan[chan];
n_total_nodes += n_datanodes_thischan[chan];
cumulative_MLE = MLEs_thischan[chan]*cumulative_MLE;
}
// these AIC and AICc values are cumualtive for a given m_over_n
thismn_AIC = 4*n_total_segments-2*log(cumulative_MLE); // the 4 comes from the fact that
// for each segment there are 2 parameters
thismn_AICc = thismn_AIC + 2*n_total_segments*(n_total_segments+1)/(n_total_nodes-n_total_segments-1);
AICc_combined_vec[movn] = thismn_AICc;
m_over_n_vec[movn] = m_over_n;
//cout << endl << endl <<"m_over_n: " << m_over_n << " and combined AICc: " << thismn_AICc << endl;
//cout << "this cumulative MLE: " << cumulative_MLE << " n_segs: " << n_total_segments << " and n_nodes: " << n_total_nodes << endl;
}
//cout << "and the cumulative m_over n values"<< endl;
float min_cum_AICc = 9999;
float bf_cum_movn = start_movern;
for (int mn = 0; mn< int(m_over_n_vec.size()); mn++)
{
//cout << "m over n: " << m_over_n_vec[mn] << " and AICc: " << AICc_combined_vec[mn] << endl;
// if this is the minimum, store the m over n value
if(AICc_combined_vec[mn] < min_cum_AICc)
{
min_cum_AICc = AICc_combined_vec[mn];
bf_cum_movn = m_over_n_vec[mn];
}
}
// now get the cumulative best fit channels
vector<LSDChannel> cum_bf_vector_of_channels = retrieve_LSDChannels_from_tree(bf_cum_movn, A_0, FlowInfo,
Elevation_Raster);
// now loop through channels
for (int chan = 0; chan<n_channels; chan++)
{
// get the channels for this m over n ratio
cum_bf_vector_of_channels[chan].find_most_likeley_segments(minimum_segment_length, sigma, target_nodes,
b_vec, m_vec, r2_vec,DW_vec,chi_thinned, elev_thinned,
elev_fitted, node_ref_thinned,these_segment_lengths,
this_MLE, this_n_segments, n_data_nodes,
this_AIC, this_AICc );
cum_b_vecvec[chan] = b_vec;
cum_m_vecvec[chan] = m_vec;
cum_DW_vecvec[chan] = DW_vec;
cum_r2_vecvec[chan] = r2_vec;
cum_thinned_chi_vecvec[chan] = chi_thinned;
cum_thinned_elev_vecvec[chan] = elev_thinned;
cum_fitted_elev_vecvec[chan] = elev_fitted;
cum_node_ref_thinned_vecvec[chan] = node_ref_thinned;
cum_these_segment_lengths_vecvec[chan] = these_segment_lengths;
}
// write a file
ofstream best_fit_info;
best_fit_info.open(fname.c_str());
best_fit_info << "N_channels: " << n_channels << endl;
best_fit_info << "m_over_n_for_channels ";
for (int ch = 0; ch<n_channels; ch++)
{
best_fit_info << " " << best_m_over_n[ch];
}
best_fit_info << endl << "m_over_n_values ";
for (int mn = 0; mn< int(m_over_n_vec.size()); mn++)
{
best_fit_info << " " << m_over_n_vec[mn];
}
best_fit_info << endl << "cumulative_AICc: ";
for (int mn = 0; mn< int(m_over_n_vec.size()); mn++)
{
best_fit_info << " " << AICc_combined_vec[mn];
}
best_fit_info << endl;
cout << "The_best_fit_cumulative_m_over_n_is: " << bf_cum_movn << endl;
for (int chan = 0; chan<n_channels; chan++)
{
vector<int> seglength = cum_these_segment_lengths_vecvec[chan];
vector<float> m_val = cum_m_vecvec[chan];
vector<float> b_val = cum_b_vecvec[chan];
vector<float> DW_val = cum_DW_vecvec[chan];
vector<float> r2_val = cum_r2_vecvec[chan];
int n_segs_this_channel = seglength.size();
best_fit_info << "Channel " << chan << " segment_length";
for (int i = 0; i<n_segs_this_channel; i++)
{
best_fit_info << " " << seglength[i];
}
best_fit_info << endl;
best_fit_info << "Channel " << chan << " segment_gradient";
for (int i = 0; i<n_segs_this_channel; i++)
{
best_fit_info << " " << m_val[i];
}
best_fit_info << endl;
best_fit_info << "Channel " << chan << " segment_intercept";
for (int i = 0; i<n_segs_this_channel; i++)
{
best_fit_info << " " << b_val[i];
}
best_fit_info << endl;
best_fit_info << "Channel " << chan << " segment_DW_stat";
for (int i = 0; i<n_segs_this_channel; i++)
{
best_fit_info << " " << DW_val[i];
}
best_fit_info << endl;
best_fit_info << "Channel " << chan << " segment_r2";
for (int i = 0; i<n_segs_this_channel; i++)
{
best_fit_info << " " << r2_val[i];
}
best_fit_info << endl;
}
for (int chan = 0; chan<n_channels; chan++)
{
chi_thinned = thinned_chi_vecvec[chan];
elev_thinned = thinned_elev_vecvec[chan];
elev_fitted = fitted_elev_vecvec[chan];
// print the cumulative best fit profiles
int thin_n_nodes = chi_thinned.size();
for(int i = 0; i<thin_n_nodes; i++)
{
best_fit_info << chan << " " << chi_thinned[i] << " " << elev_thinned[i] << " " << elev_fitted[i] << endl;
}
}
return bf_cum_movn;
}
//=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=---=-=-=-=-=-=-=-=-=-=-=-=-
// this function prints chi and elevation, along with flow distance and the
// number of the tributary it all goes to one file
//
// the file format is
// channel_number node_index row column flow_dist chi elevation drainage_area
//
// SMM 01/09/2012
//
//=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-
void LSDIndexChannelTree::print_LSDChannels_from_tree(float m_over_n, float A_0, LSDFlowInfo& FlowInfo,
LSDRaster& Elevation_Raster, LSDRaster& FlowDistance, string fname)
{
if (organization_switch != 1)
{
cout << "LSDIndexChannelTree you can't run LSDIndexChannelTree::retrieve_LSDChannels_from_tree" << endl;
cout << "with this channel organization, organization switch: " << organization_switch << endl;
exit(EXIT_FAILURE);
}
// open the outfile
ofstream channelfile_out;
channelfile_out.open(fname.c_str());
// get the vector of channels
vector<LSDChannel> vector_of_channels = retrieve_LSDChannels_from_tree(m_over_n, A_0, FlowInfo,Elevation_Raster);
int n_channels = vector_of_channels.size();
int n_nodes_in_channel;
int node,row,col;
float elev,chi,drain_area,flow_dist;
//loop through the channels
for (int i = 0; i< n_channels; i++)
{
// get the number of nodes in the channel
n_nodes_in_channel =IndexChannelVector[i].get_n_nodes_in_channel();
// now loop through the channel, printing out the data.
for(int ch_node= 0; ch_node<n_nodes_in_channel; ch_node++)
{
IndexChannelVector[i].get_node_row_col_in_channel(ch_node, node, row, col);
vector_of_channels[i].retrieve_node_information(ch_node, elev, chi, drain_area);
flow_dist = FlowDistance.get_data_element(row,col);
// print data to file
channelfile_out << i << " " << node << " " << row << " " << col << " " << flow_dist << " "
<< chi << " " << elev << " " << drain_area << endl;
}
}
channelfile_out.close();
}
//=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=---=-=-=-=-=-=-=-=-=-=-=-=-
// this function prints chi and elevation, along with flow distance and the
// number of the tributary, it all goes to one file
//
// the file format is
// channel_number node_index node_on_reciever row column flow_dist elevation drainage_area
//
// SMM 01/02/2013
//
//=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-
void LSDIndexChannelTree::print_LSDChannels_for_chi_network_ingestion(LSDFlowInfo& FlowInfo,
LSDRaster& Elevation_Raster, LSDRaster& FlowDistance, string fname)
{
if (organization_switch != 1)
{
cout << "LSDIndexChannelTree you can't run LSDIndexChannelTree::retrieve_LSDChannels_from_tree" << endl;
cout << "with this channel organization, organization switch: " << organization_switch << endl;