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Contents.m
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% cBathy - routines to estimate k-alpha and bathy from pixel data
% - mostly renamed from old beachWizard
%
% Batch Routines
% cBathyBatch - executes cBathy for a range of days
% analyzeSingleBathyRun - batch analysis for a single stackName
% SETTINGS - contains the params setting for each site
%
% Stack Routines:
% loadBathyStack - load all cameras for a bathy stack
%
% Analysis Routines:
% analyzeBathyCollect - single run cBathy analysis (parallel)
% prepBathyInput - prepare inputs for analysis
% subBathyProcess - wrapper to extract and process an analysis point
% csmInvertKAlpha - main cBathy inversion routine for k-alpha
% bathyFromKAlpha - nonlinear solver for bathy from k-alpha
% predictCSM - xspectral matrix forward model for solver
% findKAlphaPhiInit - seed for nonlinear solver
% kInvertDepthModel - used for bathy solver
%
% Kalman Filtering:
% makeKalmanBathySeed - initialize the first run for K-filtering
% runningFilterBathy - wrapper to Kalman filter a sequence of runs
% KalmanFilterBathy - core Kalman filter routine
% findProcessError - compute sensible process error
%
% Debugging and viewing
% plotStacksAndPhaseMaps - debugMode displays for whole collect
% listfDependentResultsForOnePoint - debugMode listing of fDependents
% examineSingleBathyResult- display all variables for any bathy
% plotBathyCollectSDS - images of a single bathy and errors
% plotBathyCollectKalman - images of a Kalman-ed bathy and error
% showHourlyBathyResults - loop through a bathy sequence
% showHourlyKalmanResults - loop through smooth sequence
% plotBathyKalmanStep - steps through runs showing all debug info
% findInterpMap - calculate the map for interpolating
% from irregular spaced stack data to
% regular spaced image coords, using knnsearch
% and returning N neighbors and weights
% useInterpMap - use the interp map from findInterpMap
% showcBathyTimeSeriesMovie - display a sequence of cBathy "frames"
% showWaveVarianceMap - show wave information visually
%
%
% Copyright (C) 2017 Coastal Imaging Research Network
% and Oregon State University
% 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, version 3 of the
% License.
% 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, see
% <http://www.gnu.org/licenses/>.
% CIRN: https://coastal-imaging-research-network.github.io/
% CIL: http://cil-www.coas.oregonstate.edu
%
%key cBathy
%