% startup_template.m 
%
% this program helps establish a matlab path for directoried obtained from the USGS 
% CMGP repository at http://hosted-projects.com
%% Change the root locations of the paths as needed to fit your installation 
%% the "if statement" below should handle different OS:

if strmatch(computer,'PCWIN')    %32 bit windows machine
  cmgdir='c:/rps/m_cmg/trunk/';
  contrib_dir='c:/rps/m_contrib/trunk/';
  mexcdf_dir='c:/rps/m_contrib/trunk/mexcdf_2008b_plus/';
  
 % Mirone
   addpath([contrib_dir 'mirone120'],'-end');   
   addpath([contrib_dir 'mirone120/utils'],'-end'); 

elseif strmatch(computer,'GLNX86')   %my 32 bit Linux machine
  cmgdir='/usr/local/matlab/m_cmg/trunk/';
  contrib_dir='/usr/local/matlab/m_contrib/trunk/';
  mexcdf_dir='c:/usr/local/matlab/m_contrib/trunk/mexcdf_2008b_plus/';
else
  disp('Computer type not handled- edit startup.m');
end

% netcdf toolbox global options (turn autoscale & autonan on)
global nctbx_options
nctbx_options.theAutoNaN=1;
nctbx_options.theAutoscale=1;

% shouldn't need to change all the backslashes to forward slashes
% from here on down to work on linux:  e.g. vi syntax:  .,%s;\\;\/;g 

% netcdf stuff should come next
%  *** remember no .dll's should exist for matlab newer thank 2008a ***
addpath([mexcdf_dir 'mexnc'],'-end');
addpath([mexcdf_dir 'snctools'],'-end');
addpath([mexcdf_dir 'netcdf_toolbox/netcdf'],'-end');
addpath([mexcdf_dir 'netcdf_toolbox/netcdf/nctype'],'-end');
addpath([mexcdf_dir 'netcdf_toolbox/netcdf/ncutility'],'-end');

%now add other toolboxes as needed
% these are for use in data processing and file mainpulation
addpath([cmgdir 'abslib'],'-end');
addpath([cmgdir 'adcp_tbx'],'-end');
addpath([cmgdir 'adcp_tbx/AddOns'],'-end');
addpath([cmgdir 'adcp_tbx/AddOns/presto'],'-end');
addpath([cmgdir 'adcp_tbx/AddOns/epic'],'-end');
addpath([cmgdir 'adcp_tbx/AddOns/form'],'-end');
addpath([cmgdir 'adcp_tbx/AddOns/proxy'],'-end');
addpath([cmgdir 'adcp_tbx/extraMs'],'-end');
addpath([cmgdir 'ABSS_tbx'],'-end');
addpath([cmgdir 'cmglib'],'-end');
addpath([cmgdir 'cmgtool'],'-end');
addpath([cmgdir 'cmgtool/corefiles'],'-end');
addpath([cmgdir 'cmgtool/corefiles/OSX'],'-end');
addpath([cmgdir 'cmgtool/CMGmfiles'],'-end');
addpath([cmgdir 'cmgtool/chuckstats'],'-end');
addpath([cmgdir 'cmgtool/gapfill'],'-end');
addpath([cmgdir 'cmgtool/rich'],'-end');
addpath([cmgdir 'cmgtool/t_tide'],'-end');
addpath([cmgdir 'dolly'],'-end');
addpath([cmgdir 'dolly/batch'],'-end');
addpath([cmgdir 'hydratools'],'-end');
addpath([cmgdir 'LISST'],'-end');
addpath([cmgdir 'midas'],'-end');
addpath([cmgdir 'meta_tools'],'-end');
addpath([cmgdir 'meta_tools/organize_meta'],'-end');
addpath([cmgdir 'MMstuff'],'-end');
addpath([cmgdir 'ndbc'],'-end');
addpath([cmgdir 'RPSstuff'],'-end');
addpath([cmgdir 'seagauge_tools'],'-end');
addpath([cmgdir 'sonarlib'],'-end');
addpath([cmgdir 'wave_tbx'],'-end');
addpath([cmgdir 'timeplt'],'-end');
addpath([cmgdir 'tri'],'-end');
addpath([cmgdir 'whfc_to_ge'],'-end');
addpath([contrib_dir 'm_map'],'-end');
addpath([contrib_dir 'seawater'],'-end');

% these are for modeling - if you don't model, you probably don't need these
addpath([cmgdir 'toolsCSTM/matlab'],'-end');
addpath([cmgdir 'roms_rps'],'-end');
addpath([cmgdir 'omviz'],'-end');
addpath([cmgdir 'adcirc_tides'],'-end');
addpath([cmgdir 'timeplt'],'-end');
addpath([cmgdir 'tri'],'-end');
addpath([contrib_dir 'air_sea'],'-end');
addpath([contrib_dir 't_tide'],'-begin');
addpath([contrib_dir 'tidal_ellipse'],'-end');
addpath([contrib_dir 'misc'],'-end');
addpath([contrib_dir 'wafo/wstats'],'-end');
addpath([contrib_dir 'wafo/misc'],'-end');
addpath([contrib_dir 'wafo/wdemos'],'-end');
addpath([contrib_dir 'wafo/spec'],'-end');
addpath([contrib_dir 'Roms_tools/Preprocessing_tools'],'-end');
addpath([contrib_dir 'Roms_tools/Visualization_tools'],'-end');

% Turn on old style zooming, if you want
% zoom v6 on

% for use of the cf-tools and netcdf_java toolbox, please follow the instructions here:
%  http://njtbx.sourceforge.net/njdocs/njtbxhelp/environment_setup.html
%  the following lines may or may not be needed, but superceded by anything at 
%  sourcforge.
%% set SNCTOOLS to use Java for reading
%  setpref ( 'SNCTOOLS', 'USE_JAVA', true )
%
%% specify the NetCDF-Java cache.  This results in huge speedups for 
%% NcML aggregation after first time used.   
%% Here we set the cache every 60 minutes & keep for 30 days
%%
%  nj_setcache(netcdf_java_cache_dir,60*24*30,15); 

% clear the variables that were set in startup.m so they don't pollute the workspace
clear cmgdir contrib_dir mexcnc_dir