% File created by GUI      


% Directory to store the output from a simulation run.
% An empty matrix here will use a directory called 'output'
% under the parameters directory.
% Otherwise input the entire path to the (already present) output directory.

%plot_info.output_directory = [];

% This next setting chooses a default name for the output file.
% A dialogue after starting the program will allow the user to chooose a
% different specific file name for the output data within the above folder.
% '.mat' will be appended to the specified file name.

%output_filename = 'default_out';


% stores data for these compounds in data_cmpds(:,i)
% time data is always saved in data_time(:)

monitor_cmpds = {
          's1';
          's2';
          's3';
          's4';
          's5';
          's6';
          's7';
          's8';
          's9';
          's10';
          's11';
          's12';
          's13';
          's14';
          's15';
          's16';
          's17';
          's18';
          's19';
          's20';
          's21';
          's22';
          's23';
          's24';
          's25';
          's26';
          's27';
          's28';
          's29';
          's30';
          's31';
          's32';
          's33';
          's34';
          's35';
          's36';
          's37';
          's38';
          's39';
          's40';
          's41';
          's42';
          's43';
          };

% which compounds to plot.  each plot_cmpds{number} is in the same figure window.
% can use plot_cmpds = {'all'} if you want each monitor_cmpds to be in own
% figure window
% each compound to be plotted must also be monitored
plot_cmpds{1} = {'s1' };
plot_cmpds{2} = {'s2' };
plot_cmpds{3} = {'s3' };
plot_cmpds{4} = {'s4' };
plot_cmpds{5} = {'s5' };
plot_cmpds{6} = {'s6' };
plot_cmpds{7} = {'s7' };
plot_cmpds{8} = {'s8' };
plot_cmpds{9} = {'s9' };
plot_cmpds{10} = {'s10' };
plot_cmpds{11} = {'s11' };
plot_cmpds{12} = {'s12' };
plot_cmpds{13} = {'s13' };
plot_cmpds{14} = {'s14' };
plot_cmpds{15} = {'s15' };
plot_cmpds{16} = {'s16' };
plot_cmpds{17} = {'s17' };
plot_cmpds{18} = {'s29' };
plot_cmpds{19} = {'s31' };
plot_cmpds{20} = {'s33' };
plot_cmpds{21} = {'s37' };
plot_cmpds{22} = {'s38' };
plot_cmpds{23} = {'s39' };
plot_cmpds{24} = {'s40' };
plot_cmpds{25} = {'s42' };
plot_cmpds{26} = {'s43' };
plot_cmpds{27} = {'s41' };



eventlog_flag = 1; 
eventlog_maxelements = 1000000;

snapshot_interval = 1; 
% a zero means it won't even save snapshots


plot_interval = 4000;
% if positive, the snapshots will be shown on the screen at plot_interval intervals
%     (or as close to plot_interval as monitor_interval (which can vary) allows)
% if zero, plots will be shown at every monitor_interval
% if negative 1, no plots will be displayed on the screen during the
%    run(s), but a set of plots will still be displayed after all the runs are
%    finished.
% if negative 2, no snapshot plots will be displayed at all

output_filename = 'test-batch'; 
