YapRI, is "Yet another perl R interface" developed initially to work with 
different blocks of commands. 

  It run the commands esentially as: 
  R [options] --file=inputcommandfile > outputresultfile

 So the YapRI::Base module, create files, put them in a temp dir by default, 
open these files, write the R commands to them, execute the files and 
store all of them as variables in this object.

  Here a synopsis of how works:

  use YapRI::Base;

  ## WORKING WITH THE DEFAULT MODE:

  my $rih = YapRI::Base->new();
  $rih->add_command('bmp(filename="myfile.bmp", width=600, height=800)');
  $rih->add_command('dev.list()');
  $rih->add_command('plot(c(1, 5, 10), type = "l")');
  $rih->add_command('dev.off()');
 
  $rih->run_command();
  
  my $result_file = $rih->get_resultfiles('default');



  ## WORKING WITH COMMAND BLOCKS:

  my $rih = YapRI::Base->new();

  ## Create a file-block_1

  $rih->add_cmdfile('BLOCK1');
  $rih->add_command('x <- c(10, 9, 8, 5)', 'BLOCK1');
  $rih->add_command('z <- c(12, 8, 8, 4)', 'BLOCK1');
  $rih->add_command('x + z', 'BLOCK1')
  
  ## Create a file-block_2

  $rih->add_cmdfile('BLOCK2');   
  $rih->add_command('bmp(filename="myfile.bmp", width=600, height=800)', 
                    'BLOCK2');
  $rih->add_command('dev.list()', 'BLOCK2');
  $rih->add_command('plot(c(1, 5, 10), type = "l")', 'BLOCK2');
  
  ## Run each block

  $rih->run_command({ alias => 'BLOCK1' });
  $rih->run_command({ alias => 'BLOCK2' });

  ## Get the results

  my $resultfile1 = $rih->get_resultfiles('BLOCK1');
  my $resultfile2 = $rih->get_resultfiles('BLOCK2'); 


 Example of a module that uses YapRI::Base, and YapRI::Data::Matrix to
 calculate the transpose of the matrix

 my $matrix = YapRI::Data::Matrix( { 
              name => 'matrix1', 
              rown => 3,
	      coln => 4, 
`	      rownames => ['A', 'B', 'C'],
              colnames => ['alpha', 'beta', 'gamma', 'delta'],
	      data => [1, 2, 3, 4, 5, 6, 7, 8, 9, 10, 11, 12],
              });

 my $rih2 = YapRI::Base->new();
 $matrix->send_rbase($rih2);
 
 $rih2->create_block('TRMATRIX', $matrix->get_name());
 $rih2->add_command('trmatrix1 <- t('.$matrix->get_name().')', 'TRMATRIX');
 $rih2->run_block('TRMATRIX');    
 my $trmatrix = YapRI::Data::Matrix->read_rbase($rih2, 'TRMATRIX', 'trmatrix1');