Hi,
I am trying to call a C function, that I wrote to parse a flat file, into
R. The argument that will go into this function is an input file that I need
to parse and write the desired output in an output file. I used some hit
and trial approach but i keep on getting the "file not found" or
"segmentation fault" error. I know that the error is in passing the argument
but I could not solve it.
After reading some of the tutorials, I understood how to do this if the
arguments are integers or floats. I am stuck when i am trying to send the
files. I am attaching stub of each file.
Help appreciated.
Thanks
---------------------------------------
My function call would be:
source("parse.R")
parseGBest('./gbest/inFile.seq', './gbest/outFile.out');
---------------------------------------
I wrote a wrapper function (parse.R) as follows:
dyn.load("parse.so");
parseGBest = function(inFile, outFile)
{
.C( "parse" , inFile , outFile);
}
How to write receive the filenames in function( , ) above. and how to call
.C
----------------------------------------
parse.c file is as below: How to receive the argument in funcion and how to
make it compatible with my argv[ ].
void parse( int argc, char *argv[] ) //This is working as standalone C
program. How to receive
// the above files so that
it become compatible with my argv[ ]
{
FILE *fr, *of;
char line[81];
if ( *argc == 3 )*/
{
if ( ( fr = fopen( argv[0], "r" )) == NULL )
{
puts( "Can't open input file.\n" );
exit( 0 );
}
if ( ( of = fopen( argv[1], "w" )) == NULL )
{
puts( "Output file not given.\n" );
}
}
else
{printf("wrong usage: Try Agay!!! correct usage is:= functionName
inputfileToParse outFileToWriteInto\n");
}
while(fgets(line, 81, fr) != NULL)
--
---
--
}
Thanks again
Fahim
--
Fahim Mohammad
Bioinforformatics Lab
University of Louisville
Louisville, KY, USA
Ph: +1-502-409-1167
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