executable not running in PHP script

[tamanna]

I have a PHP script within which I have embedded a Perl program using system command.

The Perl program is as under;

<code>

#!/usr/bin/perl
system("perl /opt/lampp/htdocs/matepred/blast/bin/scriptforblastcompleterun.pl sequence.txt uniprot_sprot.fasta > out");
system("perl /opt/lampp/htdocs/matepred/blast/bin/convert.pl");
system("perl /opt/lampp/htdocs/matepred/blast/bin/format.pl > output");
system("/opt/lampp/htdocs/matepred/blast/bin/svm-predict output pssm.scale.model pssm.predict >pssm.out");

<code>

 

The first four commands of this program run correctly, but the last one does not run. This one contains an executable named "svm-predict".

I guess this is because I need to grant special permissions to the PHP user for running executables.

 

Please suggest.

[requinix]

Are you sure svm-predict is marked as executable? Any warnings? Is pssm.out created?

[tamanna]

Yes svm-predict is an executable. pssmout is created but it is an empty file.

[requinix]

Then it looks like the shell is executing correctly. Try redirecting stdout someplace in case there are errors.

system("/opt/lampp/htdocs/matepred/blast/bin/svm-predict output pssm.scale.model pssm.predict >pssm.out 2>pssm.err");

[tamanna]

Thanks!!!  It works for me.