CODEWITHSUNDEEP
phpmacosshellbabeljs
TJF
TJF

Reputation: 1101

running shell script from php

I have a shell script which works perfectly if I run it in the terminal (MAC OSX)

#!/bin/bash
cd /Applications/XAMPP/xamppfiles/htdocs/chemedit/

babel -imol  'a.mol' -oinchi 'outputfile.inchi'
babel -imol  'a.mol' -osmi 'a.smsi'
babel a.smi -O out.svg  -xC -xe
exit

I have this in a file called a.sh

I want to run this from PHP using:

$output = shell_exec("bash a.sh 2>&1");

This does not work and returns:

  Cannot write to outputfile.inchi
0 molecules converted
1 errors

for all files

Upvotes: 1

Views: 1307

Answers (2)

Umbrella
Umbrella

Reputation: 4788

The babel command is likely not in the PATH environment variable for the user running PHP, and thus the script via PHP. The simplest solution is to edit your shell script to refer to babel by its full path.

Upvotes: 2

bkconrad
bkconrad

Reputation: 2650

Try calling babel with its absolute name. Use which babel to determine this, and replace 'babel' with it in your script.

Upvotes: 1

Related Questions