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Mandatory information about my setup:

Have I read the related troubleshooter articles above before posting (which pages?)? No
Have I searched the tickets before posting? Yes
Have I read the documentation before posting (which pages?)? Yes
Joomla! version: Joomla! 3.1.1 Stable [ Ember ] 26-April-2013 14:00 GMT
PHP version: 5.3.17
MySQL version: 5.5.31-percona-sure1-log
Host: ICDSoft
Admin Tools version: 2.5.5

Description of my issue:
I tried setting up a cron job to run admintools-filescanner.php. On this host, running a php file via cli requires a #!/path/to/php.cli at the top so I wrote a simple wrapper
#!/usr/local/bin/php.cli
<?php
include_once('admintools-filescanner.php');
?>

I am able to run Akeeba Backup Professional this way.

However, when I try to run the file scanner I get an error reported:
Fatal error: Class 'JCli' not found in /home/alonshvut/www/www/cli/admintools-filescanner.php on line 248

I am able to run the file scanner via the admin interface without a problem.

How can I fix this problem?

Thanks for the quick reply. I made that change and now I am getting:
Fatal error: Class 'JError' not found in /home/alonshvut/www/www/cli/admintools-filescanner.php on line 64

On a related problem, I have another site running Joomla 2.5.11 (the rest of the server information would be the same).

When I set up the cron job for this site it runs for a while and then reports:
JError: JPath::check Use of relative paths not permitted

The last entry before that was
Last Tick : 2013-06-13 04:21:55 GMT-0400 (EDT)
Last folder : -
Memory used : 4.86 Mb
Warnings : no warnings issued (good)

I downloaded this release and it did not solve the problem. It is again reporting
Fatal error: Class 'JCli' not found in /home/alonshvut/www/www/cli/admintools-filescanner.php on line 248