As this post may still be of use to certain people I'll leave comments open.

cnt is technically just a text file; as this is linux it doesn't really matter and not specifying a filetype is better practice as it means the file doesn't have a default mime.

SSH in to the site, CD magento (change directory to magento)
and try just typing php --help and see if you get the help file.
On some its php-cli on others its php-cgi; 90% of the time its just php.

The options are as follows: http://www.php-cli.com/php-cli-options.shtml

time = time this process
php = program
-q =
-f = Parse .
-q is quiet mode

my magento installation is not in the root of the hosting folder... so my php file is in /magento/layerednavfix.php

what should i type for it to run in SSH, i tried time php -q -f layerednavfix.php and time php -q -f magento/layerednavfix.php and neither worked... both say no input file specified... what am i doing wrong...

“time php -q -f cm_LCache.php”

@will: yep the coreflag is just a check count hasn't started before clearing; you could easily change...

< ?php
if($count == 0)
{
    Mage::app()->cleanCache();
    //Clear the database flag from any previous "normal" indexes that failed
    $flag = Mage::getModel('catalogindex/catalog_index_flag')->loadSelf();
    if ($flag->getState() == Mage_CatalogIndex_Model_Catalog_Index_Flag::STATE_RUNNING) {
        $flag->delete();
    }
}
 ?>

to

< ?php
//IF Count Zero or Querystring passed (thisfilename.php?clear=1)
if(($count == 0)||( $_GET['clear'] == "1"))
{
    Mage::app()->cleanCache();
    //Clear the database flag from any previous "normal" indexes that failed
    $flag = Mage::getModel('catalogindex/catalog_index_flag')->loadSelf();
    if ($flag->getState() == Mage_CatalogIndex_Model_Catalog_Index_Flag::STATE_RUNNING) {
        $flag->delete();
    }
}
?>

The codes due to be updated I'm just on a go slow. This could also be passed as an Argument rather than a querystring for people using SSH. Have a look at the previous code (Part one) for details.

@Mark: Use the contents of the downloadable file in this article; upload; download a client such as PUTTY and login to your server with your user pass host address. You should then be able to use commands like "time php -q -f cm_LCache.php" If your on shared hosting this may not be available.
A lot of people have managed to run this fine from the browser (in fact it was kind of made for it.)
New version out VERY soon now as I'm pretty much done. I just need to test it.

Ta

Chris

and sorry, but i'm i've a bit of a newbie in this area... how do i run something in SSH?

At first it didn't work because even though I have 393 products, my Product IDs don't go from 1 to 393. I guess this is because I deleted a bunch of stuff. Anyway they start at ID 82. To get your script to work I had to change the number in cnt from 0 to 81. And the cm_cache total to 477.

Future players also note that if you do it this way you may want to manually delete any core_flag fields in your database, cos I think Chris's script only does that if the cnt file is 0 (Chris, can you confirm/deny this?).

Thanks again!
Will.

If you want to start from scratch just delete or empty the cnt file.

Ideally you should run this script over SSH in BASH/Shell (etc); running from browser, mileage may vary.

anyway, what should i be seeing? how should i know when its finished? am i supposed to have to keep refreshing?

#4373#CURRENT MEMRY USAGE = 4217200;

I only have 2400 products so i don't understand why it passed this number, and my layered index still have all zeros...

Am i supposed to sit here and keep refreshing the browser? I don't understand what to do, please help...