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PHP execution is taking over 350 ms on a single core Opteron 6300 VPS server, why is it taking this long? I'm trying to speed up the site, and this is the main bottleneck.

It's not MySQL. That only takes ~25ms according to the debug function.

Should it take this long? Any tips to improve this time?
Q2A version: Q2A 1.7, Apache 2.4, latest PHP version

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Try to install a another new copy of Q2A on your server. If this site is to exhibit sufficient performance, will have no problem in your hardware. 

  • Theme: Classic
  • Plugin: (Nothing)

Next, investigate bottlenecks of addons (theme and plugins) with operation below.

  1. Change your theme >> Check performance
  2. Add plugins one by one  >> Check performance
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