The host's scanner runs IRRESPECTIVE of which files are loaded. Since we're both Greek, I think that giving you an analogy with army life –something the majority of Greek males had to put up with for 1 to 3 years of their youth– will make it more clear.
You are at the army recruit centre and you have a box with three chocolates in your locker: bitter, milk, mint. You have only started nibbling at the milk chocolate. The sergeant comes in, looks at your locker and says "these items are forbidden", immediately confiscating all three chocolates. You didn't have a bite of the bitter and milk chocolate, but they are confiscated anyway. Also, the inspection didn't happen because you ate some of the milk chocolate, it happened because the sergeant felt like it.
Chocolates = PHP files. Locker = your site's disk space. Sergeant = host's """virus scanner*""". Eating = take a backup. I think it's clear not.
* Virus scanner my ass. It does NOT detect viruses or even malware. It simply takes arbitrary actions against innocent files. Read this for detailed info: https://www.akeebabackup.com/home/news/1536-new-threat-hosts-delete-files-without-asking.html
Nicholas K. Dionysopoulos
Lead Developer and Director
🇬🇷Greek: native 🇬🇧English: excellent 🇫🇷French: basic • 🕐 My time zone is Europe / Athens
Please keep in mind my timezone and cultural differences when reading my replies. Thank you!