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When changing operating system — Will my email accounts be affected (going down or something)?



I am working with my client to setup a new website.
After logging into GoDaddy account admin area, for my surprise, I found out the current plan is on a WINDOWS system.


I need to change it to LINUX (to be able to install a WordPress website), however it is absolutely essential that, during the migration, the email accounts keep working with no down-time at all.


Does anyone know something solid about this?
If I change the operating system, email will go offline until the migration/switch completes?


EDIT: Also, in case of email data stored on server (I am not sure if my client uses POP ou IMAP), all data will be kept as is? Or we will have data loss?


Need to know this for sure before proceed!

Thanks so much for your help!