Install script disk configuration Did not use other partition for data folder

I installed NC using the script. When it came to the point of choosing which disk I chose 2 disk manual. After that the script told me to unmount external disks to prevent errors during install. But the script never instructed to remount the disk. This the install finished and the data folder was on the smaller disk where the application was installed.

Should I just leave the partition mounted the whole time?
If I only have two partitions should I just choose automatic and trust the script?

Thanks to whoever answers.