Waters flowed over mine head - A figurative expression for great mental trouble.
Matthew Henry
Concise Bible Commentary
The more the prophet looked on the desolations, the more he was grieved. Here is one word of comfort. While they continued weeping, they continued waiting; and neither did nor would expect relief and succour from any but the Lord.
SDA Bible Commentary (limited)
Volume 1-7
54. Waters. A figure typifying great distress (see on Ps. 42:7).