I recently generated a new .top file and I accidentally missed the first line in the water position restraint section while pasting. Therefore I had water posre without wanting it.

First of all, I would like to point out that the gromacs error-checking is excellent since it was aware of this error and output a notice to stderr:

checking input for internal consistency...
my.top:9:2: #endif without #if

However, there is lots of output to stderr and this message could be improved if the existence of a warning was transmitted to the bottom of the output (as is done for many other warnings) e.g. notice of the warning as it occurs but additionally at the bottom of the output: "There was 1 warning"

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