It sounds like the rpt file you are trying to read has page breaks in it. To parse the results with epanetReader you need to an rpt file without page breaks. Such a file is created by adding the line "Page 0" in the [REPORT] section of the inp file.
The Net1.inp file that ships with the package has an example.You can also see it on line 129 of the file here
After updating the .inp file the rpt file can be generated from the command line or windows gui.
Hope this helps,