That problem was originally reported at:
https://bugs.debian.org/762378
Basically, there seems to be a problem in classes/database/Postgres.php, in function exec script.
If the ';' is alone on a line, the test
if (strspn($subline, " \t\n\r") != strlen($subline))
is false and the whole querry is ignored.
Please refer to the original bug report for examples.
This is more easy to observe the problem if you upload a sql file via sql.php
A fix is available at https://github.com/phppgadmin/phppgadmin/pull/27/