When you first start, the initial factory is setup with two (input) bulk transfer pipes for each of water and gas, when they both should be set with (output) bulk transfer pipes.
From the Factorissimo2 faq:
Q: How exactly do I use the bulk transfer pipes that come with Factorissimo2?
A: The correct way to use them is to use one of each type at every connection. Use the input pipe (purple X) on the side the fluid comes from, and use the output pipe (yellow O) on the side the fluid goes to. Then set your fluid connection to transfer mode (in the correct direction) and set the transfer speed to the slowest speed you need. Here's a picture too. In almost every situation, the slowest transfer setting, 120 ticks per transfer, will be enough: it will still give you a throughput of 1250 units of fluid per second, which is more than enough for almost any application (an offshore pump produces only 1200 water per second, and (as of 0.16) vanilla pipes can't even transfer fluids much faster than that).
: https://mods.factorio.com/mod/Factorissimo2/faq
Cheers.
