Is generating the report a major action from this tool, or a minor sub-feature?
If it's a major action that's a primary purpose, then I'd strongly suggest putting the tools to do so in a very obvious place. If they're not needed once entered, then they can go away at that point, or have their visual impact reduced in some way... but if a user HAS to enter these things to get a meaningful report then they should be right there at the start.
So, my immediate thought would be to show the configurable features in a visually distinct panel which the user can hide away (and unhide again) easily.
Taking that idea a little further, in the mobile version, I'd start with the fields visible, let the user fill them in and place the response beneath them. At that point, and only if it's needed, slide the fields off the top of the screen, but do so visibly and leave a visible "tab" at the top of their screen at the end of the transition as a means to get the parameters back, regardless of their current scroll position.
After that, scrolling up and down will be scrolling through results... but touching the tab will always (regardless of scroll position) get the parameters back so that they can be modified. Scrolling all the way back up should also bring the parameters back into view, but being able to change them from any point in the page means they don't HAVE to scroll back up.
If they're jumping straight into a pre-defined set of parameters, you could start them with a view at the top of the results list... but still with the "tab" at the top so that those parameters can be investigated and altered.
The important bit here is the transition from the form with the parameters to the remaining, always visible tab at the top. The user needs to be left with a visible connection between the two as they scroll down, so it needs to be something that catches their eye as that first scroll happens.