Draft: Rename from_file
We can currently run realtime reconstruction, reconstruction from file (only brunel output, from_file=True), reconstruction from file for sprucing(from_file=True, spruce=True). In this MR, replace from_file with from_brunel and spruce with from_moore (sprucing always runs on moore output). Change default to be realtime reconstruction, so reconstruction from file (either moore or brunel output) needs to be explicitly specified.
In principle, this is just a name change and makes it more explicit what is being used. Using reconstruction from moore file for HLT2 will be possible with !1529 (merged).
Edited by Sevda Esen