Problems with R/C 6ch transmission

Yes,I´ve read it yesterday and i thing i understand, but what i don´t understand well is if i read something
in the interrupt but just when all is finish is not the same that read when we go back to the loop.
I am thinking in this particular case, when we hava the variable that is needed update and we go back to the loop for make a copy.
is not the same read this variable that we will copy in the loop??? well is not the same and i see the real case no when i did this i have unexpected values and when i read in the loop i have expected values.... but for me it´s a little extrange.