GPA calculation for MS Thesis credits

Our school gives credit for the thesis. They give the credits each semester (usually about 5 credits) for working on the thesis, and they assign a "J" in transcript for "graduate thesis" course if successfully passed (the thesis advisor decides whether it has been successfully passed). After the final master's thesis is presented in graduation, the professor assigns a grade for the thesis, and all of grade for the previous "J" in transcript becomes "J /A" (assuming the person got an A). The thesis letter grade is calculated in the final GPA up to 15 credits (but the letter grade "J/A" will be displayed in each semester). For example, if a person has 20 credits of J/A altogether, only the 15 credit from it will be calculate as A when it comes to the total GPA calculation.

Now, I am worried that the AADAS will not know what the heck "J/A" means.
Should I explain them before sending them my transcript? If so, how should I? Emailing them? calling them? I don't want them to miscalculate my transcript and get it delayed when I argue about it later.
What should I do?