Marks will be allotted but admission shall be on basis of percentile. 

Percentile is ibtained based on normalization procedures wherr your marks are scaled based on relative performance of all candidates and hemce no discrimination is allowed so students with difficult or easier paper all are on same level playing field. Details of calculations process below.

https://engineering.careers360.com/articles/jee-main-normalisation-process-how-scores-are-calculated