Side knee injury due to accident.

I suffered with an accident on April 2016 . I lost my balance on a two wheeler and fell down . I injured my knee due to impact . The pain didn't vanish for a long time . I got a MRI scan done on my knee . The doctor whom I consulted went through my report and said that there is no muscle tear . But I am suffering from some sort of chondromalacia petella grade 3 . He advised me to go with op vitamin d test and found that I am suffering from vitamin d deficiency and prescribed me d3 60k tablets weekly . But this doesn't seem to be solution as the pain hasn't gone eve non after 2 years . I still have the feeling that something under my knees are badly hurt and needs repair . Some times the knee pain enhances swelling of my foot which becomes heavy and irritating . I was a regulator jogger I want to put off my weight . I am not able to do physical exercises . I am psychologically down. Kindly help me to get rid of this pain so that I can jog again and do physical activities .