Liver disease question

Timothy is only 18 years old, but he appears to have liver disease.  A liver biopsy is performed and reveals microscopic abnormalities as well as an abnormal chemical test.  He is found to have large amounts of glycogen granules in his liver cells, with many being intact within lysosomes, and his liver cells show an unusually extensive smooth endoplasmic reticulum.  Timothy admits that he has a history of drug abuse, but claims that he is now in recovery.  Explain why Timothy is experiencing this liver disease as such a young age.  Be sure to explain how your diagnosis is leading to the abnormalities seen in the results of the administered tests. 

I know why their is smooth endoplasmic reticulum in his liver, but I can't seem to find why their is lysosome intact with glycogen granules in the liver.

Isn't the function of lysosome is to break down waste products.  I don't see why it attached itself with the glycogen granules.  Are they breaking down the glycogen?