Hi aspirant

You need not to apply for CCMT counselling because CCMT counselling is for M.Tech/M.Arch/M.Planning/M.Desg. and not for PHD. admission.

For PHD you need to apply to official website of the college.

Almost all of the college have released notice for PHD admission on their official website ,you can visit these website and then apply .

Few instances are: https://www.iitr.ac.in/admissions/pages/Phd.html

https://research.iitm.ac.in/

https://www.iitgn.ac.in/phd.htm

Visit these websites for PHD admission.

Hope this was helpful.