Hi @heksaani,
Welcome to the community forum 
Could you please share a minimum reproducible example? With this snippet alone, it isn’t easy to debug what’s going on.
The publishDir directive moves specified process output files to a specific location. Still, as you don’t have an output block in your process, no output from this process should be moved to the specified location. I believe these files are NOT being moved there. Outputs from other processes are, and you think they’re the output of this process you shared.