I am sorry but I am not sure what is going on at this point. It might not be related to DKE (see https://www.mathworks.com/matlabcentral/answers/57833-error-using-matlabpool-line-144 ) and I dont know how to further help you.  

There are two things you can do, 1. try and run DKE from the source code which will allow you more flexibility and you should be able to circumvent this matlabpool issue (https://github.com/m-ama/DKE), or 2. the lab is working on incorporating Bruker options in some of our newer processing softwares, however I have no idea how long before this will be finished. 

Sorry I could not figure this one out! 
Good luck!