In the documentation, in the .sh files to run ctakes; # If you plan to use the UMLS Resources, set/export env variables # export ctakes.umlsuser=[username], ctakes.umlspw=[password]
however, simply trying to export ctakes.umlsuser=myusername, ctakes.umlspw=mypassword doesnt work because bash3 doesnt allow dots in the keyname and will throw an error bin/runctakesCVD.sh: line 42: export: `ctakes.umlsuser=username,': not a valid identifier http://stackoverflow.com/questions/15016403/how-to-export-dot-separated-environment-variablesexplains some solutions it may be helpful to show how the user can set these easily if they want to set the env variables this way, possibly using one of the suggestions in SO. N
