No. Professional course compliments pure science in the fact that in order to pursue professional course in a scientific field, advancements in that field are required. Pure science is at the root of all science, and if professional course is encouraged, pure science to produce advancements in the respective field is also being encouraged.
Professional courses typically teach their students how to use science for practical reasons, such as mechanical engineering or some other use. This is not a neglect of pure science, because both are very different topics. A student who has interests in research will not mind the pure science course, however a student who does not care for research will receive more benefit from the applied science course.