Easier in which way? What configure.ac are you talking about?
Anjuta (an IDE) uses autotools and makefiles to build projects. In order to build a project it has to know what it depends on. Libraries that use pkg-config are easy to add through project properties. Anything that doesn't use pkg-config needs to be added manually by editing the configure.ac file, which is a part of autoconf.
Anyways, I've resolved the problem by using a different IDE, since I'm too lazy to learn how to edit configure.ac files. But it would still be nice to have.