Working on new constraint algorithm

CMakeLists.txt

@@ -51,7 +51,7 @@ SUBDIRS (tests examples)
 
 # The source is organized into subdirectories, but we handle them all from
 # this CMakeLists file rather than letting CMake visit them as SUBDIRS.
-SET(OPENMM_SOURCE_SUBDIRS . openmmapi olla jama platforms/reference)
+SET(OPENMM_SOURCE_SUBDIRS . openmmapi olla libraries/jama libraries/quern platforms/reference)
 
 # The build system will set ARCH64 for 64 bit builds, which require
 # use of the lib64/ library directories rather than lib/.