no PUPILTime in java.library.path

Exception in thread "main" java.lang.UnsatisfiedLinkError: no PUPILTime in java.library.path

If you see the above error information you should check your LD_LIBRARY_PATH:

export LD_LIBRARY_PATH=${LD_LIBRARY_PATH}\:${PUPIL_PATH}/lib

Make Sander.PUPIL

if you see this error message

make: *** No rule to make target `mdread.PUPIL.o', needed by `sander.PUPIL'. Stop.

then do

make depend

and then

make SANDER.PUPIL