added missing cleanup of some nbnxn_cuda data

While the content of the data structures the pointers in nbnxn_cuda
point to was freed up, the data structures themselves were not.

Change-Id: Icb1c5da9867ee252e2a6dadf7f164d7bb4f41a26
Set version info for 4.6.x release series

Change-Id: I31378a7ef5d9b7333aa91f076c2a792072d304f9
Fix AVX double compile error

Introduced by fa181964de6c9

Note that this change will be included in the 4.6 release, therefore
this commit will effectively be the one that the 4.6 release is made
from instead of the parent.

Change-Id: Ieeede7d15109f2c44fcd2e0ef59eff2944206eab
Re-licenced FindGROMACS.cmake (was written by me)

Change-Id: If6a94c561933cbc6db9d47d5a364f75e7fdf5e13
Merge "Set version info for 4.6.x release series" into release-4-6
Moved a few comments back into position

No code changes whatsoever - just formatted some multi-line comments
which uncrustify could not understand.

Change-Id: I85e2f58681c61be937315414dc2a708974b027f8
Updated html manual to 4.6

Change-Id: I2d66c41c56a44fddc31bba823a264795c07d078a
Fix TOUPPER usage

The last argument is the variable name, thus it shouldn't be ${..}.
Caused compile error when setting accleration to sse2, because
TOUPPER wasn't done correctly.

Change-Id: I0087a6cf3c9a160862757f561b5782c0ac253df8
Merge "added missing cleanup of some nbnxn_cuda data" into release-4-6
Merge "Updated html manual to 4.6" into release-4-6
Merge "Fix TOUPPER usage" into release-4-6
Illegal acceleration defaulted to QPX

Change-Id: I1bfd9c7bc7bac68944fd912bda84e8bd03af1fbc
Merge "Re-licenced FindGROMACS.cmake (was written by me)" into release-4-6
Merge "Illegal acceleration defaulted to QPX" into release-4-6
added back cuda.h includes to fix missing CUDA_VERSION

nvcc doesn't define its version identity macro, CUDA_VERSION, by default,
but this needs to be pulled in through cuda.h. Quite weird and
non-standard behavior, but as swithing to legacy kernels and certain
kernel optimizations are broken now, to fix these we need to include
cuda.h.

Change-Id: I4836335e97a287e18e595c160819db2e46a8d798
Merge "Moved a few comments back into position" into release-4-6
fixed copyright of adress kernel

Change-Id: I21816431b4f77210a93dedc7a265c10f074502c4
AdResS: fixes bug in the neighbour list routine

* coarse-grained interactions were not excluded in the all-atom region
* Some atomistic interactions were not excluded in the coarse-grained region

Change-Id: Ib4ac145722367cf139ad3d23b86f0de1ca9d6caf
cmake: fixed typo in template CMakeLists.txt

* prevented build after make clean, when build was used before

Change-Id: I0ba88b36752801c3d492d46c71327fb966edb508
Fixed flop counting for generic cg/adress kernels

Change-Id: I95f2a68a0de64f479820143fdba09ea09805fa93