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2019-08-15	Berk Hess	Template bonded interactions on kernel flavor	commit \| commitdiff \| tree
2019-08-09	Berk Hess	Move bonded function table into bonded.cpp	commit \| commitdiff \| tree
2019-08-09	Berk Hess	SIMD acceleration for F_FOURDIHS and F_PIDIHS	commit \| commitdiff \| tree
2019-08-06	Berk Hess	Add ForceWithShiftForces class	commit \| commitdiff \| tree
2019-08-06	Berk Hess	Fix latex formula in reference manual	commit \| commitdiff \| tree
2019-08-05	Berk Hess	Make box const in do_force()	commit \| commitdiff \| tree
2019-08-05	Berk Hess	Change ForceOutputs to a class	commit \| commitdiff \| tree
2019-08-03	Berk Hess	Remove semicolon from GPU TERM macros	commit \| commitdiff \| tree
2019-08-01	Berk Hess	Remove a pointer in t_forcerec	commit \| commitdiff \| tree
2019-08-01	Berk Hess	Fix nbnxm GPU memory reservation issue	commit \| commitdiff \| tree
2019-07-31	Berk Hess	Remove unused CGLO_INITIALIZATION	commit \| commitdiff \| tree
2019-07-31	Berk Hess	Remove vcm removal from compute_globals()	commit \| commitdiff \| tree
2019-07-31	Berk Hess	Add grompp warning with use of GROMOS FF	commit \| commitdiff \| tree
2019-07-31	Berk Hess	Remove need for GROMOS FF in test	commit \| commitdiff \| tree
2019-07-30	Berk Hess	Use invsqrt and cbrt in free energy kernel	commit \| commitdiff \| tree
2019-07-29	Berk Hess	Remove LJ Ewald correction tables	commit \| commitdiff \| tree
2019-07-29	Berk Hess	Add initialization to t_nrnb	commit \| commitdiff \| tree
2019-07-29	Berk Hess	Fix segmentation fault with cosine pulling	commit \| commitdiff \| tree
2019-07-28	Berk Hess	Removed generalized reaction-field	commit \| commitdiff \| tree
2019-07-28	Berk Hess	Convert Ewald correction tables to C++	commit \| commitdiff \| tree
2019-07-26	Berk Hess	Add default initialization to interaction_const_t	commit \| commitdiff \| tree
2019-07-26	Berk Hess	Remove sh_invrc6 from interaction_const_t	commit \| commitdiff \| tree
2019-07-25	Berk Hess	Split canDetectGpus()	commit \| commitdiff \| tree
2019-07-08	Berk Hess	Store nbnxm gridSet data in GridSetData	commit \| commitdiff \| tree
2019-07-05	Berk Hess	Change affinity enum to enum class	commit \| commitdiff \| tree
2019-07-02	Berk Hess	Refactor thread affinity checking	commit \| commitdiff \| tree
2019-07-02	Berk Hess	Re-enable affinity diagonostics with MPI	commit \| commitdiff \| tree
2019-07-01	Berk Hess	Fix MPI deadlock in affinity setting	commit \| commitdiff \| tree
2019-07-01	Berk Hess	Template free-energy kernel on differing coul/vdw soft...	commit \| commitdiff \| tree
2019-06-26	Berk Hess	Remove tabulation from free-energy kernel	commit \| commitdiff \| tree
2019-06-20	Berk Hess	Remove unnecessary #if GMX_MPI in pme code	commit \| commitdiff \| tree
2019-06-20	Berk Hess	Template free-energy kernel on soft-core	commit \| commitdiff \| tree
2019-06-19	Berk Hess	Refactor PME atom handling	commit \| commitdiff \| tree
2019-06-19	Berk Hess	Removed unused code paths in the NB FE kernel	commit \| commitdiff \| tree
2019-06-18	Berk Hess	Make forcerec const in dispatchNonbondedKernel()	commit \| commitdiff \| tree
2019-06-17	Berk Hess	Simplify GPU nbnxm x conversion	commit \| commitdiff \| tree
2019-06-17	Berk Hess	Remove unused nbnxm include files	commit \| commitdiff \| tree
2019-06-11	Berk Hess	Allow AWH geometry 'direction' to be periodic	commit \| commitdiff \| tree
2019-06-10	Berk Hess	Fix gmx wham with angle geometries	commit \| commitdiff \| tree
2019-06-05	Berk Hess	Fix reference SIMD memory alignment	commit \| commitdiff \| tree
2019-05-29	Berk Hess	Fix missing intermolecular interactions with DD	commit \| commitdiff \| tree
2019-05-27	Berk Hess	Work around gcc 7 avx512 bug	commit \| commitdiff \| tree
2019-05-23	Berk Hess	Fix SHAKE dH/dlambda contributions	commit \| commitdiff \| tree
2019-05-14	Berk Hess	Make all do_force_lowlevel() input const	commit \| commitdiff \| tree
2019-05-14	Berk Hess	Correct user guide postion restraint virial	commit \| commitdiff \| tree
2019-05-04	Berk Hess	Remove PME exclusion correction	commit \| commitdiff \| tree
2019-05-03	Berk Hess	Removed non-existent AWH mdp option	commit \| commitdiff \| tree
2019-05-03	Berk Hess	Convert manage_threading_t and gmx_enerdata_t to C++	commit \| commitdiff \| tree
2019-05-02	Berk Hess	Change nbnxm FEP pointer to unique_ptr	commit \| commitdiff \| tree
2019-04-30	Berk Hess	Add con/destructor for t_forcetable	commit \| commitdiff \| tree
2019-04-30	Berk Hess	Convert DispersionCorrection to a class	commit \| commitdiff \| tree
2019-04-18	Berk Hess	Remove nbnxm kernel type from pairlist generation	commit \| commitdiff \| tree
2019-04-18	Berk Hess	Remove charge groups from domdec and localtop	commit \| commitdiff \| tree
2019-04-18	Berk Hess	Fix pdb-related issues	commit \| commitdiff \| tree
2019-04-17	Berk Hess	Remove group scheme search code	commit \| commitdiff \| tree
2019-04-17	Berk Hess	Simplify vsite PBC handling	commit \| commitdiff \| tree
2019-04-17	Berk Hess	Reduce nbnxm CPU kernel arguments	commit \| commitdiff \| tree
2019-04-17	Berk Hess	Simplify nbnxm shift force handling	commit \| commitdiff \| tree
2019-04-16	Berk Hess	Simplify nbnxm buffer clearing	commit \| commitdiff \| tree
2019-04-16	Berk Hess	Remove RF_excl_correction()	commit \| commitdiff \| tree
2019-04-16	Berk Hess	Make mdrun -nsteps work again.	commit \| commitdiff \| tree
2019-04-15	Berk Hess	Update 2019 release notes for issue 2845	commit \| commitdiff \| tree
2019-04-15	Berk Hess	Fix pdb-related issues	commit \| commitdiff \| tree
2019-04-15	Berk Hess	Disallow pull geometry direction-periodic with AWH	commit \| commitdiff \| tree
2019-03-28	Berk Hess	Simplify nbnxm final force reduction	commit \| commitdiff \| tree
2019-03-28	Berk Hess	Move early return for nbnxm force reduction	commit \| commitdiff \| tree
2019-03-28	Berk Hess	Move PairlistSet declaration	commit \| commitdiff \| tree
2019-03-28	Berk Hess	Move nbnxm domainSetup to GridSet	commit \| commitdiff \| tree
2019-03-28	Berk Hess	Extract nbnxm PairlistSets	commit \| commitdiff \| tree
2019-03-27	Berk Hess	Fix nbnxm OpenCL with cluster size 4	commit \| commitdiff \| tree
2019-03-25	Berk Hess	Convert nbnxn_pairlist_set_t to class PairlistSet	commit \| commitdiff \| tree
2019-03-20	Berk Hess	Move around PairSearch code	commit \| commitdiff \| tree
2019-03-19	Berk Hess	Reduce dependencies of nbnxn_atomdata_t	commit \| commitdiff \| tree
2019-03-15	Berk Hess	Change nbnxn_search to class PairSearch	commit \| commitdiff \| tree
2019-03-15	Berk Hess	Extract DomainSetup from nbnxn_search	commit \| commitdiff \| tree
2019-03-14	Berk Hess	Change nbnxm macros to constexpr	commit \| commitdiff \| tree
2019-03-14	Berk Hess	Move functions to gridset.cpp	commit \| commitdiff \| tree
2019-03-14	Berk Hess	Add nbnxm GridSet class	commit \| commitdiff \| tree
2019-03-14	Berk Hess	Fix compilation issue	commit \| commitdiff \| tree
2019-03-12	Berk Hess	Move nbnxm atom macros to atomdata.h	commit \| commitdiff \| tree
2019-03-11	Berk Hess	Add grompp warning with use of GROMOS FF	commit \| commitdiff \| tree
2019-03-08	Berk Hess	Clean up calc_verlet_buffer_size()	commit \| commitdiff \| tree
2019-03-06	Berk Hess	Clean up nbnxm bounding box functions	commit \| commitdiff \| tree
2019-03-06	Berk Hess	Clean up nbnxm bounding boxes	commit \| commitdiff \| tree
2019-03-06	Berk Hess	Convert nbnxm bounding box to a struct	commit \| commitdiff \| tree
2019-03-05	Berk Hess	Fix post-submit warnings	commit \| commitdiff \| tree
2019-03-05	Berk Hess	Move nbnxm atomdata types to atomdata.h	commit \| commitdiff \| tree
2019-03-05	Berk Hess	Turn nbnxn_grid_t into a class	commit \| commitdiff \| tree
2019-02-28	Berk Hess	Use unique_ptr in nonbonded_verlet_t	commit \| commitdiff \| tree
2019-02-27	Berk Hess	Use new/delete for t_forcerec	commit \| commitdiff \| tree
2019-02-27	Berk Hess	Clean up dispersioncorrection.cpp	commit \| commitdiff \| tree
2019-02-27	Berk Hess	Fix 4 compilers warnings	commit \| commitdiff \| tree
2019-02-27	Berk Hess	Collect dispersion correction code	commit \| commitdiff \| tree
2019-02-26	Berk Hess	Correct grompp index file error message	commit \| commitdiff \| tree
2019-02-26	Berk Hess	Clean up mtop pbc functions	commit \| commitdiff \| tree
2019-02-23	Berk Hess	Move all nbnxm pruning details into module	commit \| commitdiff \| tree
2019-02-23	Berk Hess	Hide internals of nbnxm parlist	commit \| commitdiff \| tree
2019-02-22	Berk Hess	Formalize dynamic pruning with GPU emulation	commit \| commitdiff \| tree
2019-02-21	Berk Hess	Move free-energy kernel dispatch into nbnxm module	commit \| commitdiff \| tree
2019-02-21	Berk Hess	Minor nbnxm cleanup	commit \| commitdiff \| tree
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