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Use std::vector in LINCS
2018-12-18
Berk Hess
Use std::vector in LINCS
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2018-11-16
Berk Hess
grompp now checks tau-p>=2*tau-t with NH+PR
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2018-11-08
Berk Hess
Fix bug with DD for dims without PBC
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2018-11-01
Berk Hess
Fix broken update groups
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2018-10-31
Berk Hess
Limit auto assignment of bondeds to GPUs
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2018-10-31
Berk Hess
Pin important buffers in CUDA bondeds
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2018-10-31
Berk Hess
Work around expanded ensemble issues
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2018-10-31
Berk Hess
Fix FP exception in energy reduction
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2018-10-31
Berk Hess
Correct VV integrator nstcalcenergy use
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2018-10-31
Berk Hess
Correct grompp nstexpanded/nstcalcenergy check
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2018-10-26
Berk Hess
Add missing mass term to deltaH
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2018-10-23
Berk Hess
Add missing constraint term to deltaH
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2018-10-21
Berk Hess
Fix mdrun start/end time print
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2018-10-18
Berk Hess
Add env.var. to disable update groups
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2018-10-12
Berk Hess
Implement assigning bondeds to the GPU
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2018-10-10
Berk Hess
Move pull output functions to output.cpp
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2018-10-10
Berk Hess
Minor refactoring in bonded threading
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2018-10-09
Berk Hess
Fix compiler warning
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2018-10-08
Berk Hess
Enable update groups
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2018-10-05
Berk Hess
Add update groups to DD atom displacement
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2018-10-04
Berk Hess
Make AVX2 pass TSAN
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2018-10-04
Berk Hess
Add note to avoid constraints=all-bonds
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2018-10-03
Berk Hess
Remove unnecessary clearing in gmxcpp
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2018-10-03
Berk Hess
Convert gmx_cpp to C++
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2018-10-02
Berk Hess
Update DD cutoffs for update groups
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2018-09-30
Berk Hess
Correct update group angle param type
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2018-09-29
Berk Hess
Refactoring in calc_verletbuf.cpp
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2018-09-29
Berk Hess
Add UpdateGroupsCog to DD
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2018-09-27
Berk Hess
Move maxReferenceTemperature() to inputrec
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2018-09-27
Berk Hess
Improve update group radii
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2018-09-27
Berk Hess
Reorganize RVec scaling functions
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2018-09-26
Berk Hess
Extract settle test water coordinates
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2018-09-26
Berk Hess
Support atom groups in nbnxn_search
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2018-09-25
Berk Hess
Add UpdateGroupsCog class
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2018-09-24
Berk Hess
Fix performance report when init_step!=0
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2018-09-22
Berk Hess
Add update groups boolean to DD
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2018-09-22
Berk Hess
Rename DD constraint booleans
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2018-09-22
Berk Hess
Add update groups
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2018-09-20
Berk Hess
Change pull buffers to std::vector
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2018-09-20
Berk Hess
Fix type bug in trilinic DD code
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2018-09-19
Berk Hess
Convert gmx_cmap_t to C++
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2018-09-19
Berk Hess
Convert gmx_ffparams_t to C++
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2018-09-18
Berk Hess
Introduce extractILists helper function
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2018-09-18
Berk Hess
Refactor ddbox handling
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2018-09-17
Berk Hess
Move ifunc stuff from idef.h to ifunc.h
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2018-09-17
Berk Hess
Change pointers to InteractionList to references
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2018-09-16
Berk Hess
Refactoring in DD redistribute
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2018-09-14
Berk Hess
Refactor getAtomGroupDistribution()
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2018-09-14
Berk Hess
Change gmx_moltype_t.ilist to InteractionLists
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2018-09-13
Berk Hess
Add C++ version of t_ilist
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2018-09-12
Berk Hess
Convert vsite structs to C++
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2018-09-12
Berk Hess
Convert DD gmx_reverse_top_t to C++
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2018-09-10
Berk Hess
Fix PME forces with FE without perturbed q/LJ
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2018-08-29
Berk Hess
Refactor wall potential calculation
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2018-08-24
Berk Hess
Replace gmx_hash_t by HashedMap
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2018-08-24
Berk Hess
Merge "Merge branch release-2018"
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2018-08-24
Berk Hess
Add size optimization to HashedMap
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2018-08-24
Berk Hess
Add tests for HashedMap
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2018-08-22
Berk Hess
Fix missing interactions with GPU and DD
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2018-08-21
Berk Hess
Ensure domains are large enough for atom motion
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2018-08-21
Berk Hess
Fixed mdrun segv with QM/MM ONIOM scheme
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2018-08-20
Berk Hess
Refactor calc_verlet_buffer_size()
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2018-08-20
Berk Hess
Remove compacting from DD redistribute
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2018-08-20
Berk Hess
Fix Verlet buffer estimate with BD
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2018-08-20
Berk Hess
Fix clang namespace comment warning
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2018-08-20
Berk Hess
Fix assertion failure in CG
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2018-08-20
Berk Hess
Really fix CG with multiple domains
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2018-08-20
Berk Hess
Make gmx_ga2la_t a proper class
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2018-08-18
Berk Hess
Add check for pull group PBC to grompp
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2018-08-17
Berk Hess
Make pull pbc atom use LocalAtomSet
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2018-07-18
Berk Hess
Apply local atom sets in pull code
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2018-07-03
Berk Hess
Convert gmx_hash_t to C++
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2018-07-03
Berk Hess
Localize variables in dd_redistribute_cg()
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2018-07-02
Berk Hess
Convert DD DLB cell size handling to C++
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2018-07-02
Berk Hess
Fix recent bug with 2D/3D DLB
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2018-07-01
Berk Hess
Removed smalloc.h from many DD files
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2018-06-29
Berk Hess
Convert gmx_domdec_constraints_t to C++
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2018-06-29
Berk Hess
Convert gmx_domdec_specat_comm_t to C++
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2018-06-29
Berk Hess
Initialize DD DLB variable
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2018-06-29
Berk Hess
New quote from a referee
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2018-06-28
Berk Hess
Rename atomGroups in gmx_domdec_t to atomGrouping
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2018-06-28
Berk Hess
Clean up dd_move_cellx()
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2018-06-28
Berk Hess
Convert gmx_domdec_sort_t to C++
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2018-06-28
Berk Hess
Change BlockRanges to class RangePartitioning
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2018-06-27
Berk Hess
Fix bug with 2D/3D triclinic DD
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2018-06-27
Berk Hess
Base vacuum DD on atom coordinates
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2018-06-27
Berk Hess
Add consistency check to DDAtomRanges
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2018-06-27
Berk Hess
Partial conversion of gmx_domdec_comm_t to C++
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2018-06-27
Berk Hess
Template and overload dd_sendrecv functions
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2018-06-27
Berk Hess
Correct DD zone size loop bound
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2018-06-14
Berk Hess
Minimization now detects infinite forces
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2018-06-14
Berk Hess
Introduced DDAtomRanges class
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2018-06-13
Berk Hess
Remove LINCS prints to log file
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2018-06-13
Berk Hess
Partial conversion of gmx_domdec_t to C++
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2018-06-12
Berk Hess
Add AWH continuation consistency checking
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2018-06-12
Berk Hess
Add fatal error for inconsistent graph
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2018-06-12
Berk Hess
Avoid COM removal moving frozen atoms
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2018-06-12
Berk Hess
Remove constraint v correction for frozen atoms
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2018-06-06
Berk Hess
Clean up make_at2con
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2018-06-06
Berk Hess
Fix MPI inconsistency in EM after constraint failure
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