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2019-06-30	Magnus Lundborg	Cleaning up the GPU bonded kernel	commit \| commitdiff \| tree
2019-06-20	Paul Bauer	Use ISerializer for TPR file IO	commit \| commitdiff \| tree
2019-06-20	Berk Hess	Template free-energy kernel on soft-core	commit \| commitdiff \| tree
2019-06-20	Christian Blau	Add BasicVector scaling, max, min and toIvec	commit \| commitdiff \| tree
2019-06-19	Berk Hess	Refactor PME atom handling	commit \| commitdiff \| tree
2019-06-19	Paul Bauer	Split tpr header reading reading from tpr body	commit \| commitdiff \| tree
2019-06-19	Berk Hess	Removed unused code paths in the NB FE kernel	commit \| commitdiff \| tree
2019-06-18	Paul Bauer	Fix gmx dump	commit \| commitdiff \| tree
2019-06-18	Mark Abraham	Move code handling mdrun -gpu_id to taskassignment...	commit \| commitdiff \| tree
2019-06-18	Berk Hess	Make forcerec const in dispatchNonbondedKernel()	commit \| commitdiff \| tree
2019-06-18	Christian Blau	Mrc format header to lattice coordinate transform	commit \| commitdiff \| tree
2019-06-18	Christian Blau	Density similarity measure and gradient	commit \| commitdiff \| tree
2019-06-18	M. Eric Irrgang	Reduce docker image size for gmxapi CI.	commit \| commitdiff \| tree
2019-06-18	Artem Zhmurov	Bug fix: Constraints tests are not instantiated with...	commit \| commitdiff \| tree
2019-06-12	Mark Abraham	Fix pygments detection for sphinx for docs build	commit \| commitdiff \| tree
2019-06-11	Mark Abraham	Use RAII approaches for hardware information detection	commit \| commitdiff \| tree
2019-06-11	Mark Abraham	Clean up multisim, communication, and REMD code	commit \| commitdiff \| tree
2019-05-29	Szilárd Páll	Template x buffer ops call on whether GPU is used	commit \| commitdiff \| tree
2019-05-27	Pascal Merz	Clean up renamed simulator.h file	commit \| commitdiff \| tree
2019-05-25	Pascal Merz	Remove dependence of mdoutf_write_to_trajectory_files...	commit \| commitdiff \| tree
2019-05-25	Pascal Merz	Rename Integrator class	commit \| commitdiff \| tree
2019-05-24	Artem Zhmurov	Clarify the EnergyOutput III	commit \| commitdiff \| tree
2019-05-24	Artem Zhmurov	Clarify the EnergyOutput II	commit \| commitdiff \| tree
2019-05-24	Mark Abraham	Reorder code before thread-MPI spawns threads	commit \| commitdiff \| tree
2019-05-23	Szilárd Páll	Fix mulitple link refs in dev-manual	commit \| commitdiff \| tree
2019-05-23	Mark Abraham	Teach ArrayRefWithPadding to make a const flavour	commit \| commitdiff \| tree
2019-05-22	Mark Abraham	Rewrite starting behavior	commit \| commitdiff \| tree
2019-05-22	Mark Abraham	Introduce tri-state enums for restarts	commit \| commitdiff \| tree
2019-05-22	Alan Gray	Pin X buffer with DD and use proper abstraction in...	commit \| commitdiff \| tree
2019-05-22	Jinke Fan	Add support for Hygon Dhyana processor	commit \| commitdiff \| tree
2019-05-22	Mark Abraham	Move functionality to mdrunutility	commit \| commitdiff \| tree
2019-05-16	Erik Lindahl	Added more quotes	commit \| commitdiff \| tree
2019-05-14	Mark Abraham	Update infrastructure needed for restart rewrite	commit \| commitdiff \| tree
2019-05-10	Paul Bauer	Remove more manual memory management	commit \| commitdiff \| tree
2019-05-09	M. Eric Irrgang	More Python testing infrastructure for gmxapi.	commit \| commitdiff \| tree
2019-05-09	M. Eric Irrgang	Add gmxapi._logging submodule.	commit \| commitdiff \| tree
2019-05-09	M. Eric Irrgang	Update I/O handling in gmxapi.commandline.	commit \| commitdiff \| tree
2019-05-09	M. Eric Irrgang	Expand gmxapi.operation tools to support the data flow...	commit \| commitdiff \| tree
2019-05-09	M. Eric Irrgang	Fix formatting and typos.	commit \| commitdiff \| tree
2019-05-09	M. Eric Irrgang	Support basic command line wrapper in gmxapi	commit \| commitdiff \| tree
2019-05-03	Mark Abraham	More tests for how mdrun -cpi restarts handle files	commit \| commitdiff \| tree
2019-05-03	Paul Bauer	Add outputadapters (2/3)	commit \| commitdiff \| tree
2019-05-02	Paul Bauer	Add outputadapters (1/3)	commit \| commitdiff \| tree
2019-05-02	M. Eric Irrgang	Infrastructure updates for dependent changes.	commit \| commitdiff \| tree
2019-05-02	Paul Bauer	Add builder for TrajectoryFileWriter	commit \| commitdiff \| tree
2019-05-02	Berk Hess	Change nbnxm FEP pointer to unique_ptr	commit \| commitdiff \| tree
2019-05-02	Mark Abraham	Enhance path search functions	commit \| commitdiff \| tree
2019-04-30	Mark Abraham	Test the output of "gmx mdrun help"	commit \| commitdiff \| tree
2019-04-27	Christian Blau	mrc density map reading/writing	commit \| commitdiff \| tree
2019-04-27	Christian Blau	Three dimensional coordiante transformation.	commit \| commitdiff \| tree
2019-04-26	Paul Bauer	Add C++ coordinate file writing method.	commit \| commitdiff \| tree
2019-04-25	Christian Blau	density fitting forces	commit \| commitdiff \| tree
2019-04-25	Paul Bauer	Add Interface to change coordinate file info	commit \| commitdiff \| tree
2019-04-25	Mark Abraham	Update style guide about class enums	commit \| commitdiff \| tree
2019-04-23	Mark Abraham	Clarify pushing of interaction types	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	Mark Abraham	Create gmx::compat::optional	commit \| commitdiff \| tree
2019-04-17	Paul Bauer	Enable printing of known issues in commandline	commit \| commitdiff \| tree
2019-04-17	Mark Abraham	Fix post-submit	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	Szilárd Páll	Move functions operating on enerdata out of force.cpp	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	Szilárd Páll	Remove "coarse load balancing vars" from forcerec	commit \| commitdiff \| tree
2019-04-16	Paul Bauer	Refactor t_pindex	commit \| commitdiff \| tree
2019-04-16	Mark Abraham	Removed mdrun -gcom	commit \| commitdiff \| tree
2019-04-16	Artem Zhmurov	Fix for the memory access error in constraints test.	commit \| commitdiff \| tree
2019-04-10	Mark Abraham	Start making IMD and swap model IMDModule	commit \| commitdiff \| tree
2019-04-10	Mark Abraham	Reuse rvecs_differ in InteractiveMD module	commit \| commitdiff \| tree
2019-04-10	Mark Abraham	Make ImdSession into a Pimpl-ed class with factory...	commit \| commitdiff \| tree
2019-04-10	Mark Abraham	Reform IMD module	commit \| commitdiff \| tree
2019-04-09	M. Eric Irrgang	gmxapi 2019 Q1/Q2 project roadmap.	commit \| commitdiff \| tree
2019-04-07	Paul Bauer	Remove t_topology from two preprocess tools	commit \| commitdiff \| tree
2019-04-05	Christian Blau	densityfitting - MDModule declaration	commit \| commitdiff \| tree
2019-04-05	Szilárd Páll	Revert "Temporarily disable ARM HPC compiler in post...	commit \| commitdiff \| tree
2019-04-04	Paul Bauer	Update developer guide for changes to Gerrit	commit \| commitdiff \| tree
2019-04-03	Mark Abraham	Initial deactivation of group scheme.	commit \| commitdiff \| tree
2019-04-02	Paul Bauer	Refactor gpp_bond_atomtype	commit \| commitdiff \| tree
2019-04-02	Paul Bauer	Add std::string case insensitive compare	commit \| commitdiff \| tree
2019-04-02	Paul Bauer	Refactor gmx_group_t to SimulationAtomGroups	commit \| commitdiff \| tree
2019-04-02	Paul Bauer	Fix simulated annealing and add test	commit \| commitdiff \| tree
2019-04-02	Szilárd Páll	Temporarily disable ARM HPC compiler in post-submit	commit \| commitdiff \| tree
2019-04-01	Mark Abraham	Move MDModules initialization earlier	commit \| commitdiff \| tree
2019-04-01	Mark Abraham	Move enerdata ownership to mdrunner	commit \| commitdiff \| tree
2019-03-29	M. Eric Irrgang	Plumbing for gmxapi 2019 Q1/Q2 project roadmap.	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
2019-03-28	Artem Zhmurov	GPU naming conventions	commit \| commitdiff \| tree
2019-03-27	Prashanth Kanduri	Moving put_atoms_in_box_omp() to pbc.h	commit \| commitdiff \| tree
2019-03-27	Prashanth Kanduri	Getting rid of use_GPU(nbv) function	commit \| commitdiff \| tree
2019-03-27	Prashanth Kanduri	Move stat function declarations to a new stat.h	commit \| commitdiff \| tree
2019-03-21	Szilárd Páll	Reorder PBC setup in do_force_lowlevel	commit \| commitdiff \| tree
2019-03-20	Berk Hess	Move around PairSearch code	commit \| commitdiff \| tree
2019-03-20	Mark Abraham	Clean up mdrun help description	commit \| commitdiff \| tree
2019-03-20	Mark Abraham	Improve mimic module	commit \| commitdiff \| tree
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