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2015-10-02	David van der Spoel	Removed simple.h from nb_kernel_sse2_XX	commit \| commitdiff \| tree
2015-10-02	David van der Spoel	Removed simple.h from nb_kernel_c and nb_kernel_sparc64_hpc...	commit \| commitdiff \| tree
2015-10-02	David van der Spoel	Removed include simple.h from nb_kernel_avx_128_fma_XX	commit \| commitdiff \| tree
2015-10-02	Teemu Murtola	More flexible API for xvg testing	commit \| commitdiff \| tree
2015-10-02	Teemu Murtola	More headers out of legacyheaders	commit \| commitdiff \| tree
2015-10-01	Berk Hess	Removed CUDA polling wait	commit \| commitdiff \| tree
2015-10-01	Teemu Murtola	Convert nb_free_energy.c to C++	commit \| commitdiff \| tree
2015-10-01	David van der Spoel	Removed types/nrnb.h from typedefs.h.	commit \| commitdiff \| tree
2015-09-30	Roland Schulz	Manually propagate CUDA host compiler flags	commit \| commitdiff \| tree
2015-09-29	Mark Abraham	Hard-code fewer things in table code	commit \| commitdiff \| tree
2015-09-27	Teemu Murtola	Remove unnecessary includes from legacyheaders/	commit \| commitdiff \| tree
2015-09-27	Teemu Murtola	Move viewit.* to commandline/	commit \| commitdiff \| tree
2015-09-27	Berk Hess	Move gmx_domdec_comm_t definition	commit \| commitdiff \| tree
2015-09-27	Erik Lindahl	Fix unused variable warnings for gcc-4.6.4	commit \| commitdiff \| tree
2015-09-27	Teemu Murtola	More headers out of legacyheaders	commit \| commitdiff \| tree
2015-09-27	Szilard Pall	Tweak the CUDA GPU shared mem/L1 config	commit \| commitdiff \| tree
2015-09-27	Roland Schulz	Converted 4xn kernel to C++	commit \| commitdiff \| tree
2015-09-26	Teemu Murtola	Remove types/membedt.h	commit \| commitdiff \| tree
2015-09-25	David van der Spoel	Removed include of types/ifunc.h from typedefs.h	commit \| commitdiff \| tree
2015-09-25	Teemu Murtola	Remove some extern "C" declarations	commit \| commitdiff \| tree
2015-09-25	Rossen Apostolov	Converted math to C++.	commit \| commitdiff \| tree
2015-09-22	Berk Hess	Removed useless multiple shifts in pbc.cpp	commit \| commitdiff \| tree
2015-09-22	Erik Lindahl	Convert nbnxn search,grid,atomdata to C++	commit \| commitdiff \| tree
2015-09-22	Teemu Murtola	Reduce use of output_env_t from types/oenv.h	commit \| commitdiff \| tree
2015-09-18	Teemu Murtola	Move asize() from macros.h and reduce use of macros.h	commit \| commitdiff \| tree
2015-09-18	Teemu Murtola	Create topology/atom_id.h	commit \| commitdiff \| tree
2015-09-12	Rossen Apostolov	Converted pbcutils to C++	commit \| commitdiff \| tree
2015-09-12	Mark Abraham	Clean up tpxio.cpp	commit \| commitdiff \| tree
2015-09-11	Teemu Murtola	Build script for coverage	commit \| commitdiff \| tree
2015-09-11	James W. Barnett	Add missing factor in output of pull dist error	commit \| commitdiff \| tree
2015-09-10	Teemu Murtola	Run clang analysis for test code	commit \| commitdiff \| tree
2015-09-09	David van der Spoel	Removed fileio/trx.h from typedefs.h	commit \| commitdiff \| tree
2015-09-09	Mark Abraham	Reduce misuse of fatalerror.h	commit \| commitdiff \| tree
2015-09-08	Teemu Murtola	Improve gmx sasa error message	commit \| commitdiff \| tree
2015-09-08	Teemu Murtola	Refactor reference data checking	commit \| commitdiff \| tree
2015-09-08	Teemu Murtola	Minor build script improvements	commit \| commitdiff \| tree
2015-09-08	Teemu Murtola	Refactor TestReferenceData lifetime management	commit \| commitdiff \| tree
2015-09-07	Rossen Apostolov	Converted imd module to C++.	commit \| commitdiff \| tree
2015-09-07	Erik Lindahl	Moved linear algebra sources to C++	commit \| commitdiff \| tree
2015-09-04	Mark Abraham	Fix recent tpr change	commit \| commitdiff \| tree
2015-09-04	Rossen Apostolov	Fixed a typo in OpenCL cmake system	commit \| commitdiff \| tree
2015-08-29	Teemu Murtola	Fix memory leaks in read_tps_conf() and some callers	commit \| commitdiff \| tree
2015-08-29	Erik Lindahl	Fix FP exception in reference build	commit \| commitdiff \| tree
2015-08-28	Teemu Murtola	Remove read_stx_conf() and get_stx_coordnum() uses	commit \| commitdiff \| tree
2015-08-28	Mark Abraham	Keep hw_opt more const	commit \| commitdiff \| tree
2015-08-28	David van der Spoel	Added energy (edr) file type to Options headers.	commit \| commitdiff \| tree
2015-08-28	David van der Spoel	Added additional constructor to StringStream class...	commit \| commitdiff \| tree
2015-08-15	Teemu Murtola	Merge "Merge branch release-5-1 into master"	commit \| commitdiff \| tree
2015-08-15	Roland Schulz	Fix Clang warning	commit \| commitdiff \| tree
2015-08-14	James W. Barnett	Don't let cmake find Python 3.	commit \| commitdiff \| tree
2015-08-13	Berk Hess	Added set_pull_coord_reference_value	commit \| commitdiff \| tree
2015-08-13	Mark Abraham	Make it easier to find selection help	commit \| commitdiff \| tree
2015-08-13	Mark Abraham	Documentation fixes	commit \| commitdiff \| tree
2015-08-13	Szilard Pall	add clFlush to kick of OpenCL work	commit \| commitdiff \| tree
2015-08-13	Mark Abraham	Avoid FP exception with empty .mdp file	commit \| commitdiff \| tree
2015-08-12	Mark Abraham	Add to author lists	commit \| commitdiff \| tree
2015-08-12	Erik Lindahl	Prevent AMD OpenCL on OS X prior to 10.10.4	commit \| commitdiff \| tree
2015-08-11	Erik Lindahl	Fix for processors being offline on Arm	commit \| commitdiff \| tree
2015-08-10	James W. Barnett	Fix some stuff in user and install guide	commit \| commitdiff \| tree
2015-08-10	Mark Abraham	Require tune_pme to take -mdrun parameter	commit \| commitdiff \| tree
2015-08-08	James W. Barnett	Fix some phrases that were not appearing in manual	commit \| commitdiff \| tree
2015-08-07	Roland Schulz	Fix VS2015 warning	commit \| commitdiff \| tree
2015-08-06	Mark Abraham	Fix FindNVML.cmake	commit \| commitdiff \| tree
2015-08-06	Erik Lindahl	Avoid using C++11-specific data() of std::vector	commit \| commitdiff \| tree
2015-08-06	Mark Abraham	Fix thread-affinity checking	commit \| commitdiff \| tree
2015-08-06	Roland Schulz	Replace AI, AJ, .. and C0, C1, C2 macros with functions	commit \| commitdiff \| tree
2015-08-05	Mark Abraham	Fix em dash in new reference	commit \| commitdiff \| tree
2015-08-03	Mark Abraham	Fix use of wrongly-named GCC minor-version variable	commit \| commitdiff \| tree
2015-07-29	David van der Spoel	Code for checking xvg files in testutils.	commit \| commitdiff \| tree
2015-07-29	Erik Lindahl	Fix a table generation bug for pme-shift	commit \| commitdiff \| tree
2015-07-28	Erik Lindahl	Moved second half of gmxana tools to C++	commit \| commitdiff \| tree
2015-07-28	Erik Lindahl	Moved first batch of analysis tool source to C++	commit \| commitdiff \| tree
2015-07-28	Roland Schulz	Converted 2xnn kernel to C++	commit \| commitdiff \| tree
2015-07-28	Erik Lindahl	Convert support files in gmxana to C++	commit \| commitdiff \| tree
2015-07-28	Erik Lindahl	Moved timing source to C++	commit \| commitdiff \| tree
2015-07-26	Mark Abraham	Stop mdrun printing potentially undefined value	commit \| commitdiff \| tree
2015-07-25	Teemu Murtola	Extract IOptionsContainer from Options	commit \| commitdiff \| tree
2015-07-24	Rossen Apostolov	Converted correlationfuntcions to C++.	commit \| commitdiff \| tree
2015-07-19	Mark Abraham	Update advice about grompp -t	commit \| commitdiff \| tree
2015-07-18	Teemu Murtola	Change naming convention for C++ interfaces	commit \| commitdiff \| tree
2015-07-17	Erik Lindahl	Moved statistics source to C++	commit \| commitdiff \| tree
2015-07-17	Erik Lindahl	Fixed static analyzer warnings	commit \| commitdiff \| tree
2015-07-17	Erik Lindahl	Fix incorrect warning about only using single core	commit \| commitdiff \| tree
2015-07-15	Carsten Kutzner	Removed information about obsolete .edo file format	commit \| commitdiff \| tree
2015-07-14	James W. Barnett	Update example old mdp file in user guide.	commit \| commitdiff \| tree
2015-07-14	Erik Lindahl	Move fileio sources to C++	commit \| commitdiff \| tree
2015-07-14	Mark Abraham	Converted gmxpreprocess to compile as C++	commit \| commitdiff \| tree
2015-07-14	Erik Lindahl	Move remaining C files in utility to C++	commit \| commitdiff \| tree
2015-07-10	Erik Lindahl	Use cmakedefine01 for more trivial defines	commit \| commitdiff \| tree
2015-07-10	Erik Lindahl	Moved tools files to C++	commit \| commitdiff \| tree
2015-07-09	Erik Lindahl	Merge "Merge release-5-1 into master"	commit \| commitdiff \| tree
2015-07-08	Erik Lindahl	Move generalized born to C++	commit \| commitdiff \| tree
2015-07-08	Mark Abraham	Give bTypePerturbed a valid initial value	commit \| commitdiff \| tree
2015-07-08	Berk Hess	Separated bonded and Ewald correction threading	commit \| commitdiff \| tree
2015-07-08	Erik Lindahl	Move endian, float format and XDR settings to cmakedefine01	commit \| commitdiff \| tree
2015-07-08	Mark Abraham	Fix grompp .edr IO estimate for free-energy calcs	commit \| commitdiff \| tree
2015-07-08	Erik Lindahl	Cleanup and remove unused SSE2 generalized born code	commit \| commitdiff \| tree
2015-07-08	Erik Lindahl	Move old neighborsearch code to C++	commit \| commitdiff \| tree
2015-07-07	Teemu Murtola	Wrap uses of thread_mpi/mutex.h	commit \| commitdiff \| tree
2015-07-05	Berk Hess	Fix bug in GPU list balancing	commit \| commitdiff \| tree
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