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2015-10-03	Teemu Murtola	Use more std::vector for solvate/insert-molecules	commit \| commitdiff \| tree
2015-10-03	Teemu Murtola	Use std::vector for makeExclusionDistances()	commit \| commitdiff \| tree
2015-10-03	Teemu Murtola	Remove SelectionOptionBehavior::useDefaultGroups	commit \| commitdiff \| tree
2015-10-02	David van der Spoel	Removed output_env_t, now using gmx_output_env_t *...	commit \| commitdiff \| tree
2015-10-01	Teemu Murtola	Move mdoutf and trajectory_writing to mdlib	commit \| commitdiff \| tree
2015-09-27	David van der Spoel	Removed types/forcerec.h from typedefs.h	commit \| commitdiff \| tree
2015-09-25	Teemu Murtola	More legacyheaders to gmxlib/mdlib	commit \| commitdiff \| tree
2015-09-25	Teemu Murtola	Move some headers from legacyheaders to mdlib/gmxlib	commit \| commitdiff \| tree
2015-09-25	Teemu Murtola	Remove types/shellfc.h	commit \| commitdiff \| tree
2015-09-19	Teemu Murtola	Convert calc_verletbuf.c to C++	commit \| commitdiff \| tree
2015-09-18	Teemu Murtola	Remove unused macros.h includes (fix build)	commit \| commitdiff \| tree
2015-09-09	Rossen Apostolov	Converted topology to C++.	commit \| commitdiff \| tree
2015-09-05	James W. Barnett	Validate strings converted to numbers in mdp files	commit \| commitdiff \| tree
2015-07-25	Teemu Murtola	Remove Options::isSet()	commit \| commitdiff \| tree
2015-07-25	Teemu Murtola	Add basic grouping to Options	commit \| commitdiff \| tree
2015-07-23	Teemu Murtola	Split espresso I/O routines from confio.cpp	commit \| commitdiff \| tree
2015-07-22	Teemu Murtola	Split gro I/O routines from confio.cpp	commit \| commitdiff \| tree
2015-07-22	Teemu Murtola	Split g96 I/O routines from confio.cpp	commit \| commitdiff \| tree
2015-07-22	Teemu Murtola	Move read_tps_conf() to confio.h	commit \| commitdiff \| tree
2015-07-22	Teemu Murtola	Add basic tests for reading/writing structure files	commit \| commitdiff \| tree
2015-07-20	Teemu Murtola	Merge release-5-0 into release-5-1	commit \| commitdiff \| tree
2015-07-10	Teemu Murtola	More gmxfio simplification	commit \| commitdiff \| tree
2015-07-09	Teemu Murtola	Fix -deffnm -multi[dir]	commit \| commitdiff \| tree
2015-07-04	Teemu Murtola	Fix error wrapping in interactive selection input	commit \| commitdiff \| tree
2015-07-04	Teemu Murtola	Tests for interactive selection input	commit \| commitdiff \| tree
2015-07-04	Teemu Murtola	Fix copy-paste bug in gmx distance	commit \| commitdiff \| tree
2015-07-04	Teemu Murtola	Refactor for testing interactive selection input	commit \| commitdiff \| tree
2015-07-04	Teemu Murtola	Remove gmx::File (except for File::exists())	commit \| commitdiff \| tree
2015-07-04	Teemu Murtola	Replace direct uses of gmx::File with streams	commit \| commitdiff \| tree
2015-07-02	Teemu Murtola	Convert gmxfio to C++	commit \| commitdiff \| tree
2015-07-02	Teemu Murtola	Clean up gmxfio includes	commit \| commitdiff \| tree
2015-07-02	Teemu Murtola	Reorder code within gmxfio	commit \| commitdiff \| tree
2015-07-02	Teemu Murtola	Further gmxfio cleanup related to xdr handling	commit \| commitdiff \| tree
2015-06-16	Teemu Murtola	Fix broken links from the old flow chart	commit \| commitdiff \| tree
2015-06-12	Teemu Murtola	Improve uncrustify Jenkins builds	commit \| commitdiff \| tree
2015-06-09	Teemu Murtola	Add description of relocatable binaries	commit \| commitdiff \| tree
2015-06-04	Teemu Murtola	Refactor rst parsing for console output	commit \| commitdiff \| tree
2015-06-04	Teemu Murtola	Replace gromacs.7 man page with gmx.1	commit \| commitdiff \| tree
2015-06-04	Teemu Murtola	Document current help formatting	commit \| commitdiff \| tree
2015-06-04	Teemu Murtola	Basic support for titles within tool help	commit \| commitdiff \| tree
2015-05-27	Mark Abraham	Fix warnings from GCC 5	commit \| commitdiff \| tree
2015-05-25	Teemu Murtola	Overview docs for analysis nbsearch	commit \| commitdiff \| tree
2015-05-22	Teemu Murtola	Allow any order for sections in 'gmx help -export'	commit \| commitdiff \| tree
2015-05-22	Teemu Murtola	Merge release-5-0 into master	commit \| commitdiff \| tree
2015-05-20	Teemu Murtola	Fix handling of real-valued 'to' selection ranges	commit \| commitdiff \| tree
2015-05-11	Teemu Murtola	Use single variable for expected Doxygen version	commit \| commitdiff \| tree
2015-05-10	Teemu Murtola	Move some testutils and overview docs to dev guide	commit \| commitdiff \| tree
2015-04-24	Mark Abraham	Add developer docs for new documentation infrastructure	commit \| commitdiff \| tree
2015-04-24	Teemu Murtola	Add section on naming conventions to dev manual	commit \| commitdiff \| tree
2015-02-13	Teemu Murtola	Replace some [BR] in help texts with rst literals	commit \| commitdiff \| tree
2015-01-24	Teemu Murtola	Remove old selection parser error handling code	commit \| commitdiff \| tree
2015-01-07	Teemu Murtola	Custom program context for unit tests	commit \| commitdiff \| tree
2015-01-06	Teemu Murtola	Use xvgrclose() for files opened with xvgropen()	commit \| commitdiff \| tree
2015-01-02	Teemu Murtola	Update copyright year in copyrite.cpp	commit \| commitdiff \| tree
2014-12-28	Teemu Murtola	Convert gmx-insert-molecules into proper C++ module	commit \| commitdiff \| tree
2014-12-18	Teemu Murtola	Rework gmx-solvate to use analysis nbsearch	commit \| commitdiff \| tree
2014-12-14	Teemu Murtola	C++ interface for surface area calculation	commit \| commitdiff \| tree
2014-11-27	Teemu Murtola	Clean up gmx solvate	commit \| commitdiff \| tree
2014-11-27	Teemu Murtola	More control over file backups	commit \| commitdiff \| tree
2014-11-26	Teemu Murtola	Convert surface area calculation to C++	commit \| commitdiff \| tree
2014-11-21	Teemu Murtola	Describe doc-check in developer manual	commit \| commitdiff \| tree
2014-10-30	Teemu Murtola	Add more selection unit tests	commit \| commitdiff \| tree
2014-10-30	Teemu Murtola	Fix more memory leaks in default group creation	commit \| commitdiff \| tree
2014-10-29	Teemu Murtola	Merge release-5-0 into master	commit \| commitdiff \| tree
2014-10-28	Teemu Murtola	Avoid common.h inclusion in CUDA code	commit \| commitdiff \| tree
2014-10-23	Teemu Murtola	Move truncate() wrapper to futil.h	commit \| commitdiff \| tree
2014-10-23	Teemu Murtola	Encapsulate use of nice()	commit \| commitdiff \| tree
2014-10-22	Teemu Murtola	Collect more platform-specific code to sysinfo.h	commit \| commitdiff \| tree
2014-10-22	Teemu Murtola	Rename common.h to classhelpers.h	commit \| commitdiff \| tree
2014-10-14	Teemu Murtola	Check config.h usage in doc-check	commit \| commitdiff \| tree
2014-09-21	Teemu Murtola	Introduce a variable to identify in-source build	commit \| commitdiff \| tree
2014-09-21	Teemu Murtola	Skip man/html/completion generation if not needed	commit \| commitdiff \| tree
2014-09-13	Teemu Murtola	Extend support for float/double tolerances in testing	commit \| commitdiff \| tree
2014-09-12	Teemu Murtola	Run include order check in doc-check	commit \| commitdiff \| tree
2014-09-05	Teemu Murtola	Remove unnecessary config.h includes	commit \| commitdiff \| tree
2014-09-05	Teemu Murtola	Move some defines to gmxpre.h for thread-MPI	commit \| commitdiff \| tree
2014-09-04	Teemu Murtola	Include config.h directly if used	commit \| commitdiff \| tree
2014-08-23	Mark Abraham	Generalize markdown configuration machinery	commit \| commitdiff \| tree
2014-08-22	Teemu Murtola	Move -nice handling to CommandLineModuleManager	commit \| commitdiff \| tree
2014-08-20	Teemu Murtola	Misc. gmxpre.h-related changes	commit \| commitdiff \| tree
2014-08-20	Teemu Murtola	Merge release-5-0 into master	commit \| commitdiff \| tree
2014-08-20	Teemu Murtola	Remove unused config.h defines	commit \| commitdiff \| tree
2014-08-19	Teemu Murtola	Introduce gmxpre.h for truly global definitions	commit \| commitdiff \| tree
2014-08-14	Teemu Murtola	Fix CMake package config after recent version changes	commit \| commitdiff \| tree
2014-08-10	Teemu Murtola	Improve initAfterFirstFrame() usability	commit \| commitdiff \| tree
2014-08-10	Teemu Murtola	Make vec.h const-correct with both C and C++	commit \| commitdiff \| tree
2014-08-10	Teemu Murtola	Basic exclusion support for analysis nbsearch	commit \| commitdiff \| tree
2014-08-10	Roland Schulz	Merge release-4-6 into release-5-0	commit \| commitdiff \| tree
2014-08-09	Teemu Murtola	Add Selection::hasOnlyAtoms()	commit \| commitdiff \| tree
2014-08-07	Teemu Murtola	Basic support for 2D neighborhood search for analysis	commit \| commitdiff \| tree
2014-08-04	Teemu Murtola	Verify MD5 sum for FFTW download	commit \| commitdiff \| tree
2014-08-03	Teemu Murtola	Check frame atom count before evaluating selections	commit \| commitdiff \| tree
2014-07-24	Teemu Murtola	Do not actually install uniqueptr.h	commit \| commitdiff \| tree
2014-07-10	Teemu Murtola	Bump SOVERSION	commit \| commitdiff \| tree
2014-07-09	Teemu Murtola	Clean up gmx_header_config	commit \| commitdiff \| tree
2014-07-09	Teemu Murtola	Merge release-5-0 into master	commit \| commitdiff \| tree
2014-07-09	Teemu Murtola	Improve module dependency graph layout	commit \| commitdiff \| tree
2014-07-08	Teemu Murtola	Move GMX_CXX11 to config.h	commit \| commitdiff \| tree
2014-07-08	Teemu Murtola	Remove gmx_unique_ptr from options public headers	commit \| commitdiff \| tree
2014-07-08	Teemu Murtola	Remove selection help from SelectionCollection	commit \| commitdiff \| tree
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