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2015-11-13	Teemu Murtola	Report unused cycle suppressions	commit \| commitdiff \| tree
2015-11-11	Teemu Murtola	Support inspecting expected error messages in tests	commit \| commitdiff \| tree
2015-11-11	Teemu Murtola	Remove build system for boost	commit \| commitdiff \| tree
2015-11-10	Teemu Murtola	Remove remaining boost dependencies	commit \| commitdiff \| tree
2015-11-07	Teemu Murtola	Remove misc. copyrite.h functions	commit \| commitdiff \| tree
2015-11-07	Teemu Murtola	Move gmx_omp_nthreads.h and gmx_thread_affinity.h to...	commit \| commitdiff \| tree
2015-11-06	Teemu Murtola	Move PBC enums to pbc.*	commit \| commitdiff \| tree
2015-11-06	Teemu Murtola	Move ns.h and nsgrid.h to mdlib/	commit \| commitdiff \| tree
2015-11-06	Teemu Murtola	Move force.h and vsite.h into mdlib/	commit \| commitdiff \| tree
2015-11-05	Teemu Murtola	Move types/rgb.h to fileio/	commit \| commitdiff \| tree
2015-11-04	Teemu Murtola	Merge "Merge branch release-5-1"	commit \| commitdiff \| tree
2015-11-03	Teemu Murtola	Update build scripts to match releng refactoring	commit \| commitdiff \| tree
2015-11-02	Teemu Murtola	Replace boost::exception_ptr with std::exception_ptr	commit \| commitdiff \| tree
2015-11-01	Teemu Murtola	Remove remaining scoped_ptrs	commit \| commitdiff \| tree
2015-11-01	Teemu Murtola	Remove more scoped_ptr uses	commit \| commitdiff \| tree
2015-10-28	Teemu Murtola	Remove unused TrajectoryAnalysisModule code	commit \| commitdiff \| tree
2015-10-27	Teemu Murtola	Additional checks for selection input	commit \| commitdiff \| tree
2015-10-26	Teemu Murtola	Remove some boost::scoped_ptr uses	commit \| commitdiff \| tree
2015-10-25	Teemu Murtola	Fix missing help text for trajectory analysis tools	commit \| commitdiff \| tree
2015-10-24	Teemu Murtola	Change some shared_ptrs back to unique_ptr	commit \| commitdiff \| tree
2015-10-22	Teemu Murtola	Additional normalization options for gmx rdf	commit \| commitdiff \| tree
2015-10-22	Teemu Murtola	Use include_directories(SYSTEM ...) consistently	commit \| commitdiff \| tree
2015-10-22	Teemu Murtola	Clean up and improve fatal error handling	commit \| commitdiff \| tree
2015-10-19	Teemu Murtola	Split EnumIntOption from StringOption	commit \| commitdiff \| tree
2015-10-14	Teemu Murtola	Make bash completions work with bash --posix	commit \| commitdiff \| tree
2015-10-13	Teemu Murtola	Improve documentation and tests for refdata	commit \| commitdiff \| tree
2015-10-12	Teemu Murtola	Hide implementation details from cmdlinerunner.h	commit \| commitdiff \| tree
2015-10-12	Teemu Murtola	Improve gmx sasa tests and clean up -or handling	commit \| commitdiff \| tree
2015-10-11	Teemu Murtola	Remove obsolete build scripts	commit \| commitdiff \| tree
2015-10-08	Teemu Murtola	Remove unused error handling code	commit \| commitdiff \| tree
2015-10-05	Teemu Murtola	Make using C++ type with snew() a compiler error	commit \| commitdiff \| tree
2015-10-05	Teemu Murtola	More detailed error message for missing files	commit \| commitdiff \| tree
2015-10-03	Teemu Murtola	Silence Python detection on CMake rerun	commit \| commitdiff \| tree
2015-10-03	Teemu Murtola	Merge branch release-5-1 into master	commit \| commitdiff \| tree
2015-10-03	Teemu Murtola	Minor cleanup in gmx insert-molecules	commit \| commitdiff \| tree
2015-10-03	Teemu Murtola	Use AtomsBuilder in gmx insert-molecules	commit \| commitdiff \| tree
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
2015-10-03	Teemu Murtola	Move reusable code into SelectionOptionBehavior	commit \| commitdiff \| tree
2015-10-03	Teemu Murtola	Add --ref-data update-changed	commit \| commitdiff \| tree
2015-10-03	Teemu Murtola	Make cmdlinerunner.cpp use ICommandLineOptionsModule	commit \| commitdiff \| tree
2015-10-02	Teemu Murtola	Fix -seltype option for C++ tools	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	Teemu Murtola	Enable time unit and selections in ICommandLineOptionsModule	commit \| commitdiff \| tree
2015-10-01	Teemu Murtola	Convert nb_free_energy.c to C++	commit \| commitdiff \| tree
2015-10-01	Teemu Murtola	Move mdoutf and trajectory_writing to mdlib	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	Teemu Murtola	More headers out of legacyheaders	commit \| commitdiff \| tree
2015-09-26	Teemu Murtola	Remove types/membedt.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
2015-09-25	Teemu Murtola	Remove some extern "C" declarations	commit \| commitdiff \| tree
2015-09-22	Teemu Murtola	Move oenv.* to fileio/	commit \| commitdiff \| tree
2015-09-22	Teemu Murtola	Reduce use of output_env_t from types/oenv.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
2015-09-18	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
2015-09-11	Teemu Murtola	Build script for coverage	commit \| commitdiff \| tree
2015-09-10	Teemu Murtola	Run clang analysis for test code	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	Reduce coupling between refdata and libxml2	commit \| commitdiff \| tree
2015-09-08	Teemu Murtola	Refactor TestReferenceData lifetime management	commit \| commitdiff \| tree
2015-09-01	Teemu Murtola	Build scripts for new releng	commit \| commitdiff \| tree
2015-08-29	Teemu Murtola	Remove separate title parameter for read_tps_conf()	commit \| commitdiff \| tree
2015-08-29	Teemu Murtola	Fix memory leaks in read_tps_conf() and some callers	commit \| commitdiff \| tree
2015-08-28	Teemu Murtola	Remove read_stx_conf() and get_stx_coordnum() uses	commit \| commitdiff \| tree
2015-08-15	Teemu Murtola	Merge "Merge branch release-5-1 into master"	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
2015-07-25	Teemu Murtola	Extract IOptionsContainer from Options	commit \| commitdiff \| tree
2015-07-24	Teemu Murtola	Rename trnio routines	commit \| commitdiff \| tree
2015-07-24	Teemu Murtola	Rename trnio.* to trrio.*	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
2015-07-18	Teemu Murtola	Move Options::setDescription() elsewhere	commit \| commitdiff \| tree
2015-07-18	Teemu Murtola	Change naming convention for C++ interfaces	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
2015-07-07	Teemu Murtola	Wrap uses of thread_mpi/mutex.h	commit \| commitdiff \| tree
2015-07-05	Teemu Murtola	Improve gmx help -export Sphinx rebuild behavior	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
2015-07-04	Teemu Murtola	Bump various version numbers	commit \| commitdiff \| tree
2015-07-04	Teemu Murtola	Make some unit tests use mock file output	commit \| commitdiff \| tree
2015-07-02	Teemu Murtola	Convert gmxfio to C++	commit \| commitdiff \| tree
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