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Remove Options::isSet()
2015-07-25 Teemu MurtolaRemove Options::isSet()
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2015-07-25 Teemu MurtolaAdd basic grouping to Options
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2015-07-25 Teemu MurtolaExtract IOptionsContainer from Options
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2015-07-24 Teemu MurtolaRename trnio routines
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2015-07-24 Teemu MurtolaRename trnio.* to trrio.*
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2015-07-23 Teemu MurtolaSplit espresso I/O routines from confio.cpp
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2015-07-22 Teemu MurtolaSplit gro I/O routines from confio.cpp
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2015-07-22 Teemu MurtolaSplit g96 I/O routines from confio.cpp
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2015-07-22 Teemu MurtolaMove read_tps_conf() to confio.h
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2015-07-22 Teemu MurtolaAdd basic tests for reading/writing structure files
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2015-07-20 Teemu MurtolaMerge release-5-0 into release-5-1
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2015-07-18 Teemu MurtolaMove Options::setDescription() elsewhere
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2015-07-18 Teemu MurtolaChange naming convention for C++ interfaces
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2015-07-10 Teemu MurtolaMore gmxfio simplification
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2015-07-09 Teemu MurtolaFix -deffnm -multi[dir]
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2015-07-07 Teemu MurtolaWrap uses of thread_mpi/mutex.h
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2015-07-05 Teemu MurtolaImprove gmx help -export Sphinx rebuild behavior
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2015-07-04 Teemu MurtolaFix error wrapping in interactive selection input
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2015-07-04 Teemu MurtolaTests for interactive selection input
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2015-07-04 Teemu MurtolaFix copy-paste bug in gmx distance
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2015-07-04 Teemu MurtolaRefactor for testing interactive selection input
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2015-07-04 Teemu MurtolaRemove gmx::File (except for File::exists())
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2015-07-04 Teemu MurtolaReplace direct uses of gmx::File with streams
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2015-07-04 Teemu MurtolaBump various version numbers
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2015-07-04 Teemu MurtolaMake some unit tests use mock file output
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2015-07-02 Teemu MurtolaConvert gmxfio to C++
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2015-07-02 Teemu MurtolaRemove status messages about Sphinx detection
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2015-07-02 Teemu MurtolaClean up gmxfio includes
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2015-07-02 Teemu MurtolaReorder code within gmxfio
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2015-07-02 Teemu MurtolaFurther gmxfio cleanup related to xdr handling
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2015-07-02 Teemu MurtolaMinor include sorting changes
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2015-07-01 Teemu MurtolaClean up unused code from gmxfio
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2015-06-29 Teemu MurtolaOnly accept exact matches for selection keywords
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2015-06-29 Teemu MurtolaMake some unit tests skip file system access
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2015-06-27 Teemu MurtolaDocument tool changes in 5.1
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2015-06-25 Teemu MurtolaMove documentation on tool changes from wiki
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2015-06-17 Teemu MurtolaMinor clean up for refdata.*
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2015-06-17 Teemu MurtolaImprove logic for automatic selection names
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2015-06-16 Teemu MurtolaFix broken links from the old flow chart
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2015-06-12 Teemu MurtolaUpdate help output
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2015-06-12 Teemu MurtolaImprove uncrustify Jenkins builds
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2015-06-12 Teemu MurtolaInitial docs for Jenkins integration
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2015-06-12 Teemu MurtolaInitial build system documentation in dev guide
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2015-06-12 Teemu MurtolaImprove Jenkins docs build
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2015-06-12 Teemu MurtolaExtend source layout description in dev guide
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2015-06-11 Teemu MurtolaScript for Jenkins documentation build
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2015-06-09 Teemu MurtolaMisc. improvements to docs build system
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2015-06-09 Teemu MurtolaAdd description of relocatable binaries
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2015-06-09 Teemu MurtolaResolve one TODO for command line help tests
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2015-06-09 Teemu MurtolaImprove user guide text for command line interface
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2015-06-04 Teemu MurtolaFix potential FPE in selection tests
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2015-06-04 Teemu MurtolaRefactor rst parsing for console output
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2015-06-04 Teemu MurtolaReplace gromacs.7 man page with gmx.1
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2015-06-04 Teemu MurtolaDocument current help formatting
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2015-06-04 Teemu MurtolaBasic support for titles within tool help
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2015-06-04 Teemu MurtolaSupport rst tables in tool help texts
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2015-05-28 Teemu MurtolaImprove lists in user guide for selections
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2015-05-28 Teemu MurtolaAdditional selection examples
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2015-05-25 Teemu MurtolaOverview docs for analysis nbsearch
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2015-05-24 Teemu MurtolaInclude selection keyword details in user guide
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2015-05-22 Teemu MurtolaAllow any order for sections in 'gmx help -export'
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2015-05-22 Teemu MurtolaBase to get all 'gmx help' contents to user guide
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2015-05-22 Teemu MurtolaMerge release-5-0 into master
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2015-05-22 Teemu MurtolaAvoid crash with empty reference for 'same as' selection
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2015-05-22 Teemu MurtolaAdd subsection depth to HelpWriterContext
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2015-05-22 Teemu MurtolaAdd note about atom order in selections
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2015-05-21 Teemu MurtolaRestructure CommandLineModuleManager tests
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2015-05-20 Teemu MurtolaFix handling of real-valued 'to' selection ranges
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2015-05-20 Teemu MurtolaFix dependencies for regression test custom target
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2015-05-20 Teemu MurtolaSome tests for 'gmx help -export rst'
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2015-05-18 Teemu MurtolaMerge "Merge branch origin/release-5-0"
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2015-05-17 Teemu MurtolaMove a few defines to buildinfo.h
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2015-05-13 Teemu MurtolaRemove remaining old-html content
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2015-05-11 Teemu MurtolaUse single variable for expected Doxygen version
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2015-05-10 Teemu MurtolaMove some testutils and overview docs to dev guide
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2015-05-10 Teemu MurtolaPrint correct order for include order/style issues
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2015-05-10 Teemu MurtolaImprove build system for Sphinx
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2015-05-10 Teemu MurtolaConvert developer manual to rst
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2015-05-05 Teemu MurtolaAvoid rounding errors affecting results in one test
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2015-04-24 Teemu MurtolaAdd section on naming conventions to dev manual
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2015-02-13 Teemu MurtolaReplace more [BR] with rst bullet lists
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2015-02-13 Teemu MurtolaReplace some [BR] in help texts with rst literals
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2015-02-13 Teemu MurtolaMove flow chart from old-html to Sphinx
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2015-02-13 Teemu MurtolaMake (most) HTML links to file formats work again
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2015-02-13 Teemu MurtolaConvert file format descriptions to rst
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2015-02-13 Teemu MurtolaGenerate man pages through Sphinx
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2015-02-13 Teemu MurtolaReplace tool HTML help with Sphinx-generated docs
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2015-02-07 Teemu MurtolaSupport more complex fixed position selections
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2015-01-29 Teemu MurtolaAdd input file options that accept missing files
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2015-01-24 Teemu MurtolaRemove old selection parser error handling code
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2015-01-24 Teemu MurtolaImprove selection error messages (use exceptions)
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2015-01-23 Teemu MurtolaIgnore test-only dependency cycles
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2015-01-20 Teemu MurtolaMake data file path search more reusable
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2015-01-20 Teemu MurtolaConvert forcefield search to C++
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2015-01-19 Teemu MurtolaRemove AnalysisNeighborhood::setUseBoundingBox()
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2015-01-17 Teemu MurtolaMerge "Merge branch release-5-0"
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2015-01-08 Teemu MurtolaRefactor logic for finding share/top/ files
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2015-01-08 Teemu MurtolaClosed some .xvg files that were being left open
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2015-01-07 Teemu MurtolaCustom program context for unit tests
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2015-01-07 Teemu MurtolaSplit unit test init from testoptions.cpp
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