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Merge release-5-0 into release-5-1
2015-07-20
Teemu Murtola
Merge release-5-0 into release-5-1
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2015-07-09
Teemu Murtola
Fix -deffnm -multi[dir]
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2015-07-04
Teemu Murtola
Fix copy-paste bug in gmx distance
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2015-07-02
Teemu Murtola
Remove status messages about Sphinx detection
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2015-06-29
Teemu Murtola
Only accept exact matches for selection keywords
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2015-06-29
Teemu Murtola
Make some unit tests skip file system access
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2015-06-27
Teemu Murtola
Document tool changes in 5.1
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2015-06-25
Teemu Murtola
Move documentation on tool changes from wiki
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2015-06-17
Teemu Murtola
Minor clean up for refdata.*
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2015-06-17
Teemu Murtola
Improve logic for automatic selection names
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2015-06-16
Teemu Murtola
Fix broken links from the old flow chart
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2015-06-12
Teemu Murtola
Update help output
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2015-06-12
Teemu Murtola
Improve uncrustify Jenkins builds
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2015-06-12
Teemu Murtola
Initial docs for Jenkins integration
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2015-06-12
Teemu Murtola
Initial build system documentation in dev guide
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2015-06-12
Teemu Murtola
Improve Jenkins docs build
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2015-06-12
Teemu Murtola
Extend source layout description in dev guide
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2015-06-11
Teemu Murtola
Script for Jenkins documentation build
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2015-06-09
Teemu Murtola
Misc. improvements to docs build system
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2015-06-09
Teemu Murtola
Add description of relocatable binaries
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2015-06-09
Teemu Murtola
Resolve one TODO for command line help tests
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2015-06-09
Teemu Murtola
Improve user guide text for command line interface
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2015-06-04
Teemu Murtola
Fix potential FPE in selection tests
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2015-06-04
Teemu Murtola
Refactor rst parsing for console output
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2015-06-04
Teemu Murtola
Replace gromacs.7 man page with gmx.1
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2015-06-04
Teemu Murtola
Document current help formatting
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2015-06-04
Teemu Murtola
Basic support for titles within tool help
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2015-06-04
Teemu Murtola
Support rst tables in tool help texts
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2015-05-28
Teemu Murtola
Improve lists in user guide for selections
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2015-05-28
Teemu Murtola
Additional selection examples
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2015-05-25
Teemu Murtola
Overview docs for analysis nbsearch
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2015-05-24
Teemu Murtola
Include selection keyword details in user guide
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2015-05-22
Teemu Murtola
Allow any order for sections in 'gmx help -export'
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2015-05-22
Teemu Murtola
Base to get all 'gmx help' contents to user guide
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2015-05-22
Teemu Murtola
Merge release-5-0 into master
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2015-05-22
Teemu Murtola
Avoid crash with empty reference for 'same as' selection
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2015-05-22
Teemu Murtola
Add subsection depth to HelpWriterContext
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2015-05-22
Teemu Murtola
Add note about atom order in selections
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2015-05-21
Teemu Murtola
Restructure CommandLineModuleManager tests
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2015-05-20
Teemu Murtola
Fix handling of real-valued 'to' selection ranges
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2015-05-20
Teemu Murtola
Fix dependencies for regression test custom target
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2015-05-20
Teemu Murtola
Some tests for 'gmx help -export rst'
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2015-05-18
Teemu Murtola
Merge "Merge branch origin/release-5-0"
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2015-05-17
Teemu Murtola
Move a few defines to buildinfo.h
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2015-05-13
Teemu Murtola
Remove remaining old-html content
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2015-05-11
Teemu Murtola
Use single variable for expected Doxygen version
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2015-05-10
Teemu Murtola
Move some testutils and overview docs to dev guide
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2015-05-10
Teemu Murtola
Print correct order for include order/style issues
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2015-05-10
Teemu Murtola
Improve build system for Sphinx
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2015-05-10
Teemu Murtola
Convert developer manual to rst
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2015-05-05
Teemu Murtola
Avoid rounding errors affecting results in one test
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2015-04-24
Teemu Murtola
Add section on naming conventions to dev manual
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2015-02-13
Teemu Murtola
Replace more [BR] with rst bullet lists
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2015-02-13
Teemu Murtola
Replace some [BR] in help texts with rst literals
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2015-02-13
Teemu Murtola
Move flow chart from old-html to Sphinx
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2015-02-13
Teemu Murtola
Make (most) HTML links to file formats work again
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2015-02-13
Teemu Murtola
Convert file format descriptions to rst
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2015-02-13
Teemu Murtola
Generate man pages through Sphinx
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2015-02-13
Teemu Murtola
Replace tool HTML help with Sphinx-generated docs
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2015-02-07
Teemu Murtola
Support more complex fixed position selections
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2015-01-29
Teemu Murtola
Add input file options that accept missing files
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2015-01-24
Teemu Murtola
Remove old selection parser error handling code
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2015-01-24
Teemu Murtola
Improve selection error messages (use exceptions)
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2015-01-23
Teemu Murtola
Ignore test-only dependency cycles
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2015-01-20
Teemu Murtola
Make data file path search more reusable
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2015-01-20
Teemu Murtola
Convert forcefield search to C++
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2015-01-19
Teemu Murtola
Remove AnalysisNeighborhood::setUseBoundingBox()
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2015-01-17
Teemu Murtola
Merge "Merge branch release-5-0"
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2015-01-08
Teemu Murtola
Refactor logic for finding share/top/ files
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2015-01-08
Teemu Murtola
Closed some .xvg files that were being left open
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2015-01-07
Teemu Murtola
Custom program context for unit tests
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2015-01-07
Teemu Murtola
Split unit test init from testoptions.cpp
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2015-01-06
Teemu Murtola
Use analysis nbsearch for surface area calculation
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2015-01-06
Teemu Murtola
Use xvgrclose() for files opened with xvgropen()
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2015-01-05
Teemu Murtola
Support subset of rvec array as input for analysis...
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2015-01-05
Teemu Murtola
Minimal C++ replacement for rvec
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2015-01-05
Teemu Murtola
Clarify GMX_MPI management
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2015-01-03
Teemu Murtola
Minor selection clarifications
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2015-01-03
Teemu Murtola
Fix crash with 'z of ...' within an expression
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2015-01-02
Teemu Murtola
Update copyright year in copyrite.cpp
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2014-12-28
Teemu Murtola
Convert gmx-insert-molecules into proper C++ module
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2014-12-28
Teemu Murtola
Add helper for generic C++ command-line modules
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2014-12-18
Teemu Murtola
Rework gmx-solvate to use analysis nbsearch
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2014-12-17
Teemu Murtola
Make 'gmx sasa' calculation thread-safe
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2014-12-17
Teemu Murtola
Remove some backwards-compatibility glue for Jenkins
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2014-12-16
Teemu Murtola
Make 'gmx sasa' volume computation translation-invariant
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2014-12-15
Teemu Murtola
Use new XML format with cppcheck
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2014-12-14
Teemu Murtola
C++ interface for surface area calculation
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2014-12-11
Teemu Murtola
Convert gmx rdf to the C++ framework
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2014-12-10
Teemu Murtola
Fix misc. analysis neighborhood search issues
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2014-12-09
Teemu Murtola
Track locations for selection parsing products
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2014-12-08
Teemu Murtola
Rectangular grid for analysis nbsearch
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2014-12-06
Teemu Murtola
Simplify analysisdata parallelism model
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2014-12-05
Teemu Murtola
Improve selection parsing error reporting
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2014-12-05
Teemu Murtola
Non-periodic nbsearch with grid based on bounding box
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2014-12-04
Teemu Murtola
Move/add uncrustify documentation to dev manual
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2014-12-02
Teemu Murtola
Add 'gmx pairdist' tool as partial g_mindist replacement
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2014-12-02
Teemu Murtola
Analysis grid nbsearch for more cases
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2014-11-29
Teemu Murtola
Basic support for 'z of ...' selections
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2014-11-28
Teemu Murtola
Clarify memory management for selection values
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