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2019-03-12Rename intmat_intvec_mult to transform_indicesThomas White
2019-03-12Get rid of two unused functionsThomas White
2019-03-12TakeTwo: Restore correct matrix multiplication for solutionThomas White
2019-03-11TakeTwo: take change in IntegerMatrix notation into accountThomas White
2019-03-11Remove commented codeThomas White
2019-03-11Get rid of cell_transform_gsl_reciprocal()Thomas White
It's confusing to have matrices acting on both real and reciprocal vectors. Let's standardise instead on transformations always applying to real-space cells. It was only used in one place.
2019-03-11Change matrix notation to match ITA chapter 5.1Thomas White
2019-03-11Add a commentThomas White
2019-03-11Single point of truth for matrix memory layoutThomas White
2019-03-11Fix typoThomas White
2019-03-11Add remaining centering types and finalise centering determinationThomas White
2019-03-11Automatic centering determination after transformationThomas White
2019-03-11Initial centering determinationThomas White
2019-03-11More tidying up of cell comparisonThomas White
2019-03-11Find the best cell match, not just the first oneThomas White
2019-03-11Tidy up cell comparisonThomas White
2019-03-11Keep track of the "un-centering" matrix, as well as the "centering"Thomas White
This makes it easy to reverse the transformation, if required, which it is when comparing centered cells.
2019-03-11Add rtnl_mtx_identity()Thomas White
2019-03-11New way of doing cell comparisons, similar to match_cell()Thomas White
2019-03-11Fix tolerances (again)Thomas White
2019-03-11Better handling of multiple symop errorThomas White
2019-03-11Implement parse_symmetry_operationsThomas White
2019-03-11Be clear about whether functions need rational or integer transformationsThomas White
2019-03-11Add rtnl_mtx_det() and rtnl_mtx_mult()Thomas White
2019-03-11Symmetry operation parser using Flex/BisonThomas White
2019-03-11Add new rational number libraryThomas White
2019-03-11Use IntegerMatrix for all unit cell transformationsThomas White
Get rid of UnitCellTransformation, a thin wrapper which didn't do anything.
2019-03-11Simplify the output of cell_print()Thomas White
2019-03-11Change horribly confusing names of unit cell comparison functionsThomas White
cells_are_similar -> compare_cell_parameters_and_orientation compare_cells -> compare_reindexed_cell_parameters_and_orientation cell_tool.c:cells_the_same -> cellutils.c:compare_cell_parameters All comparisons now done in real space, checking that centering is the same, and without uncentering anything.
2019-03-11Remove cells_are_similar() from APIThomas White
There are two functions with this name. Avoid confusion.
2019-03-11cell_tool: Use libcrystfel cells_are_similar() functionThomas White
2019-03-06indexamajig: Rename --min-gradient to --min-squared-gradientThomas White
The eventual aim of this is to deprecate the "--min-gradient" option, resolving the long-standing confusion about whether this option is the gradient or the squared gradient.
2019-03-01crystal_copy(): Make new copy of notes if non-NULLThomas White
2019-03-01Don't mask out entire image if bad pixel map can't be loadedThomas White
2019-01-30Make sure of string length in get_event_string()Thomas White
2019-01-30Re-write get_event_string()Thomas White
2019-01-29Fix some compiler warnings about string handlingThomas White
2019-01-29Fix a couple of memory leaksThomas White
2019-01-29DS9K compatibilityThomas White
2019-01-29Add multi_event_geometry() functionThomas White
2019-01-29Strip out CPU affinity stuffThomas White
This was from an early experiment when we were having performance problems on a big NUMA machine. It didn't help very much back then, and it certainly doesn't help much now. It's not worth maintaining the code or build system needed for this.
2019-01-28Remove #define _GNU_SOURCEThomas White
2019-01-28partialator: Fix multiple memory leaksThomas White
2019-01-24Say what path was being opened when event enumeration failsThomas White
2019-01-22TakeTwo: fix various memory leaksThomas White
2019-01-22Fix some small memory leaksThomas White
2019-01-03Use gzclose() instead of gzclose_r()Thomas White
The only downside to this is that the zlib library will be twice the size if statically linked into libcrystfel. Since we don't anticipate much use for static linking, and since the extra space is unlikely to be a serious problem anyway, this seems fine.
2018-12-18make_pixelmap: Use <input>.h5 as default output filenameThomas White
2018-12-04WhitespaceThomas White
2018-11-27xds: Tune indexing parametersThomas White
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