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2018-03-12Remove autotoolsThomas White
2018-02-27indexamajig: Add --overpredictThomas White
2018-02-08Changed the naming of felix options and variables to make them more obvious.Kenneth R. Beyerlein
2017-12-12indexamajig: Add --serial-offsetThomas White
2017-10-27Merge branch 'tom/simpler_felix'Thomas White
2017-10-19Add read_reflections_2() to APIThomas White
New version for reading the symmetry as well
2017-10-19Remove read_reflections_from_file() from APIThomas White
See c0ce8fb4 for the rationale behind this.
2017-10-12indexamajig: Simplify Felix optionsThomas White
2017-10-12Remove write_reflections_to_file() from APIThomas White
It's there because it used to be used to write the reflections into the stream. Therefore there was a need for a function to write a bare list of reflections to a file, with no headers. Since then, the stream and merged reflection file formats have diverged, so there's no use for this other than to confuse people.
2017-10-02indexamajig(1): Add --temp-dirThomas White
2017-10-02indexamajig: Add missing documentation for --check-peaksThomas White
2017-09-21Group the options in indexamajig(1) according to processing stageThomas White
2017-09-21Update man page for new indexing optionsThomas White
2017-09-15hdfsee(1): Document --rigid-groupsThomas White
2017-07-24This is CrystFEL 0.6.30.6.3Thomas White
2017-07-24Update docsThomas White
2017-07-20indexamajig(1): Give default values for TakeTwo optionsThomas White
2017-07-07Documentation for TakeTwo indexamajig optionsThomas White
2017-07-05Update docsThomas White
2017-07-05Rearrange quaternion declarations so that gtk-doc can copeThomas White
The utils file contains two gtk-doc sections, "utils" and "quaternion", with a change of section halfway through. It seems that gtk-doc doesn't like it if the declarations are all mixed together.
2017-06-27indexamajig: Add --no-non-hits-in-streamThomas White
2017-03-31Offset peak locations from HDF5 or CXI files by 0.5,0.5Thomas White
CrystFEL considers all peak locations to be distances from the corner of the detector panel, in pixel units, consistent with its description of detector geometry. In contrast, Cheetah considers the peak locations to be pixel indices in the data array. Therefore, a half-pixel offset is needed when importing the peak lists. For users who need the old behaviour, this commit adds a new option indexamajig --no-half-pixel-shift to deactivate this offset.
2017-03-24Merge branch 'valerio/peakfinder8'Thomas White
2017-03-13Added information about max_num_peaks to documentationValerio Mariani
2017-03-10Added peakfinder8 information to the indexamajig man pageValerio Mariani
2017-03-08compare_hkl: Fix combination of sigma(I) values for d1sig and d2sigThomas White
2017-03-08compare_hkl: Fix documentationThomas White
2017-03-08Add example Eiger geometry fileThomas White
2017-02-17Update docs (add funding acknowledgements)Thomas White
2016-11-07render_hkl: Show max value, and improve documentation for --scale-topThomas White
2016-08-11Take rail direction as a vector rather than individual x,y,z valuesThomas White
Just to make it more consistent with fs/ss directions
2016-08-10Allow peak table location to be given in geometry fileThomas White
2016-08-09Update manualThomas White
2016-04-12Merge branch 'tom/testing'Thomas White
2016-04-01Add adu_per_photon (distinct from adu_per_eV)Thomas White
2016-03-31Handle placeholders in --hdf5-peaksThomas White
2016-03-21This is CrystFEL 0.6.20.6.2Thomas White
2016-03-18Update docsThomas White
2016-03-18Update docsThomas White
2016-03-01indexamajig: Wall clock profilingThomas White
2016-02-12Update manualThomas White
2016-02-05Update docsThomas White
2016-01-08Make indexing "retry" and "multi" optionalThomas White
2015-12-17hdfsee: Update docsThomas White
2015-12-15Update paper reference in geoptimiser man pageThomas White
2015-11-19partialator: Set default push-res to infinityThomas White
Not needed now that the scaling is more stable
2015-11-18Documentation fixesThomas White
2015-11-17Update docsThomas White
2015-11-13Fix bug in process_hkl documentationThomas White
2015-10-27Update docs for pattern_simThomas White