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path: root/src/indexamajig.c
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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.
2019-01-03indexamajig: Return non-zero exit status if no patterns were processedThomas White
2018-12-03indexamajig: Add --wait-for-fileThomas White
2018-11-09Remove ununused variableThomas White
2018-10-18indexamajig: Fix --spectrum-file optionThomas White
2018-09-10Fussiness / formattingThomas White
2018-09-10indexamajig: read pink beam spectrum from fileAlexandra Tolstikova
2018-07-10indexamajig: Move into temporary folder when probing and preparing indexing ↵Thomas White
methods
2018-06-20Restore help about secondary Miller indicesThomas White
2018-06-20FormattingThomas White
2018-06-20Finish removing "selector"Thomas White
2018-06-18indexamajig: Tidy up --helpThomas White
2018-06-18Get rid of "selector"Thomas White
2018-06-18Remove tmp_enumThomas White
2018-06-18Add interface to XGANDALF indexerYaroslav Gevorkov
2018-05-30Use only one min-snr optionThomas White
2018-05-30Changed parameter window-radius -> local-bg-radiusYaroslav Gevorkov
2018-05-30Changed sig_fac to min_snrYaroslav Gevorkov
2018-05-25Delete obsolete include and variableYaroslav Gevorkov
2018-05-25Change getopt numbers to avoid overlap with charsYaroslav Gevorkov
2018-05-24Formatting in --helpThomas White
2018-05-24Fix typos in helpThomas White
2018-05-24Update authorship and copyright datesThomas White
2018-05-24Add "peakfinder9"Yaroslav Gevorkov
2018-05-17Merge branch 'tom/cmake'Thomas White
2018-05-04Expand warning about --push-res without rescutThomas White
2018-05-04Put list of indexing methods into stream headerThomas White
Needed for when the methods are auto-determined.
2018-04-20Restore peak alignment check and unset multi-lattice indexing as defaultThomas White
Unfortunately, they seem to be severely reducing data quality. Partially reverts 60c48f3876b0d3c30bf729ce691dbd3f56665c4c
2018-03-13Nicer way of getting Git revisionThomas White
This will need a separate way to create the official releases (which shouldn't have Git revisions attached)
2018-02-27indexamajig: Add --overpredictThomas White
2018-02-08FormattingThomas White
2018-02-08Fix indexamajig help formatting.Kenneth R. Beyerlein
2018-02-08Changed the naming of felix options and variables to make them more obvious.Kenneth R. Beyerlein
2018-02-08Change Felix min-uniqueness paramter name to max-uniqueness.Kenneth R. Beyerlein
2018-02-08Add Felix option felix-max-inter-angleKenneth R. Beyerlein
2018-02-08Make felix-domega optionKenneth R. Beyerlein
2017-12-12indexamajig: Actually rename serial-offset to serial-startThomas White
2017-12-12indexamajig: Rename --serial-offset to --serial-startThomas White
Because "offset" sounds like it will add the argument to the serial numbers, i.e. --serial-offset=500 would start at 501. Actually, you just give the first serial number you'd like.
2017-12-12indexamajig: Add --serial-offsetThomas White
2017-10-27Fix Felix tth options typo.Kenneth R. Beyerlein
2017-10-27Merge branch 'tom/simpler_felix'Thomas White
2017-10-18indexamajig: Auto-detection of available indexing methodsThomas White
2017-10-12indexamajig: Simplify Felix optionsThomas White
2017-10-02indexamajig: Tidy up --helpThomas White
2017-10-02indexamajig: Add missing documentation for --check-peaksThomas White
2017-09-22indexamajig: Avoid segfault when no unit cell givenThomas White
2017-09-21indexamajig: Hide indexing setup messages if we are not indexing anythingThomas White
2017-09-17Fix logic for new indexing optionsThomas White
2017-09-17indexamajig: --help documentation for new indexing optionsThomas White
2017-09-15Simplify indexing optionsThomas White
mosflm-cell-nolatt-multi-refine-bad-retry.... it's all getting a bit too much. This commit removes all the options from the indexing methods except for the prior information flags (cell/nocell and latt/nolatt). All the other options are now given at the top level with new indexamajig options, e.g. --no-multi and --no-retry. They are applied to all the methods, with no option to (say) use retry for one method and not for another. This also makes the "peak alignment test" default to OFF, and multi-lattice indexing ON. I think that the prediction refinement does a good enough job of checking the validity of indexing solutions, allowing us to turn off the alignment check which filters out most multi-lattice solutions.
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