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AgeCommit message (Collapse)Author
2016-08-16Add reflist_add_command_and_version()Thomas White
2016-08-16Read and write RefList notes to reflection list filesThomas White
2016-08-16Add notes to RefListThomas 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
2016-08-11Use whole of 'value' field when parsing top-level geometry optionsThomas White
This is a long-standing bug, which we got away with up to now because top-level options with more than just a single number or location were rare or possibly never used at all.
2016-08-10Ensure z component is set in dir_conv()Thomas White
2016-08-10Set default clen_for_centeringThomas White
If the rail vector is +z (the default), then the value doesn't matter. However, it still mustn't be NaN.
2016-08-10Allow peak table location to be given in geometry fileThomas White
2016-08-09Remove debugging outputThomas White
2016-08-09Add rail direction to geometryThomas White
2016-07-29Use z components in predictionThomas White
2016-07-29Add z direction to panel directions and update get_q_for_panel()Thomas White
2016-07-29Set image->dp in hdf5_read()Thomas White
2016-07-28Check return values when writing to Mosflm or DirAxThomas White
2016-07-01Provide dataspace when reading data, mask and satmapThomas White
2016-07-01Remove slab-relative coordinates from geoptimiserThomas White
2016-07-01Store all "=" fields from stream, not just HDF5 onesThomas White
2016-07-01No more slab-relative coordinates in libcrystfelThomas White
2016-05-20Fixed problem with parsing of geometry fileValerio Mariani
2016-05-19integrate_peak(): Trap if pk_total=0Thomas White
2016-04-21Use correct dataspace when reading HDF5 stringsThomas White
2016-04-13Fix event enumerationThomas White
I broke it. Sorry about that.
2016-04-13FormattingThomas White
2016-04-12Merge branch 'tom/testing'Thomas White
2016-04-01Add adu_per_photon (distinct from adu_per_eV)Thomas White
2016-04-01Remove "Too few paired peaks" warningsThomas White
We know that the prediction refinement is working. These "warnings" are really just synonyms for "indexing failed for this pattern". No big deal.
2016-04-01Fix silly bugs and tidy upThomas White
2016-03-31Handle placeholders in --hdf5-peaksThomas White
2016-03-24Fussiness/formattingThomas White
2016-03-24Simplify event enumeration a bitThomas White
2016-03-24event_path_placeholder_subst(): Simplify a bitThomas White
2016-03-24Don't use %C conversionThomas White
2016-03-15write_detector_geometry_2(): Clean upThomas White
Fixes CRYS-138: hdfsee wipes geometry if new file is saved over old one
2016-03-01mark_resolution_range_as_bad(): Skip if nothing to doThomas White
This speeds up indexamajig quite a bit
2016-02-29More output when reading reflections failedThomas White
2016-02-29Don't predict 000Thomas White
2016-02-29asdf: Check array bounds before usingThomas White
2016-02-29FormattingThomas White
2016-02-23Fixed bug with memspace size in write_locationValerio Mariani
2016-02-09Fix a NULL dereferenceThomas White
2016-02-05felix: fix seg faultKen Beyerlein
2016-02-03Set initial prediction parameters even when not doing prediction refinementThomas White
Silly bug fix. Beamtime programming FTL.
2016-01-30Revert "Allow peak check to pass just by accounting for more than 5 peaks"Thomas White
This reverts commit 693aae4d2219632d15174fe4c4f9d0526d6166c4. Reverting because this allows a very large number (~100% "indexing rate") of false solutions to get through simply by slackening the peak detection parameters. Since we know that "-multi" indexing doesn't work well at the moment, let's fix this properly later.
2016-01-30indexamajig: Restore --no-refineThomas White
Adds yet another indexing option...
2016-01-29Perform prediction refinement straight after indexingThomas White
This allows indexing to be attempted again (either a new method or with "retry") if the prediction refinement fails, increasing overall indexing rate. Side-effect: there are some hoops which would need to be jumped through to store the profile radius before refinement and hence enable scripts/plot-predict-refine to work. For now, we'll ignore this as it's clear that the prediction refinement is working.
2016-01-29felix: return the number of crystalsThomas White
2016-01-29Use a fresh copy of the peak list for each new indexing methodThomas White
2016-01-27asdf: Don't assume that the number of peaks == image_feature_count()Thomas White
Yes, really. Sorry about the crappy API.
2016-01-15Use only the first two dimensions when using an external bad pixel mask or ↵Thomas White
saturation map
2016-01-15Set indexing -nomulti as the default, and add a warningThomas White
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