CrystFEL - Data processing for serial crystallography

Age	Commit message (Collapse)	Author
2017-09-27	remove_flagged_crystals(): Remove multiple bad crystals	Thomas White
	A silly bug
2017-09-21	Improve error message when using CBF files and a multi-event geometry	Thomas White

2017-09-07	remove_flagged_crystals(): Return the number of crystals removed	Thomas White

2017-06-23	Accept either cbf/cbf.h or cbflib/cbf.h	Thomas White
	You get cbflib/cbf.h if you install CBFlib from source, and cbf/cbf.h if using the package manager in Fedora, probably other systems as well. We definitely don't want to include the cbf or cbflib folder in the include path, because CBFlib may bring its own HDF5 headers, which we don't want to touch with a bargepole.
2017-06-21	Don't compile CBF stuff without CBFlib	Thomas White

2017-05-09	Allow reading CBF without geometry (only for simple viewing)	Thomas White

2017-05-09	Add missing checks	Thomas White

2017-05-05	Show filename of CBF file if it can't be read	Thomas White

2017-05-05	Fill in photon energy, clen and adu for CBFs	Thomas White
	This needed a bit of reorganisation and clarification of who is repsonsible for loading what. The low-level file loaders, e.g. hdf5_read and hdf5_read2 in hdf5-file.c or cbf_read in image.c, are responsible. There is a helper function adjust_centering_for_rail in detector.h which they can use. It seems like this could be done more cleanly at the imagefile layer. However, we need to make sure that the "old" hdfile API still works on its own, even when not accessed via the new imagefile API.
2017-05-05	Read CBF data	Thomas White

2017-05-03	Detect CBF files, interface bits	Thomas White

2017-05-03	HDF5 reading under new API	Thomas White

2017-05-02	Skeleton image file API	Thomas White

2017-05-02	Initial CBF stuff	Thomas White

2017-03-13	Ask for C99 in configure.ac, remove weird C99 declarations	Thomas White

2016-07-01	No more slab-relative coordinates in libcrystfel	Thomas White

2016-01-29	Perform prediction refinement straight after indexing	Thomas 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.
2015-12-18	"Retry" mechanism for indexing	Thomas White
	This increases the indexing rate a bit in situations where there are lots of weak peaks which, although they may be real, don't help indexing. The weakest 10% of peaks get cut out and the indexing re-run. This also allows multiple hits to be indexed, using the "inelegant peak subtraction method", by retrying indexing in the same way after deleting peaks which are accounted for by the lattice just found.
2015-01-27	Formatting	Valerio Mariani

2015-01-27	Add image_reflection_closest()	Valerio Mariani

2014-09-05	Multi-event mode	Valerio Mariani

2014-07-24	Fixes closest feature detection bug	Valerio Mariani

2014-01-21	Fussiness	Thomas White

2014-01-21	Fixed memory leaks in free_all_crystals function	Kenneth Beyerlein

2013-02-18	Read GrainSpotter's output properly	Thomas White

2013-02-05	WIP on bringing programs up to date	Thomas White

2012-03-12	Update copyright notices to show actual contribution years	Thomas White

2012-03-09	Update licence notices in line with recommendations from TT	Thomas White

2012-02-22	Fix bounds of image feature number (spotted by Chuck)	Thomas White

2012-02-22	GPLv3 boilerplate comments	Thomas White

2012-02-22	Add #define _ISOC99_SOURCE to get INFINITY and NAN	Thomas White

2012-02-22	Introduce "libcrystfel"	Thomas White