CrystFEL - Data processing for serial crystallography

Age	Commit message (Collapse)	Author
2012-02-22	indexamajig: Derive Zaefferer window size from peak separation in geometry ↵	Thomas White
	description
2012-02-22	Make sure redundancy gets set to zero when integrating peaks on ignored panels	Thomas White

2012-02-22	Whitespace	Thomas White

2012-02-22	add 3 ring background estimate; change default integration radius to 3	Andrew Martin

2012-02-22	calculate background with 3 rings	Andrew Martin

2012-02-22	Set redundancy to zero if peak can't be integrated	Thomas White
	This should fix the reappearance of "no_index-ed" peaks in stream files.
2012-02-22	Add half a pixel to coordinates when integrating peak	Thomas White
	Choose whichever one of these reasons makes most sense to you: 1. The centroid operation gives the position as a "pixel index", but we really want it as a distance in pixels from the corner. 2. If all the intensity is in one pixel, the best estimate of where the photons hit is in the middle of the pixel, not its corner.
2012-02-22	Get rid of integrate_pixels()	Thomas White

2012-02-22	Banish find_projected_peaks()	Thomas White

2012-02-22	Fussiness	Thomas White

2012-02-22	Tidy up peak integration and update unit test	Thomas White

2012-02-22	Make background subtraction optional	Thomas White

2012-02-22	Fussiness	Thomas White

2012-02-22	Formatting	Thomas White

2012-02-22	Tidy up integration and ESD calculation, and pass checks	Thomas White

2012-02-22	Added background subtraction and sigma	Andrew Martin

2012-02-22	Fussiness	Thomas White

2012-02-22	Simplify reflection integration logic	Thomas White

2012-02-22	Allow default values in geometry files, and set integration radius seperately	Thomas White

2012-02-22	Fix a Grand Muppetry in integrate_peak()	Thomas White

2012-02-22	Improve bad pixel handling	Thomas White

2012-02-22	Don't count hot pixels	Thomas White
	The hot pixel rejection stuff was removed a while ago
2012-02-22	More reduction of verbosity	Thomas White

2012-02-22	Set redundancy=1 for newly measured intensities	Thomas White

2012-02-22	indexamajig: Reduce verbosity a lot	Thomas White

2012-02-22	More of s/x/fs/, s/y/ss/	Thomas White

2012-02-22	First part of stream rework	Thomas White

2012-02-22	Change x,y to fs,ss	Thomas White

2012-02-22	Move bad region check to integrate_peak()	Thomas White

2012-02-22	Remove is_hot_pixel()	Thomas White

2012-02-22	Do peak integration in double precision	Thomas White
	This avoids some integer overflow problems
2012-02-22	Throw out detected peaks in bad regions	Thomas White

2012-02-22	Update copyright dates	Thomas White

2012-02-22	More new geometry fixes	Thomas White

2012-02-22	First round of fallout from new geometry format	Thomas White

2012-02-22	Detect peaks in each panel individually	Thomas White
	This avoids straying off a panel when doing the search.
2012-02-22	Fix badrow direction	Thomas White

2012-02-22	s/min_x/min_fs/ and so on	Thomas White

2012-02-22	Allow badrow_direction = -	Thomas White

2012-02-22	Make find_projected_peaks() behave like find_intersections()	Thomas White
	Also make sure output_intensities() deals only with integration
2012-02-22	The per-shot wavelength is needed for scaling and post refinement	Thomas White

2012-02-22	Work on making iteration work	Thomas White

2012-02-22	Finish implementation of binary tree	Thomas White

2012-02-22	Start work on binary tree	Thomas White

2012-02-22	Remove solid angle correction	Thomas White
	It's never correct when using "bucket" integration, and always correct when using "pixel" integration, so don't give the option.
2012-02-22	Fix silly bug in integrate_peak()	Thomas White

2012-02-22	Fix integrate_peak() problems which caused incorrect peak positions	Thomas White

2012-02-22	Increase MAX_CPEAKS	Thomas White

2012-02-22	indexamajig: Take minimum gradient on command line	Thomas White

2012-02-22	Tidy up previous commit	Thomas White