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[git/dials] master: don't fail if s1 vector doesn't intersect any panels (5b8ddb1)
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DIALS Commit via DLS Jenkins |
Mon, 31 Oct 2016 13:54:45 +0000 |
87 lines |
[git/dials] master: bug fix (fc82345)
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DIALS Commit via DLS Jenkins |
Mon, 31 Oct 2016 12:15:13 +0000 |
79 lines |
[git/dials] master: Reset the z-coordinate of xyzobs.px.value and bbox in dials.stills_process. This fixes #226. (d9df22f)
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Mon, 31 Oct 2016 17:05:01 +0900 |
94 lines |
[git/dials] master: Allowed visualization of outputs from dials.stills_process (see #226 for details) (b44ad11)
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Mon, 31 Oct 2016 15:01:49 +0900 |
95 lines |
[git/dials] master: Merged pull request #242 myself (cb70254)
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Sun, 30 Oct 2016 08:33:10 +0900 |
55 lines |
[git/dials] master: different colour lines for goniometer (a7da29f)
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DIALS Commit via DLS Jenkins |
Fri, 28 Oct 2016 17:23:26 +0100 |
75 lines |
[git/dials_scratch] master: Exploring error in rescaled count data (51a6371)
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DIALS Scratch Commit via DLS Jenkins |
Fri, 28 Oct 2016 08:01:08 +0100 |
178 lines |
[git/dials] master: Merging debug_console and interactive_console following discussion at https://github.com/dials/dials/commit/446a46e49f5e72edef024e4652abf35df7ca1956 Use IPython when available, basic python console otherwise. Moved function to dials.util, old function in dials.util.command_line left as alias (4b95b5c)
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Thu, 27 Oct 2016 17:38:19 +0100 |
198 lines |
[git/dials] master: avoid zero blocks (c39d358)
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Thu, 27 Oct 2016 11:58:25 +0100 |
72 lines |
[git/dials] master: put a lower limit on blocksize of 100 reflections (974f3b2)
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Thu, 27 Oct 2016 11:52:23 +0100 |
77 lines |
[git/dials] master: Fix problem where final blocks can be empty (3c55308)
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Thu, 27 Oct 2016 11:41:07 +0100 |
103 lines |
[git/dials] master: Revert "For #239; correct scaling of DQE for sigI / varI" (266cd3f)
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Thu, 27 Oct 2016 09:39:04 +0100 |
272 lines |
[git/dials] master: Improve help regarding nproc. Add a warning to dials.refine for nproc > 1 (8f078f0)
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Thu, 27 Oct 2016 07:15:12 +0100 |
139 lines |
[git/dials] master: find a better suggested interval by interpolation (8f7c4d9)
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Wed, 26 Oct 2016 18:54:53 +0100 |
117 lines |
[git/dials] master: first attemptat a heuristic for suggesting interval_width_degrees based on the peridograms (fc10e24)
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Wed, 26 Oct 2016 18:29:06 +0100 |
361 lines |
[git/dials] master: Fix test (41168c1)
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Wed, 26 Oct 2016 09:23:24 -0700 |
113 lines |
[git/dials] master: Fix setting reference geometry (cc832d2)
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Wed, 26 Oct 2016 12:10:52 +0100 |
87 lines |
[git/dials] master: Can use debug_console() for interactive debugging. (446a46e)
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Wed, 26 Oct 2016 10:48:15 +0100 |
108 lines |
[git/dials_scratch] master: Confirm that the expression for the derivative of the HRS residual written in dials_regression/doc/notes/scaling/scaling.tex is correct, at least for the simple case of 1 parameter per scale factor (batch scaling). (90611b8)
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DIALS Scratch Commit via DLS Jenkins |
Tue, 25 Oct 2016 16:30:30 +0100 |
228 lines |
[git/dials_scratch] master: Test derivatives written out in dials_regression/doc/notes/scaling/scaling.tex (adaee3b)
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DIALS Scratch Commit via DLS Jenkins |
Tue, 25 Oct 2016 16:10:31 +0100 |
270 lines |
[git/dials] master: rework manual goniometer override parameters to avoid using phil .multiple: angle -> angles, axis -> axes (76a7474)
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Tue, 25 Oct 2016 14:56:23 +0100 |
311 lines |
[git/dials] master: Added a parameter to dials.import to ignore unhandled arguments rather than throw an exception. (6c5cc3b)
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Tue, 25 Oct 2016 14:12:38 +0100 |
246 lines |
[git/dials] master: Added a parameter to dials.import to ignore unhandled arguments rather than throw an exception. (748f14d)
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Tue, 25 Oct 2016 12:08:45 +0100 |
246 lines |
[git/dials] master: Merge branch 'master' of https://github.com/dials/dials (240e0c8)
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Tue, 25 Oct 2016 11:40:55 +0100 |
145 lines |
[git/dials] master: Removed old broken code. Fixes #206 (576be2b)
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Tue, 25 Oct 2016 11:30:41 +0100 |
155 lines |
[git/dials] master: Factor out correlation calculation; use data and sigmas rather than just I/sig(I) for calculations; merging equivalents gives weird results right now (1a01194)
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Mon, 24 Oct 2016 21:38:17 +0100 |
168 lines |
[git/dials] master: Convergent evolution: seems that without some scaling there are very well defined limits on how much analysis we can do here... (07eb1a5)
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Mon, 24 Oct 2016 21:38:17 +0100 |
94 lines |
[git/dials] master: bug fix if goniometer is None (44ffa09)
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Mon, 24 Oct 2016 17:14:06 +0100 |
81 lines |
[git/dials] master: no need to pass goniometer now (8ff2f16)
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Mon, 24 Oct 2016 17:13:42 +0100 |
78 lines |
[git/dials] master: override formatclass goniometer with that coming from imageset (which have been modified) (9c8cd6f)
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Mon, 24 Oct 2016 15:46:41 +0100 |
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[git/dials] master: Refactor and add tests to check_indexing_symmetry; still much work to do; currently nervous that some of the results are not consistent with expectation (beb9813)
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Mon, 24 Oct 2016 15:34:48 +0100 |
383 lines |
[git/dials] master: multi_panel=False format parameter (f929c21)
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Mon, 24 Oct 2016 14:12:32 +0100 |
97 lines |
[git/dials] master: move format phil scope so it can be used externally (befbe8e)
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Mon, 24 Oct 2016 10:39:00 +0100 |
120 lines |
[git/dials] master: no longer need to pass goniometer_shadow_mask variable; instead rely on dials.import/dxtbx kwargs dynamic_shadowing mechanism (67e9bcf)
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Mon, 24 Oct 2016 10:08:14 +0100 |
515 lines |
[git/dials] master: Enabled "Show hkl" without "Show predictions" (ae6ed96)
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Mon, 24 Oct 2016 10:49:34 +0900 |
217 lines |
[git/dials] master: Generate results in a strict order. Should fix test failing on some platforms (292bf5d)
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Fri, 21 Oct 2016 08:09:59 +0100 |
130 lines |
[git/dials] master: Generate results in a strict order. Should fix test failing on some platforms (ec43545)
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Fri, 21 Oct 2016 08:07:36 +0100 |
132 lines |
[git/dials] master: Fix test (244649b)
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Thu, 20 Oct 2016 13:06:48 -0700 |
116 lines |
[git/dials] master: Clean up code; added option for reference data (4ccf7dd)
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Thu, 20 Oct 2016 20:19:46 +0100 |
268 lines |
[git/dials] master: Added minimum number pixels to compute background (680dd6a)
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Thu, 20 Oct 2016 17:07:14 +0100 |
924 lines |
[git/dials] master: Rname grid_search_scope => grid; tidy code; remove unindexed reflections (6b01aeb)
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Thu, 20 Oct 2016 16:21:17 +0100 |
349 lines |
[git/dials] master: Cleaner count of 0,0,0 (f4c741a)
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Thu, 20 Oct 2016 16:21:17 +0100 |
77 lines |
[git/dials] master: Fixed printing the frame number in find spots. Fixes #221 (1f8b238)
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Thu, 20 Oct 2016 16:05:24 +0100 |
91 lines |
[git/dials] master: Use logging, save log file (f30f579)
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Thu, 20 Oct 2016 13:30:33 +0100 |
300 lines |
[git/dials] master: In check indexing symm; show range of HKL under consideration in input (c3fac2c)
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Thu, 20 Oct 2016 13:30:22 +0100 |
108 lines |
[git/dials] master: Merge branch 'master' of https://github.com/dials/dials (978610e)
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Thu, 20 Oct 2016 11:16:04 +0100 |
293 lines |
[git/dials] master: Did a clean clutter. (ed767dd)
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Thu, 20 Oct 2016 11:14:48 +0100 |
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[git/dials] master: Adding dictionary to propagate to format (487a62a)
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Thu, 20 Oct 2016 10:51:18 +0100 |
343 lines |
[git/dials] master: Combine raw and smoothed periodograms on a single plot. Draw lines at frequencies corresponding to periods of 54, 36 and 18 degrees to assist in identifying suitable interval_width_degrees (f90e8b7)
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Thu, 20 Oct 2016 10:21:11 +0100 |
307 lines |
[git/dials_scratch] master: Clean clutter (2ea91b0)
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Thu, 20 Oct 2016 09:17:41 +0100 |
49 lines |
[git/dials_scratch] master: Looking at effect of DQE on Poisson distributed measurements (ad26432)
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Thu, 20 Oct 2016 09:17:26 +0100 |
120 lines |
[git/dials] master: Test for dials.import template=; for #238 (1516f07)
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Thu, 20 Oct 2016 08:51:13 +0100 |
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[git/dials] master: For #239; correct scaling of DQE for sigI / varI (55b5b5f)
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Thu, 20 Oct 2016 08:37:39 +0100 |
264 lines |
[git/dials] master: Fix template= option for dials.import; other fixes probably needed; for #238 (6a8c31a)
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Thu, 20 Oct 2016 08:37:38 +0100 |
77 lines |
[git/dials] master: Add option to just search on h, k, l i.e. if you have a long unit cell axis (5d8cad2)
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Thu, 20 Oct 2016 08:01:45 +0100 |
266 lines |
[git/dials] master: better-looking suffix (c3d6e2c)
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Wed, 19 Oct 2016 17:52:26 +0100 |
75 lines |
[git/dials] master: When run from the command-line, also plot the raw periodograms (ef6d700)
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Wed, 19 Oct 2016 17:48:22 +0100 |
104 lines |
[git/dials_scratch] master: Add an interval_width_degrees=54 job (7ded477)
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Wed, 19 Oct 2016 17:18:42 +0100 |
243 lines |
[git/dials] master: work on supporting multi-scan strategies; calculate necessary goniometer settings to cover blind region in second scan (86ee6db)
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Wed, 19 Oct 2016 17:07:23 +0100 |
888 lines |
[git/dials_scratch] master: Do initial analysis on static refined, not indexed (eea58a2)
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Wed, 19 Oct 2016 16:39:59 +0100 |
384 lines |
[git/dials_scratch] master: Improved script (6e9891a)
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Wed, 19 Oct 2016 15:26:08 +0100 |
557 lines |
[git/dials_scratch] master: script to map reflections to reciprocal space and output rlp in json format (7c6964c)
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Wed, 19 Oct 2016 14:26:47 +0100 |
319 lines |
[git/dials] master: If no input print help like other dials programs. Fixes #212 (bf10060)
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Wed, 19 Oct 2016 10:19:47 +0100 |
81 lines |
[git/dials_scratch] master: tidy up messages and add more status information (2152b8b)
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Tue, 18 Oct 2016 17:29:38 +0100 |
157 lines |
[git/dials] master: use non-interactive backend (994d3e7)
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Tue, 18 Oct 2016 17:08:40 +0100 |
76 lines |
[git/dials_scratch] master: strip newlines (88ecd35)
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Tue, 18 Oct 2016 17:04:06 +0100 |
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[git/dials_scratch] master: After initial analysis, do refinement if possible then repeat analysis (c25394c)
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Tue, 18 Oct 2016 16:02:11 +0100 |
322 lines |
[git/dials] master: more useful assert message, debugging help (139f2b6)
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Tue, 18 Oct 2016 15:29:28 +0100 |
122 lines |
[git/dials] master: dials.model_background: fix logging - must be no test for command line program, tut tut (df8b436)
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Tue, 18 Oct 2016 15:29:28 +0100 |
351 lines |
[git/dials] master: Fixed tst_show for new output (15b79f1)
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Tue, 18 Oct 2016 14:10:37 +0100 |
103 lines |
[git/dials_scratch] master: Script to calculate periodograms of residuals on multiple indexed.pickles and write out the plots (08fb551)
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Tue, 18 Oct 2016 13:36:28 +0100 |
375 lines |
[git/dials] master: Smooth out average residuals truncated by the edges of the scan (efc4f0f)
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Tue, 18 Oct 2016 13:28:36 +0100 |
152 lines |
[git/dials] master: Include sadabs and xds_ascii format output descriptions in help string (bc4d14d)
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Tue, 18 Oct 2016 13:19:48 +0100 |
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[git/dials] master: dials.refine_bravais_setting: recommend suitable solutions (942cb0c)
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Tue, 18 Oct 2016 12:51:30 +0100 |
239 lines |
[git/dials] master: Added sort for vec3_double miller_index etc in reflection table. Also allow order to be specified for multi element items via order=(0, 1, 2) keyword (fa96d4b)
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Tue, 18 Oct 2016 12:47:53 +0100 |
258 lines |
[git/dials] master: Proper tests which check psi and direction cosines for xds_ascii and sadabs files, for a few test reflections, closes #229 (e528410)
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Tue, 18 Oct 2016 12:06:26 +0100 |
196 lines |
[git/dials] master: Add test cases for sadabs; xds_ascii; needs better tests though; for #229 (ac59b7b)
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Tue, 18 Oct 2016 10:07:20 +0100 |
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[git/dials] master: Cope with scan static input model (4b62441)
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Tue, 18 Oct 2016 10:06:50 +0100 |
112 lines |
[git/dials] master: Clean clutter (05229c3)
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Tue, 18 Oct 2016 10:06:30 +0100 |
63 lines |
[git/dials] master: Fix test. (5e09f25)
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Mon, 17 Oct 2016 14:26:43 -0700 |
93 lines |
[git/dials] master: Test case for dials.stills_process using SACLA data contributed by @biochem_fan. (4ef3b8a)
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Mon, 17 Oct 2016 13:44:18 -0700 |
342 lines |
[git/dials] master: Bugfix and clean clutter. Fixes #234. (66def10)
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Mon, 17 Oct 2016 11:48:56 -0700 |
87 lines |
[git/dials] master: Merge pull request #232 from dials/stills_process-update (ea4dd68)
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Mon, 17 Oct 2016 11:19:31 -0700 |
103 lines |
[git/dials] master: missed off 352b11c1 (85dd5ce)
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Mon, 17 Oct 2016 14:31:01 +0100 |
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[git/dials] master: Adapt to including exposure time in output (e746924)
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Mon, 17 Oct 2016 12:26:53 +0100 |
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[git/dials] master: pep8 (23f41d4)
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Mon, 17 Oct 2016 11:10:59 +0100 |
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[git/dials] master: nonsense .type specification (aa138d9)
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Mon, 17 Oct 2016 11:10:59 +0100 |
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[git/dials] master: use logging instead of print (988343a)
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Mon, 17 Oct 2016 10:57:12 +0100 |
244 lines |
[git/dials] master: command line logger name needs to be dispatcher_name not __main__ (352b11c)
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Mon, 17 Oct 2016 10:00:10 +0100 |
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[git/dials] master: log to module-level logger instead of root logger (6116718)
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Fri, 14 Oct 2016 17:29:08 +0100 |
263 lines |
[git/dials] master: Turns out run must be >= 1 for sadabs to *work* (749d731)
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Fri, 14 Oct 2016 10:42:02 +0100 |
74 lines |
[git/dials] master: Be honest and rename hkl to sadabs since that is all it is really for, now works, fixes #224 (d253949)
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Fri, 14 Oct 2016 09:48:20 +0100 |
282 lines |
[git/dials] master: Last but one column was detector two theta not the LP / whatever scale (as it would be in raw format) (108d7a8)
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Fri, 14 Oct 2016 09:37:18 +0100 |
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[git/dials] master: Added command line arguments like dials.import (a4afa54)
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Fri, 14 Oct 2016 17:14:41 +0900 |
183 lines |
[git/dials] master: Use predicted locations for spots by default in hkl format, therefore re-predict spot locations using scan static model; *** still doesn't actually work despite the two theta values agreeing precisely *** wonder if coordinate system (ac4b853)
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Fri, 14 Oct 2016 09:07:21 +0100 |
368 lines |
[git/dials] master: Cleanup; only output debugging info if debugging (442ff53)
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Thu, 13 Oct 2016 21:11:08 +0100 |
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[git/dials] master: Added much more diagnostic information; compute RUB for every unique reflection; still no closer to something which avoids this from sadabs: (e04076e)
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Thu, 13 Oct 2016 20:58:59 +0100 |
324 lines |
[git/dials] master: Added debug flag; fixed up RUB calculation using weighted centre of mass (9d1a9a6)
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Thu, 13 Oct 2016 19:00:44 +0100 |
178 lines |
[git/dials] master: Merge branch 'master' of https://github.com/dials/dials (84084f5)
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Thu, 13 Oct 2016 13:32:34 +0100 |
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[git/dials] master: fixes #220 (0f3f973)
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Wed, 12 Oct 2016 16:47:54 +0100 |
119 lines |
[git/dials] master: Remove commented out options; optionally use style if it exists (i.e. don't demand latest version) (b4ee406)
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Wed, 12 Oct 2016 15:30:44 +0100 |
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[git/dials] master: Added a program to generate a polar model figure. Also updated figures in model_background. (467a775)
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Wed, 12 Oct 2016 13:58:40 +0100 |
586 lines |
[git/dials_scratch] master: more descriptive output (23e9aee)
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Tue, 11 Oct 2016 20:06:51 +0100 |
89 lines |
[git/dials] master: Added show_panel_distance=true option to dials.show; for #230 (should this be Ia-3d?) (072316f)
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Tue, 11 Oct 2016 15:38:36 +0100 |
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[git/dials] master: Remove commented out code (6ad35c2)
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Tue, 11 Oct 2016 15:26:03 +0100 |
102 lines |
[git/dials] master: Refactor dials.stills_process import step. (2e9df22)
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Mon, 10 Oct 2016 17:14:46 -0700 |
583 lines |
[git/dials_scratch] master: numpy int->float ~3x as quick as flex.int as_double() (4dce599)
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Mon, 10 Oct 2016 17:34:13 +0100 |
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[git/dials_scratch] master: option to switch between get_raw_data and get_corrected_data (b13c08a)
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Mon, 10 Oct 2016 11:41:09 +0100 |
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[git/dials_scratch] master: just use time module (e8543de)
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Mon, 10 Oct 2016 11:19:30 +0100 |
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[git/dials_scratch] master: simple script to time reading images with no other operations (af0ef6a)
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Mon, 10 Oct 2016 10:59:33 +0100 |
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[git/dials] master: Algorithm is slightly different so not exactly the same results. Removing this assert. (3f7e5a4)
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Mon, 10 Oct 2016 10:39:31 +0100 |
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[git/dials] master: missing import (a7f2706)
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Fri, 7 Oct 2016 06:54:42 +0100 |
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[git/dials] master: Use mm, rad positions not calculated ones (for refinement) - still not there; for #224 (fe390df)
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Fri, 7 Oct 2016 03:53:26 +0100 |
155 lines |
[git/dials] master: fix for completeness >1 if screw axes present (b7bb033)
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Thu, 6 Oct 2016 10:23:46 +0100 |
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[git/dials] master: check_format=False (e355148)
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Thu, 6 Oct 2016 09:49:30 +0100 |
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[git/dials] master: Correctly pass summation flag, define only one of such (c108cd8)
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Thu, 6 Oct 2016 09:00:27 +0100 |
154 lines |
[git/dials] master: new dials.modify_geometry command (1ec6e67)
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Wed, 5 Oct 2016 16:58:49 +0100 |
326 lines |
[git/dials] master: add simple strategy program (e2c3bc2)
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Wed, 5 Oct 2016 16:58:24 +0100 |
651 lines |
[git/dials] master: Merge branch 'master' of https://github.com/dials/dials (be355ff)
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Wed, 5 Oct 2016 16:04:21 +0100 |
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[git/dials] master: Modifications to global background model algorithm (11381e5)
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Wed, 5 Oct 2016 16:02:47 +0100 |
306 lines |
[git/dials] master: This is dials.report (comment at top) and RMSD should probably start from 0 rather than varying (say) from 0.2 to 0.4 - give more easily interpreted absolute value (010e0e7)
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Tue, 4 Oct 2016 20:10:35 +0100 |
111 lines |
[git/dials] master: Consistent use of phi to represent rotation (920bf9c)
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Tue, 4 Oct 2016 20:01:21 +0100 |
79 lines |
[git/dials_scratch] master: Shifts from the mean (cb9c4e0)
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Tue, 4 Oct 2016 16:26:55 +0100 |
493 lines |
[git/dials_scratch] master: More useful: print relative shifts from the mean (46c9526)
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Tue, 4 Oct 2016 16:26:30 +0100 |
118 lines |
[git/dials_scratch] master: Tool to scrape the refined parameters and errors from many debug log files (7087a7e)
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Tue, 4 Oct 2016 16:11:34 +0100 |
253 lines |
[git/dials_scratch] master: Results from import/spot finding on whole 9600 image / 1440 degree run to allow split experiments (0ba8532)
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DIALS Scratch Commit via DLS Jenkins |
Tue, 4 Oct 2016 15:04:04 +0100 |
62 lines |
[git/dials_scratch] master: Fix distance also (25a58c0)
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DIALS Scratch Commit via DLS Jenkins |
Tue, 4 Oct 2016 13:07:08 +0100 |
73 lines |
[git/dials_scratch] master: Really carefully measured data from I03 for metrology; this should be it... (34ae0cc)
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DIALS Scratch Commit via DLS Jenkins |
Tue, 4 Oct 2016 13:06:05 +0100 |
136 lines |
[git/dials] master: Pass variance model in input; include profile correlation, partiality in output (if defined) (eca1674)
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DIALS Commit via DLS Jenkins |
Tue, 4 Oct 2016 11:39:22 +0100 |
148 lines |
[git/dials] master: XDS_ASCII.HKL export now appears to work correctly; for #224 (92a7460)
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DIALS Commit via DLS Jenkins |
Mon, 3 Oct 2016 13:52:22 +0100 |
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[git/dials] master: Formatting now identical in header; confused why still not giving correct results; copying working XDS_ASCII header in works fine... (25489fc)
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DIALS Commit via DLS Jenkins |
Mon, 3 Oct 2016 06:45:22 +0100 |
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[git/dials] master: Include coordinate frame shift (307fad3)
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DIALS Commit via DLS Jenkins |
Sun, 2 Oct 2016 07:46:01 +0100 |
265 lines |
[git/dials] master: psi calculated correctly now (e42470c)
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DIALS Commit via DLS Jenkins |
Sat, 1 Oct 2016 07:28:21 +0100 |
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[git/dials] master: Change way vectors are computed (same answer but easier to interpret) (fe2d152)
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DIALS Commit via DLS Jenkins |
Sat, 1 Oct 2016 07:12:55 +0100 |
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[git/dials] master: Fix header; change psi datum; sort on unique hkl (b0bd5c5)
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DIALS Commit via DLS Jenkins |
Sat, 1 Oct 2016 06:04:45 +0100 |
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[git/dials] master: Variance model != 1,0 ; orgx/y (76f5d0e)
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DIALS Commit via DLS Jenkins |
Sat, 1 Oct 2016 05:47:21 +0100 |
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[git/dials] master: Merge branch 'master' of https://github.com/dials/dials (3189e52)
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DIALS Commit via DLS Jenkins |
Fri, 30 Sep 2016 15:34:41 +0100 |
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[git/dials] master: Merge branch 'master' of https://github.com/dials/dials (cb9a0dd)
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DIALS Commit via DLS Jenkins |
Thu, 29 Sep 2016 17:12:38 +0100 |
180 lines |