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November 2018

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Subject	From	Date	Size
[git/dials] master: Tidy up masking PHIL parameters (9a10a9202)	DIALS commit	Thu, 29 Nov 2018 16:21:29 +0000	225 lines
[git/dials] master: Polishing scaling section of tutorial for cmd and dui (41cff803c)	DIALS commit	Thu, 29 Nov 2018 16:08:43 +0000	537 lines
[git/dials] master: Fix filename error in tutorial updates (b15becd83)	DIALS commit	Thu, 29 Nov 2018 14:21:01 +0000	96 lines
[git/dials] master: Include symmetry and scaling in dials tutorial. (138e7d56b)	DIALS commit	Wed, 28 Nov 2018 20:35:34 +0000	596 lines
[git/dials] master: reference reindex bugfix - missed instance of correlation calculation (35cb8cb4d)	DIALS commit	Tue, 27 Nov 2018 15:23:28 +0000	92 lines
[git/dials] master: Update dui tutorial in a few places (1057b983b)	DIALS commit	Tue, 27 Nov 2018 14:49:39 +0000	445 lines
[git/dials] master: Add in manual space group check in reindex when using reference. (45255fae1)	DIALS commit	Tue, 27 Nov 2018 14:02:39 +0000	135 lines
[git/dials] master: Make generate_tutorial_text clearer to use (0e946a682)	DIALS commit	Tue, 27 Nov 2018 12:01:05 +0000	250 lines
[git/dials] master: Move DUI tutorial to top of the list. (118458356)	DIALS commit	Tue, 27 Nov 2018 10:30:31 +0000	91 lines
[git/dials] master: Thanks @luisodls for allowed scaled export. (cfbef3599)	DIALS commit	Tue, 27 Nov 2018 10:26:34 +0000	98 lines
[git/dials] master: crop images to remove black borders (c3854338e)	DIALS commit	Tue, 27 Nov 2018 09:58:12 +0000	126 lines
[git/dials] master: remove the directive not recognised by the build machine (e245f592a)	DIALS commit	Tue, 27 Nov 2018 09:35:03 +0000	96 lines
[git/dials] master: Add to TOC and a couple of minor fixes (ebb0a27f3)	DIALS commit	Mon, 26 Nov 2018 17:06:48 +0000	297 lines
[git/dials] master: DUI tutorial. (ed620d2c4)	DIALS commit	Mon, 26 Nov 2018 16:31:16 +0000	1727 lines
[git/dials] master: Cosym: maintain order of experiments from input > output (6eb9cb053)	DIALS commit	Mon, 26 Nov 2018 15:19:10 +0000	157 lines
[git/dials] master: If set, make identifier map consistent when saving reflection table (07e2a2507)	DIALS commit	Mon, 26 Nov 2018 12:38:57 +0000	163 lines
[git/dials] master: Bug fix for cosym when a subset of the data is used for analysis. (be7909166)	DIALS commit	Mon, 26 Nov 2018 12:38:57 +0000	139 lines
[git/dials_scratch] master: Modifications to plots following discussion (578bd1c)	DIALS Scratch commit	Thu, 22 Nov 2018 12:12:36 +0000	281 lines
[git/dials] master: we now fully support pytest 3.9.3 (f5295a419)	DIALS commit	Thu, 22 Nov 2018 10:37:03 +0000	80 lines
[git/dials_scratch] master: Algorithm development, remains work in progress. (014b836)	DIALS Scratch commit	Wed, 21 Nov 2018 16:33:14 +0000	736 lines
[git/dials_scratch] master: Table and plots of intensity & background vs resolution (7b61ab1)	DIALS Scratch commit	Wed, 21 Nov 2018 16:33:14 +0000	1871 lines
[git/dials_scratch] master: WIP, commit here as may need to revert to this point (0eaea4c)	DIALS Scratch commit	Wed, 21 Nov 2018 16:33:14 +0000	439 lines
[git/dials] master: Move from Travis containers to virtual machines (7814205e2)	DIALS commit	Wed, 21 Nov 2018 11:36:47 +0000	81 lines
[git/dials] master: For #653; less misleading window title (1448671d3)	DIALS commit	Wed, 21 Nov 2018 10:01:04 +0000	87 lines
[git/dials_scratch] master: Empty run_tests.py - this isn't generally pytest safe (3bf9c91)	DIALS Scratch commit	Tue, 20 Nov 2018 14:37:58 +0000	64 lines
[git/dials] master: In scaling, replace min/max with flex.min/flex.max (e4a528a50)	DIALS commit	Tue, 20 Nov 2018 08:48:20 +0000	320 lines
[git/dials] master: Update dials-scale guide for auto scaling model and exclude images (f4d6898d0)	DIALS commit	Mon, 19 Nov 2018 17:04:18 +0000	312 lines
[git/dials] master: Remove erroneous typename in scaling_helper.h (3295f4681)	DIALS commit	Mon, 19 Nov 2018 13:26:56 +0000	85 lines
[git/dials] master: Improve scaling outlier rejection speed with c++ function (ffa858f03)	DIALS commit	Mon, 19 Nov 2018 13:16:10 +0000	386 lines
[git/dials] master: Update split experiments, to allow handling of experiment identifiers (8b8d4581b)	DIALS commit	Fri, 16 Nov 2018 11:04:08 +0000	503 lines
[git/dials] master: Add show_identifiers option to dials.show (d99b7381f)	DIALS commit	Fri, 16 Nov 2018 09:14:10 +0000	167 lines
[git/dials] master: add model=auto choice for scaling, make default. (80e972e96)	DIALS commit	Fri, 16 Nov 2018 08:46:20 +0000	483 lines
[git/dials] master: Fix delta_cc_half test (d918b534b)	DIALS commit	Thu, 15 Nov 2018 15:36:29 +0000	112 lines
[git/dials] master: Update scaling functions for new dxtbx.model.scan updates (5fbfeee4d)	DIALS commit	Thu, 15 Nov 2018 15:18:16 +0000	332 lines
[git/dials] master: Update delta_cc_half to allow cc12 exclusion in groups of images (6a4ecc5b0)	DIALS commit	Thu, 15 Nov 2018 15:18:16 +0000	623 lines
[git/dials] master: Bugfix for scaling plots in dials.report (8c9ccabbb)	DIALS commit	Thu, 15 Nov 2018 15:18:16 +0000	102 lines
[git/dials] master: Updates to scaling to use new exclude_images options (41bfb8292)	DIALS commit	Thu, 15 Nov 2018 15:18:05 +0000	2159 lines
[git/dials] master: Add interface to exclude images from experiments and reflections (27bc21802)	DIALS commit	Thu, 15 Nov 2018 14:42:06 +0000	582 lines
[git/dials] master: Update exclude_images for new dxtbx.mode.scan updates (aa5852c6d)	DIALS commit	Thu, 15 Nov 2018 14:42:06 +0000	387 lines
[git/dials] master: -1 id filtering: indexed flag not correctly set, so filter on id (ac90e83e1)	DIALS commit	Thu, 15 Nov 2018 10:13:54 +0000	194 lines
[git/dials] master: Fix a memory leak in dials.stills_process. Affects composite image processing (hdf5 and xtc). (6f9452110)	DIALS commit	Wed, 14 Nov 2018 13:19:47 -0800	276 lines
[git/dials] master: Minor typos & tidying (30d35bfba)	DIALS commit	Wed, 14 Nov 2018 18:19:07 +0000	105 lines
[git/dials] master: Add command line test for cosym.py (55d9a2067)	DIALS commit	Wed, 14 Nov 2018 16:53:52 +0000	109 lines
[git/dials] master: Add command-line test for dials.symmetry (986888c88)	DIALS commit	Wed, 14 Nov 2018 16:37:04 +0000	116 lines
[git/dials_scratch] master: First stage, construct list of seeds for further search (75b06b9)	DIALS Scratch commit	Wed, 14 Nov 2018 15:45:01 +0000	401 lines
[git/dials] master: Only filter on dataset id > -1 if necessary to avoid problems. (1b1de1a39)	DIALS commit	Wed, 14 Nov 2018 15:21:54 +0000	219 lines
[git/dials_scratch] master: Set imageset in the simulated experiments to make dials.index happy (3a711c3)	DIALS Scratch commit	Wed, 14 Nov 2018 14:53:06 +0000	124 lines
[git/dials] master: Bugfix: filter unindexed before calling split_by_experiment_id() (883e60fb5)	DIALS commit	Wed, 14 Nov 2018 14:14:54 +0000	172 lines
[git/dials] master: Refactor flattening code (ce615cddd)	DIALS commit	Tue, 13 Nov 2018 13:08:48 +0000	141 lines
[git/dials_scratch] master: Improve appearance of simulated images (more realistic #spots) (6a7eab4)	DIALS Scratch commit	Tue, 13 Nov 2018 09:45:38 +0000	229 lines
[git/dials] master: less conservative cutoffs for detecting blanks (058861dae)	DIALS commit	Mon, 12 Nov 2018 16:53:48 +0000	104 lines
[git/dials] master: iround, not iceil for determining number of bins in histogramming; explicitly set data min/max when constructing histograms (95f2943cd)	DIALS commit	Mon, 12 Nov 2018 16:12:39 +0000	148 lines
[git/dials] master: feed the Python3 monster (a18a1085a)	DIALS commit	Mon, 12 Nov 2018 15:54:08 +0000	117 lines
[git/dials_scratch] master: moved to dials proper (ff05fd7)	DIALS Scratch commit	Mon, 12 Nov 2018 10:35:24 +0000	481 lines
[git/dials_scratch] master: moved to dials proper (0bf9a58)	DIALS Scratch commit	Mon, 12 Nov 2018 10:33:59 +0000	381 lines
[git/dials] master: move from dials_scratch (06f50e3f7)	DIALS commit	Mon, 12 Nov 2018 10:33:15 +0000	482 lines
[git/dials] master: Missing import (9aee8c353)	DIALS commit	Mon, 12 Nov 2018 10:30:14 +0000	82 lines
[git/dials] master: No need to explicitly create a list (thanks @Anthchirp). (ea77d2707)	DIALS commit	Mon, 12 Nov 2018 10:08:06 +0000	92 lines
[git/dials] master: Avoid flat_list (af5866434)	DIALS commit	Sun, 11 Nov 2018 22:35:21 +0000	123 lines
[git/dials] master: Clean clutter (a1b2ab85d)	DIALS commit	Fri, 9 Nov 2018 20:08:24 +0000	58 lines
[git/dials] master: Tool to make a pseudo event list from diffraction data (b29cdc322)	DIALS commit	Fri, 9 Nov 2018 20:08:14 +0000	119 lines
[git/dials] master: Fix tests for batch handling updates (adf1bef31)	DIALS commit	Thu, 8 Nov 2018 12:40:40 +0000	114 lines
[git/dials] master: Improve batch handling in scaling (d13897c9b)	DIALS commit	Thu, 8 Nov 2018 12:33:57 +0000	268 lines
[git/dials] master: Update export mtz batch handling to use common code with scaling (7f2456754)	DIALS commit	Thu, 8 Nov 2018 12:33:10 +0000	641 lines
[git/dials_scratch] master: CBF manipulation example (232dd61)	DIALS Scratch commit	Wed, 7 Nov 2018 15:51:34 +0000	224 lines
[git/dials_scratch] master: Skeleton script for testing ED indexing methods (cca4259)	DIALS Scratch commit	Wed, 7 Nov 2018 15:45:38 +0000	705 lines
[git/dials] master: Add scaling user guide to howto documentation (db58f1780)	DIALS commit	Wed, 7 Nov 2018 14:55:27 +0000	480 lines
[git/dials] master: Fix broken test_target_function for scaling (cb9c9565a)	DIALS commit	Wed, 7 Nov 2018 10:32:31 +0000	100 lines
[git/dials] master: we currently don't support pytest 3.7+ (fd94c5144)	DIALS commit	Wed, 7 Nov 2018 10:23:19 +0000	81 lines
[git/dials] master: Add tests for batch handling code and batch exclusion in scaling (b8bc223a9)	DIALS commit	Wed, 7 Nov 2018 10:16:50 +0000	2371 lines
[git/dials] master: Refactoring of scaling script (26df6050f)	DIALS commit	Wed, 7 Nov 2018 10:16:50 +0000	900 lines
[git/dials] master: Implement batch exclusion for scaling (0cbb1c19f)	DIALS commit	Wed, 7 Nov 2018 10:16:49 +0000	2057 lines
[git/dials] master: Add more helper functions to dials.util for batch handling (8d07ff10f)	DIALS commit	Wed, 7 Nov 2018 10:16:49 +0000	185 lines
[git/dials] master: Include outlier rejection in the test. (4a471ed51)	DIALS commit	Tue, 6 Nov 2018 21:12:39 +0000	120 lines
[git/dials] master: Port logging features from xfel: bread crumbs and per-process log files (922d8bf90)	DIALS commit	Tue, 6 Nov 2018 09:21:29 -0800	522 lines
[git/dials] master: Check order of input does not matter for joint refinement. (0a248e639)	DIALS commit	Tue, 6 Nov 2018 16:34:49 +0000	287 lines
[git/dials] master: Bug fix for automatic dataset exclusion in scaling (9e48b6d23)	DIALS commit	Mon, 5 Nov 2018 16:30:38 +0000	159 lines
[git/dials_scratch] master: simtbx still image simulation script. (ed5b023)	DIALS Scratch commit	Mon, 5 Nov 2018 15:42:58 +0000	586 lines
[git/dials] master: Deal with option conflict between dials/xia2 (4b7d2c415)	DIALS commit	Mon, 5 Nov 2018 13:49:20 +0000	99 lines
[git/dials] master: Fix attempt for broken test on Mac (9d64dbffa)	DIALS commit	Mon, 5 Nov 2018 13:40:15 +0000	121 lines
[git/dials] master: Increase thickness of plot lines. (8bd81b5e7)	DIALS commit	Mon, 5 Nov 2018 09:31:22 +0000	101 lines
[git/dials] master: A new test of search_beam_position.py (b71bd001c)	DIALS commit	Fri, 2 Nov 2018 15:59:06 +0000	431 lines
[git/dials] master: Set organization field (145b41898)	DIALS commit	Fri, 2 Nov 2018 14:28:50 +0000	79 lines
[git/dials] tag 'v1.12.0' created	DIALS commit	Fri, 2 Nov 2018 10:42:13 +0000	38 lines
[git/dials] master: Disable dials.report probability plots, #648 (0fa309f4b)	DIALS commit	Fri, 2 Nov 2018 10:33:34 +0000	151 lines
[git/dials] master: Remove remaining logger.disabled. (efb69ec98)	DIALS commit	Thu, 1 Nov 2018 13:49:23 +0000	263 lines
[git/dials] master: don't use logger.disabled (#644) (35d148775)	DIALS commit	Thu, 1 Nov 2018 12:49:42 +0000	109 lines
[git/dials] master: Fixes for silencing refinement logging: - don't use logger.disabled as this isn't propagated - don't set verbosity when constructing refiner as if verbosity=0 then logger is disabled forever - set default refinement.verbosity=1 (9cf34d28a)	DIALS commit	Thu, 1 Nov 2018 12:39:16 +0000	200 lines
[git/dials] master: Bugfix: format output as float not string (f65f2b761)	DIALS commit	Thu, 1 Nov 2018 12:29:08 +0000	108 lines
[git/dials] master: Add a few extra checks in scaling code (ebbe47909)	DIALS commit	Thu, 1 Nov 2018 12:23:25 +0000	116 lines
[git/dials] master: Add plots of distribution of scaling model parameter uncertainties (0f621a55b)	DIALS commit	Thu, 1 Nov 2018 12:23:25 +0000	325 lines
[git/dials] master: import code from libtbx instead (fb40bb039)	DIALS commit	Thu, 1 Nov 2018 09:59:04 +0000	237 lines
[git/dials] master: Add characteristic_grid to fft1d (3fd812769)	DIALS commit	Wed, 31 Oct 2018 16:55:52 -0700	266 lines

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November 2018

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