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February 2018

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Subject	From	Date	Size
[git/dials] master: add DIALS reference to dials.export mmcif (9a208cfb)	DIALS commit	Tue, 27 Feb 2018 12:04:19 +0000	230 lines
[git/dials] master: clean clutter (55ed2f6e)	DIALS commit	Tue, 27 Feb 2018 11:27:09 +0000	95 lines
[git/dials] master: clarify annoyance policy (79eee873)	DIALS commit	Tue, 27 Feb 2018 08:58:07 +0000	158 lines
[git/dials] master: Only show banner in run() method (8687f446)	DIALS commit	Mon, 26 Feb 2018 16:29:19 +0000	86 lines
[git/dials] master: add .pytest_cache to ignore list (45edf6ff)	DIALS commit	Mon, 26 Feb 2018 11:41:56 +0000	74 lines
[git/dials] master: delete file, #506 (50e3177f)	DIALS commit	Mon, 26 Feb 2018 11:41:56 +0000	81 lines
[git/dials] master: use get_angle_from_array_index() instead of get_angle_from_image_index() (be78bf74)	DIALS commit	Mon, 26 Feb 2018 09:47:58 +0000	123 lines
[git/dials] master: Add test of import with slow_fast_beam_centre, using a multi-panel detector (CS-PAD) image (1d55e4fd)	DIALS commit	Sun, 25 Feb 2018 01:20:29 +0000	155 lines
[git/dials] master: fix tests for banner in dials.show (938f5ebd)	DIALS commit	Fri, 23 Feb 2018 14:13:05 +0000	297 lines
[git/dials] master: OHAI CAN I INTEREST YOU IN THIS BRILLIANT BRAND NEW PAPER OF OURS (55cfb36b)	DIALS commit	Fri, 23 Feb 2018 13:52:38 +0000	362 lines
[git/dials_scratch] master: Code tidying (17094a8)	DIALS Scratch commit	Fri, 23 Feb 2018 11:04:28 +0000	1468 lines
[git/dials_scratch] master: Updating absorption constraints calculations (1cf1e8f)	DIALS Scratch commit	Fri, 23 Feb 2018 09:31:19 +0000	735 lines
[git/dials_scratch] master: Updating scaling model to allow reading of parameter esds from file. (6599694)	DIALS Scratch commit	Fri, 23 Feb 2018 09:31:19 +0000	1043 lines
[git/dials_scratch] master: Savepoint for reworking to use restraints (22c2ba9)	DIALS Scratch commit	Fri, 23 Feb 2018 09:31:19 +0000	1627 lines
[git/dials_scratch] master: Updating of ScalingRefiner to include journalling (faae952)	DIALS Scratch commit	Fri, 23 Feb 2018 09:31:19 +0000	2959 lines
[git/dials_scratch] master: Changed ScalingRefinery to inherit from dials.refinement engine (b3da1eb)	DIALS Scratch commit	Fri, 23 Feb 2018 09:31:19 +0000	1844 lines
[git/dials_scratch] master: Updated error calculation for multiple datasets (4c1609f)	DIALS Scratch commit	Fri, 23 Feb 2018 09:31:19 +0000	713 lines
[git/dials_scratch] master: Testing general refinery (695dbb0)	DIALS Scratch commit	Fri, 23 Feb 2018 09:31:18 +0000	1716 lines
[git/dials_scratch] master: Refinery class (d85d861)	DIALS Scratch commit	Fri, 23 Feb 2018 09:31:18 +0000	732 lines
[git/dials] master: pytest (d3504576)	DIALS commit	Thu, 22 Feb 2018 16:47:48 +0000	673 lines
[git/dials] master: remove from run_tests.py (044c3fdf)	DIALS commit	Thu, 22 Feb 2018 16:06:11 +0000	87 lines
[git/dials] master: pytestify (1f414708)	DIALS commit	Thu, 22 Feb 2018 16:05:18 +0000	550 lines
[git/dials_scratch] master: Extend make_dx_dy script to handle elliptical distortion (8a10797)	DIALS Scratch commit	Thu, 22 Feb 2018 15:13:59 +0000	447 lines
[git/dials] master: more pytestification (df3c0ea8)	DIALS commit	Thu, 22 Feb 2018 15:03:18 +0000	1038 lines
[git/dials] master: even more fixed (5fea5e0d)	DIALS commit	Thu, 22 Feb 2018 14:34:44 +0000	80 lines
[git/dials] master: fix broken test; pytestify (7057af3c)	DIALS commit	Thu, 22 Feb 2018 14:21:39 +0000	918 lines
[git/dials] master: use pytest.approx correctly (540616d9)	DIALS commit	Thu, 22 Feb 2018 14:08:30 +0000	181 lines
[git/dials] master: Changed to int to avoid strange unsigned/signed error (da2591c6)	DIALS commit	Thu, 22 Feb 2018 14:00:59 +0000	117 lines
[git/dials] master: pytest.approx returns an object to be used in == comparison (385df751)	DIALS commit	Thu, 22 Feb 2018 12:50:46 +0000	95 lines
[git/dials] master: remove unused imports, use pytest.approx instead of libtbx approx_equal (1705d75f)	DIALS commit	Thu, 22 Feb 2018 12:23:13 +0000	118 lines
[git/dials] master: pytestification (a6e4f8c1)	DIALS commit	Thu, 22 Feb 2018 12:20:05 +0000	296 lines
[git/dials] master: more pytestification (23c65d45)	DIALS commit	Thu, 22 Feb 2018 12:01:20 +0000	1576 lines
[git/dials] master: remove test code that isn't hit (374cc804)	DIALS commit	Thu, 22 Feb 2018 11:16:02 +0000	119 lines
[git/dials] master: forgot about that bit. (2d6b79da)	DIALS commit	Thu, 22 Feb 2018 09:25:33 +0000	71 lines
[git/dials] master: another moved import, pytestify test while we're at it (90e638a4)	DIALS commit	Thu, 22 Feb 2018 09:01:01 +0000	357 lines
[git/dials] master: import has moved (c0fc875b)	DIALS commit	Thu, 22 Feb 2018 09:00:45 +0000	915 lines
[git/dials] master: use pytest.approx (d6f29b92)	DIALS commit	Wed, 21 Feb 2018 17:14:45 +0000	162 lines
[git/dials] master: exclude anomalously large flood fill peaks when determining minimum volume (35cdaf3a)	DIALS commit	Wed, 21 Feb 2018 11:50:26 +0000	126 lines
[git/dials] master: missed off previous commit 1503ec819c605044b7fa4e7228a1cf0b95c74fdb (3be46278)	DIALS commit	Wed, 21 Feb 2018 11:49:35 +0000	110 lines
[git/dials] master: pytestify indexing tests (1503ec81)	DIALS commit	Wed, 21 Feb 2018 11:45:24 +0000	2992 lines
[git/dials_scratch] master: Added code to normalize coordinates on unit ewald sphere (b021f35)	DIALS Scratch commit	Wed, 21 Feb 2018 11:35:50 +0000	86 lines
[git/dials_scratch] master: Tidied up a bit (fdae506)	DIALS Scratch commit	Wed, 21 Feb 2018 11:35:50 +0000	179 lines
[git/dials_scratch] master: Some stills code (322b02c)	DIALS Scratch commit	Wed, 21 Feb 2018 11:35:50 +0000	1456 lines
[git/dials_scratch] master: Fixing some bits (0faf94c)	DIALS Scratch commit	Wed, 21 Feb 2018 11:35:50 +0000	933 lines
[git/dials_scratch] master: Added some test stuff (f5df07f)	DIALS Scratch commit	Wed, 21 Feb 2018 11:35:50 +0000	1004 lines
[git/dials_scratch] master: Added more test stuff (10c1694)	DIALS Scratch commit	Wed, 21 Feb 2018 11:35:50 +0000	3291 lines
[git/dials] master: Revert "bug fix for scan-varying refinement when compose_model_per=image and the image numbers do not start from 1" (918d4a40)	DIALS commit	Mon, 19 Feb 2018 22:41:09 +0000	91 lines
[git/dials] master: bug fix for scan-varying refinement when compose_model_per=image and the image numbers do not start from 1 (891b18ce)	DIALS commit	Mon, 19 Feb 2018 19:18:41 +0000	82 lines
[git/dials] master: remove double imports (5226ef72)	DIALS commit	Mon, 19 Feb 2018 16:11:24 +0000	88 lines
[git/dials] master: Bug fix for scan-varying refinement where a multi-panel detector is fixed and therefore has no parameterisation (8c6ed7a2)	DIALS commit	Mon, 19 Feb 2018 15:18:24 +0000	341 lines
[git/dials] master: invert if not: (..); else: (..) (deec4734)	DIALS commit	Mon, 19 Feb 2018 08:57:04 +0000	108 lines
[git/dials_scratch] master: fix missing import (d1184b1)	DIALS Scratch commit	Sat, 17 Feb 2018 14:37:01 +0000	68 lines
[git/dials_scratch] master: Updating handling of model components for refinement (aee2624)	DIALS Scratch commit	Fri, 16 Feb 2018 16:50:52 +0000	643 lines
[git/dials] master: Test scan-varying beam refinement by running the example detailed in dials_regression/refinement_test_data/varying_beam_direction and compare the refined beam centre at every scan point with its ideal value from the simulation (0278e6e6)	DIALS commit	Fri, 16 Feb 2018 15:02:55 +0000	241 lines
[git/dials_scratch] master: script to compare total intensity on an image after masking ice rings with varying widths (ad876c7)	DIALS Scratch commit	Fri, 16 Feb 2018 14:06:49 +0000	328 lines
[git/dials_scratch] master: pass steps on command line; cleanup (5edc77c)	DIALS Scratch commit	Fri, 16 Feb 2018 14:06:49 +0000	144 lines
[git/dials_scratch] master: Generalising of parameter manager (e71c0b7)	DIALS Scratch commit	Thu, 15 Feb 2018 14:40:21 +0000	1799 lines
[git/dials_scratch] master: remove unused code (16b37c0)	DIALS Scratch commit	Thu, 15 Feb 2018 13:13:36 +0000	145 lines
[git/dials_scratch] master: script to perform ice-ring filtering on datablock.json + strong.pickle comparing spot count vs ice-ring width (8671354)	DIALS Scratch commit	Thu, 15 Feb 2018 13:10:54 +0000	494 lines
[git/dials] master: optionally override ice_rings.width in find_spots_server (5cc079e2)	DIALS commit	Thu, 15 Feb 2018 12:14:59 +0000	180 lines
[git/dials] master: build documentation in strict mode by default (63249506)	DIALS commit	Thu, 15 Feb 2018 09:19:51 +0000	170 lines
[git/dials_scratch] master: Fixing import in plot scripts, reworking of parameter handler. (f519cc3)	DIALS Scratch commit	Wed, 14 Feb 2018 16:55:11 +0000	1033 lines
[git/dials] master: DIALS requires Python 2.7. (42acea10)	DIALS commit	Wed, 14 Feb 2018 15:10:20 +0000	82 lines
[git/dials_scratch] master: Relocating scale_factor file and updating tests. (9a3790b)	DIALS Scratch commit	Wed, 14 Feb 2018 11:26:08 +0000	2136 lines
[git/dials_scratch] master: Reworking of handling of which corrections are minimised. (377e62e)	DIALS Scratch commit	Tue, 13 Feb 2018 16:37:59 +0000	2078 lines
[git/dials_scratch] master: Restructuring of Multi Scalers and updating tests (f35020c)	DIALS Scratch commit	Tue, 13 Feb 2018 13:11:03 +0000	1143 lines
[git/dials] master: update unit cell in test (a462e5d1)	DIALS commit	Tue, 13 Feb 2018 12:41:05 +0000	78 lines
[git/dials] master: use >= and <= in inequality when filtering outliers (2dbfd74b)	DIALS commit	Tue, 13 Feb 2018 11:37:35 +0000	81 lines
[git/dials] master: more meaningful assert error message (9e909e70)	DIALS commit	Tue, 13 Feb 2018 11:37:35 +0000	81 lines
[git/dials_scratch] master: Extra files after rearranging. (ac4a44a)	DIALS Scratch commit	Tue, 13 Feb 2018 10:09:58 +0000	73 lines
[git/dials_scratch] master: Tidying up files. (e88eb8d)	DIALS Scratch commit	Tue, 13 Feb 2018 10:08:06 +0000	126 lines
[git/dials] master: Additional test to check if dials.stills_process works with mpi. Will only be tested on builds with mpi4py installed (851949d7)	DIALS commit	Mon, 12 Feb 2018 16:04:15 -0800	145 lines
[git/dials] master: used observed, rather than calculated, z-centroid to determine BATCH value, otherwise we risk assigning reflections to a BATCH that does not exist (250153f4)	DIALS commit	Mon, 12 Feb 2018 13:10:15 +0000	87 lines
[git/dials] master: Split json outputs (19a65753)	DIALS commit	Fri, 9 Feb 2018 07:02:54 +0000	107 lines
[git/dials] master: Regularise binary operators (34ab14e1)	DIALS commit	Fri, 9 Feb 2018 06:49:59 +0000	123 lines
[git/dials_scratch] master: Fixing of targeted scaling. (5b25664)	DIALS Scratch commit	Wed, 7 Feb 2018 10:12:39 +0000	515 lines
[git/dials_scratch] master: Reworking of targetscaler. (4235146)	DIALS Scratch commit	Wed, 7 Feb 2018 10:12:39 +0000	1027 lines
[git/dials] master: Remove clearly no-longer-needed commented-out code (90a32126)	DIALS commit	Wed, 7 Feb 2018 08:03:22 +0000	103 lines
[git/dials] master: Check for ‘isinstance’ errors when parsing files (3be6389b)	DIALS commit	Tue, 6 Feb 2018 18:22:00 +0000	93 lines
[git/dials] master: export_mtz: use scan.get_batch_offset() if set; otherwise calculate appropriate batch_offsets (c24a6125)	DIALS commit	Tue, 6 Feb 2018 13:38:14 +0000	241 lines
[git/dials] master: Display “Sorry” message if invalid scan_range passed to integrate (8036f60d)	DIALS commit	Mon, 5 Feb 2018 17:33:29 +0000	248 lines
[git/dials] master: Give a 'Sorry' if user specified invalid scan range (3acaa8ed)	DIALS commit	Mon, 5 Feb 2018 15:54:49 +0000	117 lines
[git/dials] master: Don’t show a stack-trace for “Sorry” parsing failures (f4c64aae)	DIALS commit	Mon, 5 Feb 2018 15:39:55 +0000	161 lines
[git/dials] master: moved for #506 (0ddee043)	DIALS commit	Mon, 5 Feb 2018 14:43:40 +0000	521 lines
[git/dials_scratch] master: Another test under development, moved here for #506 (051cc29)	DIALS Scratch commit	Mon, 5 Feb 2018 14:43:00 +0000	523 lines
[git/dials_scratch] master: Moved from DIALS for #506 (063e61e)	DIALS Scratch commit	Mon, 5 Feb 2018 14:41:12 +0000	806 lines
[git/dials] master: move unfinished test for development into dials_scratch, for #506 (c2b380e2)	DIALS commit	Mon, 5 Feb 2018 14:38:15 +0000	299 lines
[git/dials] master: add to run_tests.py, for #506 (339bdc84)	DIALS commit	Mon, 5 Feb 2018 14:32:29 +0000	73 lines
[git/dials] master: silence clang unused variable warnings (c103eb77)	DIALS commit	Mon, 5 Feb 2018 13:10:42 +0000	108 lines
[git/dials] master: Bugfix to 'ROT' calculation for a multi-dataset integrated.pickle (39bd886b)	DIALS commit	Mon, 5 Feb 2018 12:27:11 +0000	79 lines
[git/dials_scratch] master: Fixed volume monte carlo test (a357edc)	DIALS Scratch commit	Mon, 5 Feb 2018 11:03:06 +0000	649 lines
[git/dials_scratch] master: Tidying, adding factory and model for xscale type parameterisation. (90666ff)	DIALS Scratch commit	Mon, 5 Feb 2018 09:39:52 +0000	97 lines
[git/dials_scratch] master: Some reworking of scaling model handling with experimentlist. (9833751)	DIALS Scratch commit	Mon, 5 Feb 2018 09:39:52 +0000	1773 lines
[git/dials_scratch] master: Separation of model and parameter handling into separate files. (276390b)	DIALS Scratch commit	Mon, 5 Feb 2018 09:39:52 +0000	561 lines
[git/dials_scratch] master: Reworking to use python entry points for ScalingModels. (e0accfc)	DIALS Scratch commit	Mon, 5 Feb 2018 09:39:52 +0000	919 lines
[git/dials_scratch] master: Addition of plotting for 2d decay correction. (016a698)	DIALS Scratch commit	Mon, 5 Feb 2018 09:39:52 +0000	988 lines
[git/dials_scratch] master: Fix error in outlier rejection code. (cf77211)	DIALS Scratch commit	Mon, 5 Feb 2018 09:39:52 +0000	237 lines
[git/dials_scratch] master: Correcting call to absorption constraint calculation. (4cf6954)	DIALS Scratch commit	Mon, 5 Feb 2018 09:39:52 +0000	802 lines
[git/dials_scratch] master: Reworking data manager into a Scaler and Factory. (cf9a803)	DIALS Scratch commit	Mon, 5 Feb 2018 09:39:52 +0000	72 lines
[git/dials_scratch] master: Separation of scaling model plotting to separate script. (0c12fd8)	DIALS Scratch commit	Mon, 5 Feb 2018 09:39:52 +0000	2049 lines
[git/dials_scratch] master: Updating of tests and handling of active minimisation components. (a6118da)	DIALS Scratch commit	Mon, 5 Feb 2018 09:39:52 +0000	2609 lines
[git/dials_scratch] master: Improvements to multi dataset handling. (dcae774)	DIALS Scratch commit	Mon, 5 Feb 2018 09:39:52 +0000	2142 lines
[git/dials_scratch] master: Reworking of scaling script. (3d1aa96)	DIALS Scratch commit	Mon, 5 Feb 2018 09:39:52 +0000	797 lines
[git/dials_scratch] master: Inclusion of extra gaussian scalers. (0aa54d2)	DIALS Scratch commit	Mon, 5 Feb 2018 09:39:52 +0000	76 lines
[git/dials_scratch] master: Adding the transpose needed to make this work. Thanks @rjgildea. (a30cbb0)	DIALS Scratch commit	Sat, 3 Feb 2018 02:08:04 -0800	107 lines
[git/dials_scratch] master: Ran clean clutter (d14576b)	DIALS Scratch commit	Fri, 2 Feb 2018 16:27:54 +0000	49 lines
[git/dials_scratch] master: Test some pixel volume stuff (6d5a294)	DIALS Scratch commit	Fri, 2 Feb 2018 16:27:46 +0000	617 lines
[git/dials] master: Update reference link (b2ee53a2)	DIALS commit	Fri, 2 Feb 2018 11:47:10 +0000	81 lines
[git/dials] master: don't show plot by default (1bde12cf)	DIALS commit	Fri, 2 Feb 2018 11:31:06 +0000	72 lines
[git/dials] master: add JMP background papers to publications page (61a47f39)	DIALS commit	Fri, 2 Feb 2018 11:31:06 +0000	71 lines
[git/dials] master: Implementation of 2D gaussian smoother. (87dd50c3)	DIALS commit	Fri, 2 Feb 2018 10:47:11 +0000	1910 lines
[git/dials] master: where possible replace libtbx.containers with Python standard library (55fcfd2d)	DIALS commit	Fri, 2 Feb 2018 10:04:58 +0000	305 lines
[git/dials] master: Fix test skipping, get rid of libtbx.approx_equal (29b10f48)	DIALS commit	Fri, 2 Feb 2018 07:48:34 +0000	157 lines
[git/dials] master: The future of print() (39a6a2ef)	DIALS commit	Fri, 2 Feb 2018 06:22:15 +0000	84 lines
[git/dials] master: Check for scipy in test (d56fb0b2)	DIALS commit	Thu, 1 Feb 2018 16:07:52 -0800	82 lines
[git/dials] master: Delete obsolete tutorial, move Diamond tutorial into tutorial folder. Remove 'orphan' markers. Closes #489 (81296587)	DIALS commit	Thu, 1 Feb 2018 17:42:41 +0000	1750 lines
[git/dials_scratch] master: Jiffy script to show that crystal_orientation.change_basis and Crystal.change_basis can give different A matrices for the same change of basis op (9f7afc1)	DIALS Scratch commit	Thu, 1 Feb 2018 09:34:20 -0800	219 lines
[git/dials] master: Delete basel page, #489 (55b421b6)	DIALS commit	Thu, 1 Feb 2018 17:23:34 +0000	111 lines
[git/dials] master: De-orphanize workshop pages, #489 (a9e1f8ae)	DIALS commit	Thu, 1 Feb 2018 17:21:43 +0000	333 lines

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February 2018

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