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December 2022

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Subject	From	Date	Size
[git/cctbx_project] master: CI: add file check before printing (91bdf33cec)	CCTBX commit	Fri, 30 Dec 2022 13:31:32 +0100	93 lines
[git/cctbx_project] master: CI: remove Settings variable group (11239e7939)	CCTBX commit	Thu, 29 Dec 2022 12:57:45 +0100	142 lines
[git/cctbx_project] master: bootstrap: switch --enable_cxx to --cxxstd for phenix_voyager builder (e4b74566f9)	CCTBX commit	Thu, 29 Dec 2022 12:55:43 +0100	104 lines
[git/cctbx_project] master: CI: bump timeout to 180 min for macOS and Windows (75d90eaced)	CCTBX commit	Wed, 28 Dec 2022 20:48:17 +0100	118 lines
[git/cctbx_project] master: conda: switch static environments to use cctbx202211 channel (0442c99b6a)	CCTBX commit	Wed, 28 Dec 2022 03:54:19 +0100	155 lines
[git/cctbx_project] master: CI: bump timeout to 180 min for linux (5755193a5b)	CCTBX commit	Wed, 28 Dec 2022 03:53:32 +0100	94 lines
[git/cctbx_project] master: CI: start Rocky Linux 9 and Ubuntu 22.04 testing (af01027ae5)	CCTBX commit	Wed, 28 Dec 2022 03:53:32 +0100	134 lines
[git/cctbx_project] master: CI: simplify Windows build and tests (5d3ea8f775)	CCTBX commit	Wed, 28 Dec 2022 03:53:32 +0100	501 lines
[git/cctbx_project] master: CI: fix some errors (a4ee94420d)	CCTBX commit	Wed, 28 Dec 2022 03:53:32 +0100	269 lines
[git/cctbx_project] master: conda: update static environments (e814d01f8d)	CCTBX commit	Wed, 28 Dec 2022 03:53:32 +0100	152 lines
[git/cctbx_project] master: boost_adaptbx: update failing test (de95b2888e)	CCTBX commit	Wed, 28 Dec 2022 03:53:32 +0100	125 lines
[git/cctbx_project] master: CI: use Boost from conda environment for Rocky Linux 9 and Ubuntu 22.04 (1d206924f0)	CCTBX commit	Wed, 28 Dec 2022 03:53:32 +0100	119 lines
[git/cctbx_project] master: CI: remove CentOS 6 steps (9ca9cf4db8)	CCTBX commit	Wed, 28 Dec 2022 03:53:32 +0100	143 lines
[git/cctbx_project] master: libtbx: unset -ffast-math for gcc >= 11 (14e7a18fd1)	CCTBX commit	Wed, 28 Dec 2022 03:53:32 +0100	107 lines
[git/cctbx_project] master: CI: fix gtkmm dependency on Rocky Linux 9 (c9e811d83e)	CCTBX commit	Wed, 28 Dec 2022 03:53:32 +0100	145 lines
[git/cctbx_project] master: CI: clean up (9f78602041)	CCTBX commit	Wed, 28 Dec 2022 03:53:32 +0100	687 lines
[git/cctbx_project] master: CI: simplify linux and macOS builds (ed1b8586cd)	CCTBX commit	Wed, 28 Dec 2022 03:53:32 +0100	390 lines
[git/cctbx_project] master: Fix crash due to python pickle incompatibility v2 vs v3 (c2ee7735ee)	CCTBX commit	Tue, 27 Dec 2022 08:25:29 -0800	233 lines
[git/cctbx_project] master: CI: expand tests name for Windows too (5010231dc3)	CCTBX commit	Fri, 23 Dec 2022 21:39:12 +0100	94 lines
[git/cctbx_project] master: CI: expand test artifact name for Weekly tests (3d2c93e596)	CCTBX commit	Fri, 23 Dec 2022 03:53:20 +0100	95 lines
[git/cctbx_project] master: PRO is now handled as specical case (16fb5a6918)	CCTBX commit	Thu, 22 Dec 2022 06:59:31 -0800	86 lines
[git/cctbx_project] master: Add CENTRIC_FLAGS array (a34e60041a)	CCTBX commit	Thu, 22 Dec 2022 06:53:32 -0800	94 lines
[git/cctbx_project] master: Simple solution to Coot failure to load files: use the env command in Popen to pass the environmental variable CCTBX_COOT_PORT which was not recognized with just the shell command (5c4beb631e)	CCTBX commit	Wed, 21 Dec 2022 11:47:45 -0700	214 lines
[git/dxtbx] main: Stop using np.float (#598) (f11a71df)	DXTBX commit	Wed, 21 Dec 2022 12:21:34 -0500	206 lines
[git/dxtbx] main: Clean Clutter (52f8aac2)	DXTBX commit	Sun, 18 Dec 2022 05:11:42 +0000	100 lines
[git/cctbx_project] master: Revert "Disable kokkos for Azure (no gpu on Azure)" (76d8fe6886)	CCTBX commit	Fri, 16 Dec 2022 09:17:56 -0800	98 lines
[git/cctbx_project] master: Update LCLS readme to add LCLS environment instructions (1796e19072)	CCTBX commit	Thu, 15 Dec 2022 13:53:03 -0800	184 lines
[git/cctbx_project] master: Remove array_type from get_fmodel call (ea9a808191)	CCTBX commit	Thu, 15 Dec 2022 13:36:02 -0800	159 lines
[git/cctbx_project] master: clean clutter (2846bacea4)	CCTBX commit	Thu, 15 Dec 2022 13:23:07 -0700	61 lines
[git/cctbx_project] master: Remove checks for conversion of F,Phi to complex F and for HL arrays that stopped if mixture of NaN and values; new behavior is skip those values in the array instead (1706035e6a)	CCTBX commit	Thu, 15 Dec 2022 13:10:58 -0700	247 lines
[git/cctbx_project] master: fix a confusing message (bd374097e0)	CCTBX commit	Thu, 15 Dec 2022 10:34:30 -0800	102 lines
[git/cctbx_project] master: reenable non-psana xfel tests (d0efea7be3)	CCTBX commit	Thu, 15 Dec 2022 10:28:53 -0800	150 lines
[git/cctbx_project] master: Add SIT_ROOT to XFEL GUI templates (c31dd1ecf8)	CCTBX commit	Thu, 15 Dec 2022 10:05:32 -0800	120 lines
[git/cctbx_project] master: general improvements of QMR including new parameters and defaults (3a9ab0ca9b)	CCTBX commit	Thu, 15 Dec 2022 09:55:12 -0800	1368 lines
[git/dxtbx] main: Cbf trusted range (#595) (f8a520c3)	DXTBX commit	Thu, 15 Dec 2022 11:51:20 -0500	439 lines
[git/cctbx_project] master: README: add nightly Python 3.11 test results (05553e7e0f)	CCTBX commit	Thu, 15 Dec 2022 13:21:36 +0100	316 lines
[git/dxtbx] main: Use standalone ``nxmx`` package (#597) (af33015a)	DXTBX commit	Thu, 15 Dec 2022 11:51:06 +0000	117 lines
[git/cctbx_project] master: Add nxmx to conda dependencies (#830) (b4e4959f90)	CCTBX commit	Thu, 15 Dec 2022 11:49:10 +0000	90 lines
[git/cctbx_project] master: XFEL GUI: validate rayonix better in rungroups dialog (c6422fa2cd)	CCTBX commit	Wed, 14 Dec 2022 17:16:33 -0800	181 lines
[git/cctbx_project] master: XFEL GUI: disable legacy dispatchers (a9f4be0afb)	CCTBX commit	Wed, 14 Dec 2022 16:48:02 -0800	162 lines
[git/cctbx_project] master: DataManager: add scattering table options as possible argument to update_all_defaults (6580734943)	CCTBX commit	Wed, 14 Dec 2022 23:23:52 +0100	158 lines
[git/cctbx_project] master: formatting (3b0cedbc49)	CCTBX commit	Wed, 14 Dec 2022 14:02:03 -0800	218 lines
[git/cctbx_project] master: Remove monomer_library from pdbtools.py to allow voyager_regression\em_placement\tst_emplace_local.py to run in a minimal phasertng build (cecd19f864)	CCTBX commit	Wed, 14 Dec 2022 19:36:09 +0000	94 lines
[git/cctbx_project] master: de-clutter (511806d067)	CCTBX commit	Wed, 14 Dec 2022 18:54:44 +0000	61 lines
[git/cctbx_project] master: Unpin everything (#828) (b839eb306e)	CCTBX commit	Wed, 14 Dec 2022 13:36:03 -0500	150 lines
[git/cctbx_project] master: allow retaining input order of arguments for emitted results by multi_core_run() (ae90e72196)	CCTBX commit	Wed, 14 Dec 2022 18:05:13 +0000	133 lines
[git/cctbx_project] master: azure xfel: remove enable_cxx11 (85e2ceb5d3)	CCTBX commit	Wed, 14 Dec 2022 09:04:26 -0800	128 lines
[git/cctbx_project] master: CBF trusted range updates (#829) (b64fa3e1ff)	CCTBX commit	Tue, 13 Dec 2022 13:04:20 -0500	195 lines
[git/cctbx_project] master: Set SIT_ROOT for psana tests (b75bb60408)	CCTBX commit	Mon, 12 Dec 2022 14:06:48 -0800	101 lines
[git/cctbx_project] master: XFEL builder: set cxxstd to c++14 (c6378d18ba)	CCTBX commit	Mon, 12 Dec 2022 13:17:07 -0800	100 lines
[git/cctbx_project] master: build diffBragg_ext if cxxstd is c++14 (459e350f8f)	CCTBX commit	Mon, 12 Dec 2022 13:15:23 -0800	100 lines
[git/cctbx_project] master: Work around for when ev11 gets a negative global_sum_of_delta_squared_in_bin for a given bin (58f0fab7ff)	CCTBX commit	Mon, 12 Dec 2022 10:00:24 -0800	112 lines
[git/cctbx_project] master: DataManager: add test for scattering_table_mixins (0a4d3969d3)	CCTBX commit	Sun, 11 Dec 2022 12:00:15 +0100	163 lines
[git/cctbx_project] master: Incremental change for SPREAD minimizer. (dac747738c)	CCTBX commit	Sat, 10 Dec 2022 10:03:44 -0800	333 lines
[git/dxtbx] main: Ensure conversion to `flex.int` via conversion to `np.intc` (#594) (fe5b43e7)	DXTBX commit	Fri, 9 Dec 2022 20:41:23 +0000	514 lines
[git/cctbx_project] master: moved (bb2d2ddf85)	CCTBX commit	Thu, 8 Dec 2022 18:53:10 -0800	917 lines
[git/cctbx_project] master: Converted to use program template and DataManager, moved to phenix/programs (cad0585b5e)	CCTBX commit	Thu, 8 Dec 2022 18:10:55 -0800	93 lines
[git/cctbx_project] master: DataManager: add functions of handling model/array types and scattering tables (66d1ba3dec)	CCTBX commit	Thu, 8 Dec 2022 14:15:56 -0800	393 lines
[git/dxtbx] main: For FullCBFs, try underload before falling back on undefined (#592) (253a8065)	DXTBX commit	Thu, 8 Dec 2022 08:20:51 -0800	219 lines
[git/cctbx_project] master: libtbx: add general flag for setting the C++ standard (47c364ac55)	CCTBX commit	Thu, 8 Dec 2022 02:27:12 -0800	375 lines
[git/cctbx_project] master: Unused import (44802141aa)	CCTBX commit	Wed, 7 Dec 2022 15:22:21 -0800	87 lines
[git/cctbx_project] master: Docstring (8cdc3691ba)	CCTBX commit	Wed, 7 Dec 2022 14:59:14 -0800	108 lines
[git/cctbx_project] master: Hierarchy function for rounding occupancies with test. Not in use yet. (719f9fc2a4)	CCTBX commit	Wed, 7 Dec 2022 14:59:14 -0800	740 lines
[git/cctbx_project] master: Make use of crystal.symmetry from Phil if given. This fixes a bug leading to symmetry conflicts in Phaser+phenix.refine pipeline. Also, this addresses: UR-1913 and UR-2323 (f0d2665cc7)	CCTBX commit	Wed, 7 Dec 2022 12:01:25 -0800	194 lines
[git/cctbx_project] master: pin psana version (8e0be9c43f)	CCTBX commit	Wed, 7 Dec 2022 12:10:28 -0500	99 lines
[git/dxtbx] main: remove walrus operators to be less-incompatible with py37 (#591) (d1ac171c)	DXTBX commit	Wed, 7 Dec 2022 11:43:36 -0500	356 lines
[git/cctbx_project] master: Fix typo (fbc4ff6d59)	CCTBX commit	Tue, 6 Dec 2022 18:39:26 -0800	90 lines
[git/cctbx_project] master: All HIS protonation states (24f7284fbd)	CCTBX commit	Tue, 6 Dec 2022 18:39:26 -0800	1278 lines
[git/cctbx_project] master: Strickter check for symmetry (92b15d7ce8)	CCTBX commit	Tue, 6 Dec 2022 18:39:26 -0800	96 lines
[git/cctbx_project] master: More code to build and fit HIS with apropriate protonation (54ef622749)	CCTBX commit	Tue, 6 Dec 2022 18:39:26 -0800	426 lines
[git/cctbx_project] master: Make use of a more flexible method (5c48fcced8)	CCTBX commit	Tue, 6 Dec 2022 18:39:26 -0800	156 lines
[git/cctbx_project] master: Add another helper method (6cd6667a38)	CCTBX commit	Tue, 6 Dec 2022 18:39:26 -0800	121 lines
[git/cctbx_project] master: Allow residue and residue_group (ab79d993ad)	CCTBX commit	Tue, 6 Dec 2022 18:39:26 -0800	204 lines
[git/cctbx_project] master: Allow more flex in score, add another flavor of score (9c1e8ff450)	CCTBX commit	Tue, 6 Dec 2022 18:39:26 -0800	283 lines
[git/cctbx_project] master: Prevent `all_integrated_refls = None` returned by integrate worker (ed724bb7f4)	CCTBX commit	Tue, 6 Dec 2022 13:13:18 -0800	110 lines
[git/dxtbx] main: FormatXTCRayonix: fix max trusted value (see cctbx/cctbx_project#825) (#590) (e4cc083e)	DXTBX commit	Tue, 6 Dec 2022 18:21:53 +0000	116 lines
[git/cctbx_project] master: update rayonix trusted values to match cctbx/dxtbx#536 (0a1cd2b98f)	CCTBX commit	Tue, 6 Dec 2022 08:35:41 -0800	98 lines
[git/dxtbx] main: DIALS 3.12.1 Changelog (450277d9)	DXTBX commit	Mon, 5 Dec 2022 16:43:33 +0000	190 lines
[git/dxtbx] main: NXmx: fallback on beam_center_{x, y} (#588) (bb5f2e18)	DXTBX commit	Mon, 5 Dec 2022 10:41:57 +0000	250 lines
[git/cctbx_project] master: Change Emean value for extremely low information terms from 0 to 1. (53f27e2ae8)	CCTBX commit	Mon, 5 Dec 2022 10:40:38 +0000	95 lines
[git/cctbx_project] master: CI: pin ubuntu-20.04 to avoid Docker crash (c1d27076fb)	CCTBX commit	Sat, 3 Dec 2022 00:03:15 -0800	127 lines
[git/cctbx_project] master: Pin boost and disable some XFEL CI builders (32ef46e20b)	CCTBX commit	Fri, 2 Dec 2022 15:13:24 -0800	185 lines
[git/cctbx_project] master: DataManager: load more files in test (c177af0c41)	CCTBX commit	Fri, 2 Dec 2022 13:05:11 -0800	95 lines
[git/cctbx_project] master: DataManager: add convenience function for setting type (a0b68d46fb)	CCTBX commit	Fri, 2 Dec 2022 12:48:30 -0800	239 lines
[git/cctbx_project] master: Update CHANGELOG.rst for 2022.11 release (c4ecb8f69a)	CCTBX commit	Fri, 2 Dec 2022 10:26:07 -0800	96 lines
[git/cctbx_project] tag 'v2022.11' created	CCTBX commit	Fri, 2 Dec 2022 10:26:07 -0800	40 lines
[git/dxtbx] main: Include vacuum flange mask for the SINGLA at eBIC (#589) (786b8615)	DXTBX commit	Fri, 2 Dec 2022 17:14:05 +0000	232 lines
[git/dxtbx] main: Trusted range fix for FormatCBFFull (#587) (474fd828)	DXTBX commit	Fri, 2 Dec 2022 10:21:46 +0000	171 lines
[git/cctbx_project] master: amber win32 and remove erraser (63e118d404)	CCTBX commit	Thu, 1 Dec 2022 14:01:30 -0800	134 lines
[git/cctbx_project] master: fixes Fhkl modeling edge-case bug (ab6a480240)	CCTBX commit	Thu, 1 Dec 2022 12:21:42 -0800	523 lines
[git/dxtbx] main: `FormatNXmx` fixes for DECTRIS EIGER Filewriter (#586) (2bffbcb9)	DXTBX commit	Thu, 1 Dec 2022 11:34:54 +0000	422 lines
[git/cctbx_project] master: Convenience attributes for the reciprocal axes. (b96ec782a4)	CCTBX commit	Wed, 30 Nov 2022 22:33:04 -0800	104 lines

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December 2022

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