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Subject	From	Date	Size
[git/cctbx] master: More commenting out (46cf5f5e7)	CCTBX commit	Wed, 31 Jan 2018 13:59:29 -0800	192 lines
[git/cctbx] master: Commenting out functionality realted to creating iotbx.ncs.input object using transform_info, rotations, translations and according tests. This will be removed shortly if no serious concerns raised. (af2f6c53d)	CCTBX commit	Wed, 31 Jan 2018 11:39:37 -0800	2758 lines
[git/cctbx] master: Fix minor typos and stop if cell has changed and we need to extract unique au (80ab5e672)	CCTBX commit	Wed, 31 Jan 2018 09:52:13 -0800	348 lines
[git/cctbx] master: Clean clutter (25e1b0f69)	CCTBX commit	Wed, 31 Jan 2018 15:34:52 +0000	50 lines
[git/cctbx] master: Addition of ScalingModelFactory and Interface to the model. (5b765f4cb)	CCTBX commit	Wed, 31 Jan 2018 14:57:56 +0000	372 lines
[git/cctbx] master: Addition of scaling_model to dxtbx.model. (6a3523a7b)	CCTBX commit	Wed, 31 Jan 2018 14:57:56 +0000	615 lines
[git/cctbx] master: Correcting warning message. (35f186872)	CCTBX commit	Wed, 31 Jan 2018 14:57:56 +0000	72 lines
[git/cctbx] master: Corrections to code and reconfiguring to use python entry points. (b1b19bad7)	CCTBX commit	Wed, 31 Jan 2018 14:57:56 +0000	735 lines
[git/cctbx] master: fix missing import (5db9ec02d)	CCTBX commit	Tue, 30 Jan 2018 18:41:21 -0800	75 lines
[git/cctbx] master: Commenting out iotbx.pdb.input creation from spec. It will be removed shortly if no serious concerns raised. (76f936d0a)	CCTBX commit	Tue, 30 Jan 2018 18:14:14 -0800	1580 lines
[git/cctbx] master: Fix for a cryptic crash when using super-huge cryo-EM maps/models. (c6baf7a64)	CCTBX commit	Tue, 30 Jan 2018 17:41:35 -0800	155 lines
[git/cctbx] master: Removing some unused self.blabla from iotbx.ncs.input. Comments, API streamlining. (61fc6e8ef)	CCTBX commit	Tue, 30 Jan 2018 17:26:07 -0800	544 lines
[git/cctbx] master: More refactoring, annotations. (b5046215c)	CCTBX commit	Tue, 30 Jan 2018 17:25:53 -0800	788 lines
[git/cctbx] master: Remove unused parameters from the function. Adjust tests. (837ee2ff0)	CCTBX commit	Tue, 30 Jan 2018 17:25:53 -0800	327 lines
[git/cctbx] master: Another unused, untested function. (9c983a7d8)	CCTBX commit	Tue, 30 Jan 2018 17:25:53 -0800	320 lines
[git/cctbx] master: Commenting out unused and untested code for now to see if any of Tom's tools are dependent. Removing later. (88b8d0347)	CCTBX commit	Tue, 30 Jan 2018 17:25:52 -0800	770 lines
[git/cctbx] master: DataManager and CCTBXParser check datatypes: * File parsing in CCTBXParser will check that the DataManager supports that particular datatype * Added "supports" function for checking if DataManager supports a particular datatype * Changed CCTBXParser phil file parsing order from alphabetically ascending to order from command-line * CCTBXParser shows final PHIL parameters before starting job * mmtbx.prepare_pdb_deposition program class defines desired datatypes (a996b5715)	CCTBX commit	Tue, 30 Jan 2018 16:25:38 -0800	412 lines
[git/cctbx] master: The whole point of parameter's default value is that function can produce meaninful result with them. In all other cases they should not be defined so developers would not be mislead by them. (c5c1b5a4e)	CCTBX commit	Tue, 30 Jan 2018 15:31:41 -0800	84 lines
[git/cctbx] master: set maximum size for resolve map (5ead267f9)	CCTBX commit	Tue, 30 Jan 2018 16:11:15 -0700	160 lines
[git/cctbx] master: clean clutter (7364f74e4)	CCTBX commit	Tue, 30 Jan 2018 14:36:10 -0800	116 lines
Jenkins 5a cctbx Tests build 5859 Fixed	DLS Jenkins	Tue, 30 Jan 2018 22:10:05 +0000	37 lines
[git/cctbx] master: fix typo (69888d372)	CCTBX commit	Tue, 30 Jan 2018 14:06:53 -0800	74 lines
Jenkins 5a cctbx Tests build 5858 Failure	DLS Jenkins	Tue, 30 Jan 2018 22:06:51 +0000	157 lines
[git/cctbx] master: Check on available memory (139c4ae60)	CCTBX commit	Tue, 30 Jan 2018 14:05:05 -0800	274 lines
[git/cctbx] master: mmtbx.prepare_pdb_deposition: * Update to use writing functions in DataManager (a66321f0c)	CCTBX commit	Tue, 30 Jan 2018 13:31:42 -0800	131 lines
[git/cctbx] master: Clean clutter (51f0dd0b1)	CCTBX commit	Tue, 30 Jan 2018 13:26:03 -0800	77 lines
[git/cctbx] master: DataManager: * Added functionality for writing files (384fa7f23)	CCTBX commit	Tue, 30 Jan 2018 13:25:05 -0800	323 lines
[git/cctbx] master: CCTBXParser: * Added support for datatypes from ProgramTemplate (ade5c0ea7)	CCTBX commit	Tue, 30 Jan 2018 11:10:33 -0800	79 lines
[git/cctbx] master: ProgramTemplate: * Added class variable for datatypes * Allows developer to choose the kinds of files that the program expects (59be217ca)	CCTBX commit	Tue, 30 Jan 2018 11:08:46 -0800	83 lines
[git/cctbx] master: DataManager: * Made more modular * DataManager class is dynamically generated based on desired datatypes (4fa9a142a)	CCTBX commit	Tue, 30 Jan 2018 10:58:52 -0800	1892 lines
[git/cctbx] master: use less memory and fix minor typo (7c7ce247d)	CCTBX commit	Mon, 29 Jan 2018 20:06:55 -0800	374 lines
[git/cctbx] master: clean clutter (70dbb2f79)	CCTBX commit	Mon, 29 Jan 2018 18:41:41 -0700	85 lines
[git/cctbx] master: import (cd6d70ae1)	CCTBX commit	Mon, 29 Jan 2018 17:38:48 -0800	70 lines
[git/cctbx] master: Actually removing commented out functions (bf00566c8)	CCTBX commit	Mon, 29 Jan 2018 17:26:16 -0800	209 lines
[git/cctbx] master: More cleanup (4fa247cfc)	CCTBX commit	Mon, 29 Jan 2018 17:21:52 -0800	309 lines
[git/cctbx] master: Move selection facility to def select of ncs group. Move and adjust test. Now select should keep size of master and copy selections the same in addition to renumbering iseqs properly. (572993c87)	CCTBX commit	Mon, 29 Jan 2018 17:21:52 -0800	689 lines
[git/cctbx] master: Allow cutting out part of big structures (87b0f641e)	CCTBX commit	Mon, 29 Jan 2018 16:56:09 -0800	2442 lines
[git/cctbx] master: libtbx.find_unused_imports_crude (076f45bd5)	CCTBX commit	Mon, 29 Jan 2018 15:46:55 -0800	74 lines
[git/cctbx] master: Refactoring to improve efficeintcy. Mtrige: show statis using original and maksed maps. Possibly brakes Mtriage GUI. (232666d36)	CCTBX commit	Mon, 29 Jan 2018 15:30:11 -0800	2590 lines
[git/cctbx] master: preserving central location of hashlib usage and fixing tests that were broken by warning (82eafaab1)	CCTBX commit	Mon, 29 Jan 2018 12:29:31 -0800	78 lines
[git/cctbx] master: Fixed output of sweep diff (7598867a6)	CCTBX commit	Mon, 29 Jan 2018 16:35:15 +0000	280 lines
[git/cctbx] master: Add a method to mark an image to exclude from processing in the imageset (f948784d3)	CCTBX commit	Mon, 29 Jan 2018 14:57:25 +0000	304 lines
[git/cctbx] master: deprecate Python <2.5 compatibility layer (68d5b7c41)	CCTBX commit	Mon, 29 Jan 2018 11:02:25 +0000	147 lines
[git/cctbx] master: minor printout change (bfe9c4a48)	CCTBX commit	Sat, 27 Jan 2018 08:00:00 -0800	110 lines
[git/cctbx] master: cleanup (add787943)	CCTBX commit	Fri, 26 Jan 2018 18:06:16 -0800	215 lines
[git/cctbx] master: More moving from ncs_utils. Separated new function make_nth_copy_master for group. (3a30c88bc)	CCTBX commit	Fri, 26 Jan 2018 18:06:16 -0800	244 lines
[git/cctbx] master: Rearrange. Add xyz for all results. Adapt tests. (84c1167f1)	CCTBX commit	Fri, 26 Jan 2018 16:54:41 -0800	500 lines
[git/cctbx] master: addresses cctbxbb thread. iotbx/detectors is the only subpackage that cares about dxtbx (5f50c1aae)	CCTBX commit	Fri, 26 Jan 2018 15:17:04 -0800	71 lines
[git/cctbx] master: small corrections (0f8430634)	CCTBX commit	Fri, 26 Jan 2018 12:23:32 -0800	114 lines
[git/cctbx] master: DataManager: * Added functionality for trying to load a file if it is not already being managed (f9d0f57a1)	CCTBX commit	Fri, 26 Jan 2018 10:19:38 -0800	179 lines
[git/cctbx] master: Grad buttons work in IOTA file list control (25b292829)	CCTBX commit	Thu, 25 Jan 2018 15:10:10 -0800	218 lines
[git/cctbx] master: Image tracker: chart selector visible again (788876fec)	CCTBX commit	Thu, 25 Jan 2018 14:06:03 -0800	209 lines
[git/cctbx] master: Image tracker: can now stop spotfinding and re-start w/ new folder (9e4838022)	CCTBX commit	Thu, 25 Jan 2018 13:45:24 -0800	653 lines
[git/cctbx] master: DataManager: * Reverting 1f13df3e165faeac263b5fa92c14ddb1557e5f0d * "add" function already sets default if necessary (752862bb5)	CCTBX commit	Thu, 25 Jan 2018 11:24:38 -0800	107 lines
[git/cctbx] master: Bugfix for builders where xfel is not configured, such as labelit (48717e409)	CCTBX commit	Thu, 25 Jan 2018 09:33:29 -0800	116 lines
[git/cctbx] master: Fix Crystal subclass “is_similar_to” warnings (b485bf2cd)	CCTBX commit	Thu, 25 Jan 2018 16:58:48 +0000	334 lines
[git/cctbx] master: fixes for DLS I03 full CBF format class (a328ceb1b)	CCTBX commit	Thu, 25 Jan 2018 15:02:18 +0000	101 lines
[git/cctbx] master: Alter copy-construction of dxtbx::model::Detector (d79b2afb8)	CCTBX commit	Thu, 25 Jan 2018 14:17:36 +0000	244 lines
[git/cctbx] master: Avoiding unnecessary writing: Converting images to double (3a7b056fc)	CCTBX commit	Thu, 25 Jan 2018 14:15:46 +0000	108 lines
[git/cctbx] master: don't use root logger (318b414fd)	CCTBX commit	Thu, 25 Jan 2018 12:53:27 +0000	447 lines
[git/cctbx] master: further code cleanup (99ffd3c3d)	CCTBX commit	Wed, 24 Jan 2018 18:19:40 -0800	73 lines
[git/cctbx] master: code clean-up (e67061d1d)	CCTBX commit	Wed, 24 Jan 2018 17:41:24 -0800	205 lines
[git/cctbx] master: Step 2: closer to proper OOP in NCS: moving functions out of ncs_utils into class_ncs_restraints_group_list. Also moving appropriate tests to a separate file. Adopting changes across the codebase. Removing some unused functions and tests. (31132bcf8)	CCTBX commit	Wed, 24 Jan 2018 17:25:58 -0800	1139 lines
[git/cctbx] master: New SIMTBX GUI; not yet ready for prime-time (a79d0d9b1)	CCTBX commit	Wed, 24 Jan 2018 17:24:45 -0800	91 lines
[git/cctbx] master: minor bug fixes, mostly for GUI (52be221bf)	CCTBX commit	Wed, 24 Jan 2018 17:24:45 -0800	785 lines
[git/cctbx] master: clean clutter (8197ab43c)	CCTBX commit	Wed, 24 Jan 2018 16:28:53 -0800	115 lines
[git/cctbx] master: Annotate functions in ncs_utils (644ca04f1)	CCTBX commit	Wed, 24 Jan 2018 15:56:24 -0800	540 lines
[git/cctbx] master: Step closer to proper OOP in NCS: moving functions out of ncs_utils into class_ncs_restraints_group_list. Also moving appropriate tests to a separate file. Adopting changes across the codebase. Removing some unused functions and tests. (4b71604fc)	CCTBX commit	Wed, 24 Jan 2018 15:56:24 -0800	96 lines
[git/cctbx] master: DataManager: * Set initial default when loading from phil (1f13df3e1)	CCTBX commit	Wed, 24 Jan 2018 13:35:33 -0800	129 lines
[git/cctbx] master: Flag model with neutron_distance flag but with X-ray X-H distances in model. (b21fc8622)	CCTBX commit	Wed, 24 Jan 2018 11:48:42 -0800	670 lines
[git/cctbx] master: mtz.object.change_basis_in_place(): update umat (255cea644)	CCTBX commit	Wed, 24 Jan 2018 17:46:28 +0000	311 lines
[git/cctbx] master: Bug fix: * Import statement within function caused isses with running the program as a detached process (9f7098014)	CCTBX commit	Wed, 24 Jan 2018 09:32:23 -0800	89 lines
[git/cctbx] master: clean clutter (f50cad10d)	CCTBX commit	Wed, 24 Jan 2018 15:43:07 +0000	477 lines
[git/cctbx] master: remove attributes from files that don't exist anymore (f28dfa856)	CCTBX commit	Wed, 24 Jan 2018 15:29:35 +0000	832 lines
[git/cctbx] master: remove reduce() from dxtbx (df579f754)	CCTBX commit	Wed, 24 Jan 2018 15:24:48 +0000	389 lines
[git/cctbx] master: mmtbx.prepare_pdb_deposition: * Added phil scope for output * Updated validate function for changes in DataManager (2f3893496)	CCTBX commit	Tue, 23 Jan 2018 17:01:33 -0800	178 lines
[git/cctbx] master: DataManager: * Fix comment (6a643c697)	CCTBX commit	Tue, 23 Jan 2018 16:49:35 -0800	79 lines
[git/cctbx] master: CCTBXParser: * Added command-line flags for outputting different levels of PHIL parameters * Added functionality for loading PHIL parameters from files * Works with DataManager phil scope (2df2be0c3)	CCTBX commit	Tue, 23 Jan 2018 16:44:21 -0800	420 lines
[git/cctbx] master: DataManager: * Changed default for raise_sorry from True to False * Preserve file order when loading from phil (c2fae3249)	CCTBX commit	Tue, 23 Jan 2018 16:37:59 -0800	216 lines
[git/cctbx] master: Corrected with python convention, thanks Markus. Warning still stays for those not familiar with it. (b7ac636dd)	CCTBX commit	Tue, 23 Jan 2018 16:21:43 -0800	123 lines
[git/cctbx] master: Fix xtc_process when reading multiple runs. (b5200ba8c)	CCTBX commit	Tue, 23 Jan 2018 15:43:49 -0800	102 lines
[git/cctbx] master: Fixes for xtc_process and datasource (2a1692d06)	CCTBX commit	Tue, 23 Jan 2018 15:35:45 -0800	224 lines
[git/cctbx] master: comment (26658db0b)	CCTBX commit	Tue, 23 Jan 2018 15:24:39 -0800	81 lines
[git/cctbx] master: Streamlining class structure here. Get rid of operators class. (c5687994f)	CCTBX commit	Tue, 23 Jan 2018 15:19:49 -0800	926 lines
[git/cctbx] master: Taking global parameters out of group (3ea6737c6)	CCTBX commit	Tue, 23 Jan 2018 15:19:49 -0800	664 lines
[git/cctbx] master: More refactoring: removing groups class (1ddf11474)	CCTBX commit	Tue, 23 Jan 2018 15:19:49 -0800	378 lines
[git/cctbx] master: Renaming files so names reflect their functionality (ea907cc5f)	CCTBX commit	Tue, 23 Jan 2018 15:19:49 -0800	80 lines
[git/cctbx] master: DataManager: * Use master phil in load_phil_scope function (c35cc0123)	CCTBX commit	Tue, 23 Jan 2018 14:13:50 -0800	133 lines
[git/cctbx] master: DataManager: * Added functions for exporting and loading from a PHIL file * Added function for processing files based on datatype (247546b90)	CCTBX commit	Tue, 23 Jan 2018 14:00:20 -0800	621 lines
[git/cctbx] master: CCTBXParser: * added output for unrecognized files (2365e1d3e)	CCTBX commit	Tue, 23 Jan 2018 11:24:53 -0800	112 lines
[git/cctbx] master: remove libtbx/pexpect.py (26c36d273)	CCTBX commit	Tue, 23 Jan 2018 18:26:20 +0000	56 lines
[git/cctbx] master: more Python3 compatibility changes, this time in libtbx (b1bf42938)	CCTBX commit	Tue, 23 Jan 2018 16:58:11 +0000	1974 lines
[git/cctbx] master: random Python3 compatibility changes (bd6e50c56)	CCTBX commit	Tue, 23 Jan 2018 16:25:36 +0000	251 lines
[git/cctbx] master: clean clutter (69218de95)	CCTBX commit	Tue, 23 Jan 2018 07:31:39 -0800	93 lines
[git/cctbx] master: Add basic functionality to Beam to record a scan-varying s0 vector (3fbb1745a)	CCTBX commit	Tue, 23 Jan 2018 15:10:50 +0000	472 lines
[git/cctbx] master: extend operator== and is_similar_to checks to test scan-varying s0 (db6d1e172)	CCTBX commit	Tue, 23 Jan 2018 15:10:50 +0000	316 lines
[git/cctbx] master: Support conversion of scan-varying beam to/from dict (ee77ef316)	CCTBX commit	Tue, 23 Jan 2018 15:10:50 +0000	221 lines
[git/cctbx] master: Add pickle support to scan-varying beam using the getstate, setstate and getstate_manages_dict methods of BeamPickleSuite (c0a673c8a)	CCTBX commit	Tue, 23 Jan 2018 15:10:50 +0000	141 lines
[git/cctbx] master: change to_dict/from_dict for scan-varying Beam to use boost python list and tuple instead of array of vec3 so that the dict representation can be serialised to json. Move the definitions to make use of a function defined earlier in the file. (0c5fdffc1)	CCTBX commit	Tue, 23 Jan 2018 15:10:50 +0000	408 lines
[git/cctbx] master: Python 2->3 compatibility changes (b196e434a)	CCTBX commit	Tue, 23 Jan 2018 14:18:42 +0000	160 lines
[git/cctbx] master: Allow return of auto_sharpen map in original position with return_shifted_map=True (b6d0f82e3)	CCTBX commit	Tue, 23 Jan 2018 06:14:44 -0800	165 lines
Jenkins 5a cctbx Tests build 5787 Fixed	DLS Jenkins	Tue, 23 Jan 2018 11:32:40 +0000	37 lines
[git/cctbx] master: remove subprocess_with_fixes (a00221494)	CCTBX commit	Tue, 23 Jan 2018 11:23:23 +0000	123 lines
Jenkins 5a cctbx Tests build 5786 Still Failing	DLS Jenkins	Tue, 23 Jan 2018 09:27:47 +0000	172 lines
[git/cctbx] master: Migrate annlib_adaptbx to github. (0c59e52eb)	CCTBX commit	Tue, 23 Jan 2018 09:25:59 +0000	141 lines
Jenkins 5a cctbx Tests build 5785 Failure	DLS Jenkins	Tue, 23 Jan 2018 08:45:51 +0000	168 lines
[git/cctbx] master: Revert "Revert "Python3 syntaxification, #80"" (0d77a8396)	CCTBX commit	Tue, 23 Jan 2018 08:31:36 +0000	2074 lines
[git/cctbx] master: actually remove refactored functionality (0835b9a50)	CCTBX commit	Mon, 22 Jan 2018 18:46:57 -0800	2234 lines
[git/cctbx] master: clutter, import duplication (66738a062)	CCTBX commit	Mon, 22 Jan 2018 17:52:10 -0800	69 lines
[git/cctbx] master: moving ncs params to mmtbx from phenix.refine (9bacd1419)	CCTBX commit	Mon, 22 Jan 2018 17:37:31 -0800	260 lines
[git/cctbx] master: CCTBXParser: * added option for writing non-default PHIL parameters * all PHIL parameters written * minor change to log output (cabd43eae)	CCTBX commit	Mon, 22 Jan 2018 16:40:49 -0800	260 lines
[git/cctbx] master: Meaningful name for ncs constraints everywhere (9e09f1e5d)	CCTBX commit	Mon, 22 Jan 2018 15:38:39 -0800	527 lines
[git/cctbx] master: Angle outliers involving hydrogens. With test. (ef9ee5f2d)	CCTBX commit	Mon, 22 Jan 2018 15:09:34 -0800	581 lines
[git/cctbx] master: Analyse bond outliers. With tests. (c8dce84ef)	CCTBX commit	Mon, 22 Jan 2018 14:27:39 -0800	1073 lines
[git/cctbx] master: Change printout only (5f070560f)	CCTBX commit	Mon, 22 Jan 2018 13:26:13 -0800	84 lines
[git/cctbx] master: DivCon minimisation bugfix (dde0e9ac3)	CCTBX commit	Mon, 22 Jan 2018 13:21:03 -0800	79 lines
[git/cctbx] master: Removing untested and unused functionality (ncs_averaging while outputting maps). (4bf39a5a8)	CCTBX commit	Mon, 22 Jan 2018 12:41:33 -0800	527 lines
[git/cctbx] master: Catching None and raising Sorry instead of traceback. (c460b36a3)	CCTBX commit	Mon, 22 Jan 2018 10:44:00 -0800	92 lines
[git/cctbx] master: fix minor bug failing to set n_residues (bb9cca421)	CCTBX commit	Mon, 22 Jan 2018 10:43:34 -0800	116 lines
[git/cctbx] master: minor printout changes (02e6f3938)	CCTBX commit	Mon, 22 Jan 2018 09:20:40 -0800	91 lines
[git/cctbx] master: clean clutter (6584bfc6c)	CCTBX commit	Sun, 21 Jan 2018 19:21:26 -0800	48 lines
[git/cctbx] master: Automatically identify solvent fraction (ed55f2945)	CCTBX commit	Sun, 21 Jan 2018 19:20:50 -0800	91 lines
[git/cctbx] master: Automatically identify solvent fraction (26aa71864)	CCTBX commit	Sun, 21 Jan 2018 19:03:50 -0800	690 lines
[git/cctbx] master: clean clutter (a5ce9d9ee)	CCTBX commit	Sat, 20 Jan 2018 11:57:46 -0800	48 lines
[git/cctbx] master: Fix minor bug in chain_comparison where RNA residues could be included when trying to find suitable chain to start NCS matching for protein chains (8a9ab4cda)	CCTBX commit	Sat, 20 Jan 2018 11:08:13 -0800	135 lines
[git/cctbx] master: trailing empty lines (f2e36d275)	CCTBX commit	Fri, 19 Jan 2018 20:59:59 -0800	69 lines
[git/cctbx] master: initial reorganisation of cartesian ncs into manager class and fixing tests (cf5287bb5)	CCTBX commit	Fri, 19 Jan 2018 19:17:11 -0800	1623 lines
[git/cctbx] master: Restoring truncate_to_polyala in pdbtools and adding truncate_to_polygly (20b8af01b)	CCTBX commit	Fri, 19 Jan 2018 18:22:04 -0800	237 lines
[git/cctbx] master: mmtbx.prepare_pdb_deposition: * Reorganized to use new CCTBXParser and program template format * Some extra code for testing citations (will be removed in the future) (d9d281d72)	CCTBX commit	Fri, 19 Jan 2018 16:25:21 -0800	546 lines
[git/cctbx] master: Program template: * Reorganized and added class variables for program-specific information * Compatible with CCTBXParser command-line parser (37b23e39c)	CCTBX commit	Fri, 19 Jan 2018 16:22:34 -0800	133 lines
[git/cctbx] master: Command-line parser: * Added new command-line parser based on argparse * CCTBXParser class contains standard command-line flags and behaviors for processing command-line arguments (82a20c4cc)	CCTBX commit	Fri, 19 Jan 2018 16:19:42 -0800	851 lines
[git/cctbx] master: better than clean clutter (4d27cbaa9)	CCTBX commit	Fri, 19 Jan 2018 20:14:01 +0000	66 lines
[git/cctbx] master: Clean clutter (870a03211)	CCTBX commit	Fri, 19 Jan 2018 11:58:36 -0800	63 lines
[git/cctbx] master: Cleanup. (6912103fc)	CCTBX commit	Fri, 19 Jan 2018 11:06:27 -0800	631 lines
[git/cctbx] master: Some cleanup and more tests. (672bfd012)	CCTBX commit	Fri, 19 Jan 2018 10:26:12 -0800	737 lines
[git/cctbx] master: Data Manager: * Added option for raising Sorry when checking counts (a41bc511e)	CCTBX commit	Fri, 19 Jan 2018 10:25:02 -0800	246 lines
[git/cctbx] master: Data Manager: * Added function for checking counts (8ab8383a7)	CCTBX commit	Fri, 19 Jan 2018 10:08:31 -0800	182 lines
[git/cctbx] master: Enable second half of pytest compatibility layer for dxtbx (e202ccecb)	CCTBX commit	Fri, 19 Jan 2018 11:24:38 +0000	118 lines
Jenkins 5b cctbx MacOS build 1983 Fixed	DLS Jenkins	Fri, 19 Jan 2018 06:53:03 +0000	37 lines
[git/cctbx] master: Allow for more than one material i.e. CdTe; pass forward (9fd81888c)	CCTBX commit	Fri, 19 Jan 2018 06:08:39 +0000	114 lines
[git/cctbx] master: Some cleanup, comments. (5e135dbc8)	CCTBX commit	Thu, 18 Jan 2018 17:07:06 -0800	190 lines
Jenkins 5b cctbx MacOS build 1982 Failure	DLS Jenkins	Fri, 19 Jan 2018 00:21:46 +0000	137 lines
[git/cctbx] master: command-line bug fixes (20500b0ca)	CCTBX commit	Thu, 18 Jan 2018 15:53:41 -0800	221 lines
[git/cctbx] master: Better parameter name and more tests. (dc97c153c)	CCTBX commit	Thu, 18 Jan 2018 15:41:53 -0800	553 lines
[git/cctbx] master: fetch_pdb: enable PDB-REDO mirror in command-line tool; clean up some lingering code; (45a2b17fd)	CCTBX commit	Thu, 18 Jan 2018 11:25:38 -0800	177 lines
[git/cctbx] master: Add PDB-REDO mirror to fetch function (#118) (2e2c225de)	CCTBX commit	Thu, 18 Jan 2018 10:59:22 -0800	330 lines
[git/cctbx] master: added selection keyword residues_within (2c51d3a87)	CCTBX commit	Thu, 18 Jan 2018 10:55:55 -0800	345 lines
[git/cctbx] master: I wonder what this breaks. (5f998101a)	CCTBX commit	Thu, 18 Jan 2018 16:14:19 +0000	108 lines
[git/cctbx] master: Enable boost threads by default (954e3985a)	CCTBX commit	Thu, 18 Jan 2018 16:10:09 +0000	93 lines
[git/cctbx] master: Expose boost classes for crystals with Crystal and base class (e4b9b763d)	CCTBX commit	Thu, 18 Jan 2018 10:36:26 +0000	107 lines
[git/cctbx] master: Flag case of single H atoms with occ < 1. Add test. (99cd363a4)	CCTBX commit	Wed, 17 Jan 2018 16:26:16 -0800	445 lines
[git/cctbx] master: More tests. (dcc6b562c)	CCTBX commit	Wed, 17 Jan 2018 15:22:53 -0800	745 lines
[git/cctbx] master: Create README.md (88844bad3)	CCTBX commit	Wed, 17 Jan 2018 13:46:07 -0800	92 lines
[git/cctbx] master: Now add tests. (f4506f781)	CCTBX commit	Wed, 17 Jan 2018 13:30:02 -0800	516 lines
[git/cctbx] master: Add more tests and re-arrange code a bit. (7e9d63c38)	CCTBX commit	Wed, 17 Jan 2018 13:25:58 -0800	372 lines
[git/cctbx] master: Fix typo (44ce27d40)	CCTBX commit	Wed, 17 Jan 2018 11:28:27 -0800	79 lines
[git/cctbx] master: Fix minor typo (fcce53d38)	CCTBX commit	Wed, 17 Jan 2018 11:26:26 -0800	102 lines
[git/cctbx] master: Allow generation of helical ncs; fix minor bug in map_box (7b0c16591)	CCTBX commit	Wed, 17 Jan 2018 11:14:00 -0800	286 lines
[git/cctbx] master: Build grm when creating model; add comment. (38a11150d)	CCTBX commit	Wed, 17 Jan 2018 09:46:55 -0800	155 lines
[git/cctbx] master: Merge pull request #119 from gbunkoczi/master (b3ddc7f2b)	CCTBX commit	Wed, 17 Jan 2018 10:18:49 +0000	56 lines
[git/cctbx] master: Bugfix (655ca6c19)	CCTBX commit	Tue, 16 Jan 2018 16:45:08 -0800	77 lines
[git/cctbx] master: cleaning clutter and specifying ImportError in FormatXTC when psana is unavailable (8d06ee175)	CCTBX commit	Tue, 16 Jan 2018 16:39:50 -0800	110 lines
[git/cctbx] master: Merge pull request #109 from cctbx/xtc_format_class (1e8438221)	CCTBX commit	Tue, 16 Jan 2018 15:39:07 -0800	64 lines
[git/cctbx] master: fixing some indentation issues (06ff3e0b7)	CCTBX commit	Tue, 16 Jan 2018 15:33:43 -0800	121 lines
[git/cctbx] master: resolved merge conflict in cspad format class (08d1a0f52)	CCTBX commit	Tue, 16 Jan 2018 15:02:30 -0800	95 lines
[git/cctbx] master: changes to address code review meeting concerns on 1-16 (8341766b1)	CCTBX commit	Tue, 16 Jan 2018 14:29:21 -0800	424 lines
[git/cctbx] master: Restore warnings (29a41b536)	CCTBX commit	Tue, 16 Jan 2018 14:11:32 -0800	134 lines
[git/cctbx] master: Unmark ok function, mark couple others with explanation. (913210c70)	CCTBX commit	Tue, 16 Jan 2018 13:28:18 -0800	128 lines
[git/cctbx] master: python3 compatibility fixes for libtbx_refresh.py (2e8901caa)	CCTBX commit	Tue, 16 Jan 2018 09:10:04 +0000	567 lines
Jenkins 5a cctbx Tests build 5723 Fixed	DLS Jenkins	Tue, 16 Jan 2018 09:05:14 +0000	37 lines
[git/cctbx] master: Revert "Python3 syntaxification, #80" (ecd719293)	CCTBX commit	Tue, 16 Jan 2018 08:56:31 +0000	2092 lines
Jenkins 5a cctbx Tests build 5722 Failure	DLS Jenkins	Tue, 16 Jan 2018 08:50:55 +0000	176 lines
[git/cctbx] master: Python3 syntaxification, #80 (c3d62324b)	CCTBX commit	Tue, 16 Jan 2018 08:49:02 +0000	2061 lines
[git/cctbx] master: code cleanup (RHEL4 compatibility, exception handling) (c22259356)	CCTBX commit	Tue, 16 Jan 2018 08:38:35 +0000	230 lines
[git/cctbx] master: Fix pythonpath for virtualenv setup (ba64a2196)	CCTBX commit	Mon, 15 Jan 2018 12:20:34 +0000	94 lines
[git/cctbx] master: Do not compress MacOS .pkg installers (7b724ce6c)	CCTBX commit	Mon, 15 Jan 2018 10:49:01 +0000	135 lines
[git/cctbx] master: remove site.py. (916f58878)	CCTBX commit	Mon, 15 Jan 2018 10:44:54 +0000	699 lines
[git/cctbx] master: Use 'in' instead of has_key(). In this instance, use get() instead of has_key(). Basically, don't use has_key(). Ever. (8ff51fa3c)	CCTBX commit	Mon, 15 Jan 2018 08:07:22 +0000	85 lines
[git/cctbx] master: Update return value of chain_compariso and make runs uniform in form (172892682)	CCTBX commit	Sun, 14 Jan 2018 15:06:18 -0800	340 lines
[git/cctbx] master: Clean up method for calculating fraction found so no ratios needed (46663845f)	CCTBX commit	Sun, 14 Jan 2018 08:46:32 -0800	788 lines
[git/cctbx] master: Support for python-based dxtbx crystal model is deprecated, use C++ class with Sauter2014 specialization. (cf773e342)	CCTBX commit	Sat, 13 Jan 2018 12:14:25 -0800	188 lines
[git/cctbx] master: Support new C++ dxtbx crystal model, Sauter2014 variant. (288400492)	CCTBX commit	Sat, 13 Jan 2018 12:14:25 -0800	86 lines
[git/cctbx] master: Better validation of mtz reference, avoid Traceback after hours-long calculation. (c31181fda)	CCTBX commit	Sat, 13 Jan 2018 12:14:24 -0800	121 lines
[git/cctbx] master: Please don't rain on my parade - removing verbose warning with prejudice. (7c8553ec0)	CCTBX commit	Sat, 13 Jan 2018 12:14:24 -0800	93 lines
[git/cctbx] master: fix minor missing value (edcae41f4)	CCTBX commit	Sat, 13 Jan 2018 11:41:16 -0800	88 lines
[git/cctbx] master: clean clutter (7ee764ca5)	CCTBX commit	Sat, 13 Jan 2018 11:31:54 -0800	73 lines
[git/cctbx] master: clean clutter (b017b6d41)	CCTBX commit	Sat, 13 Jan 2018 11:17:59 -0800	48 lines
[git/cctbx] master: catch duplicate use of same atom; change printout slightly (31149f7a5)	CCTBX commit	Sat, 13 Jan 2018 10:46:24 -0800	1322 lines
Jenkins 5b cctbx MacOS build 1951 Fixed	DLS Jenkins	Sat, 13 Jan 2018 09:39:27 +0000	37 lines
[git/cctbx] master: Moving BIOMT and MTRIX multiplication to the mmtbx.model to better connection with SS multiplication. The procedure to generate new chain ids is revised, now producing all possible 2-char ids. Phenix limitation of only expanding 1-char chain ids is overcomed. Inability to expand MTRIX first and then BIOMT is also fixed. (29ade7ec2)	CCTBX commit	Fri, 12 Jan 2018 19:33:20 -0800	1348 lines
Jenkins 5b cctbx MacOS build 1950 Failure	DLS Jenkins	Sat, 13 Jan 2018 01:36:06 +0000	140 lines
[git/cctbx] master: Citation functionality: Migrate some citation handling code (thanks @natechols, @rjgildea) from Phenix to CCTBX for general consumption (9e74351b9)	CCTBX commit	Fri, 12 Jan 2018 15:54:08 -0800	3390 lines
[git/cctbx] master: Fix remaining issues with partial derivatives. All analytical derivatives match the finite differences within a half percent for my test case (892318ba5)	CCTBX commit	Fri, 12 Jan 2018 14:19:58 -0800	467 lines
[git/cctbx] master: Found a sign error in compute_dI_dp (quotient rule reversal) (7a9568f6f)	CCTBX commit	Fri, 12 Jan 2018 14:19:58 -0800	189 lines
[git/cctbx] master: Tidy and add a bunch of comments (de21b3b7e)	CCTBX commit	Fri, 12 Jan 2018 14:19:58 -0800	709 lines
[git/cctbx] master: Initial commit for error propagation in cxi.merge (c6adda742)	CCTBX commit	Fri, 12 Jan 2018 14:19:58 -0800	993 lines
[git/cctbx] master: Additional phil validation for samosa. (c65ae139f)	CCTBX commit	Fri, 12 Jan 2018 14:01:03 -0800	108 lines
[git/cctbx] master: redundancy_to_edge should not be a mandatory argument. Moving to kwargs with prejudice. (787d8fbce)	CCTBX commit	Fri, 12 Jan 2018 14:01:03 -0800	85 lines
[git/cctbx] master: clean clutter (8f4c4129d)	CCTBX commit	Fri, 12 Jan 2018 12:43:50 -0800	51 lines
[git/cctbx] master: Allow ncs in chain_comparison (b82ead63e)	CCTBX commit	Fri, 12 Jan 2018 12:18:23 -0800	1082 lines
[git/cctbx] master: Raise Sorry if user provides model cif instead of restraint cif in table_one. (29657a17d)	CCTBX commit	Fri, 12 Jan 2018 11:14:00 -0800	85 lines
[git/cctbx] master: drop compatibility code for collections for ancient Python versions (c30c607ca)	CCTBX commit	Fri, 12 Jan 2018 11:51:54 +0000	636 lines
[git/cctbx] master: izip_longest() compatibility function not used within libtbx, so remove it. cctbx requires python 2.7+, so will have correct implementation (013a78ad5)	CCTBX commit	Fri, 12 Jan 2018 11:11:58 +0000	175 lines
[git/cctbx] master: Python 2.5+ is api_version 1013, so retire old code (f541494c6)	CCTBX commit	Fri, 12 Jan 2018 11:07:19 +0000	108 lines
[git/cctbx] master: Python3 syntax compatibility (0dd4eb987)	CCTBX commit	Fri, 12 Jan 2018 11:05:18 +0000	135 lines
[git/cctbx] master: no idea what copy_init_args does, but it is used in exactly 1 place so retire it from libtbx (da3fe0d30)	CCTBX commit	Fri, 12 Jan 2018 11:03:18 +0000	139 lines
[git/cctbx] master: Fixing blank lines in pdb REMARK (9501b003f)	CCTBX commit	Thu, 11 Jan 2018 16:46:07 -0800	74 lines
[git/cctbx] master: fix (dcc42b4e8)	CCTBX commit	Thu, 11 Jan 2018 11:25:11 -0800	71 lines
[git/cctbx] master: Do not apply BIOMT if matrices are nonsensical (e651bba4f)	CCTBX commit	Thu, 11 Jan 2018 10:58:15 -0800	82 lines
[git/cctbx] master: 2nd attempt to bugfix (191c8ae6f)	CCTBX commit	Thu, 11 Jan 2018 10:13:26 -0800	77 lines
Jenkins 5a cctbx Tests build 5691 Fixed	DLS Jenkins	Thu, 11 Jan 2018 16:02:55 +0000	38 lines
[git/cctbx] master: return the bug back; previous bugfix brakes a lof of other nonsense. (54a44238a)	CCTBX commit	Thu, 11 Jan 2018 07:57:04 -0800	76 lines
Jenkins 5a cctbx Tests build 5690 Unstable	DLS Jenkins	Thu, 11 Jan 2018 15:42:58 +0000	38 lines
[git/cctbx] master: output cc into a file (bc5e307ad)	CCTBX commit	Thu, 11 Jan 2018 07:37:32 -0800	118 lines
[git/cctbx] master: Bug fix: do not attempt to BIOMT expand if there is nothing to expand. (ba355e705)	CCTBX commit	Thu, 11 Jan 2018 07:37:32 -0800	76 lines
[git/cctbx] master: Handling BIOMT in mmtbx.model. With example and tests. (e6ae1d1e5)	CCTBX commit	Wed, 10 Jan 2018 14:45:38 -0800	2446 lines
[git/cctbx] master: Better failing message indicating that test is failing intentionally. (1c79696d3)	CCTBX commit	Wed, 10 Jan 2018 14:45:38 -0800	82 lines
[git/cctbx] master: GUI: Prevent crash when making selections in a model that has alternate conformations (802fbbf0e)	CCTBX commit	Wed, 10 Jan 2018 11:56:31 -0800	106 lines
[git/cctbx] master: fix remaining buildbot warning (940c43991)	CCTBX commit	Wed, 10 Jan 2018 16:15:05 +0000	78 lines
[git/cctbx] master: Retire pythonpath. (5bfc0e8e2)	CCTBX commit	Wed, 10 Jan 2018 16:13:48 +0000	236 lines
Jenkins 5a cctbx Tests build 5684 Fixed	DLS Jenkins	Wed, 10 Jan 2018 16:10:40 +0000	37 lines
[git/cctbx] master: Further work for #113: scitbx tests must not live in the scitbx top level directory. (9a06d5f11)	CCTBX commit	Wed, 10 Jan 2018 16:01:16 +0000	2365 lines
Jenkins 5a cctbx Tests build 5683 Still Unstable	DLS Jenkins	Wed, 10 Jan 2018 15:31:48 +0000	214 lines
Jenkins 5a cctbx Tests build 5683 Still Unstable	DLS Jenkins	Wed, 10 Jan 2018 15:31:48 +0000	214 lines
[git/cctbx] master: fix syntax error and missing imports for #113 (44b910f8d)	CCTBX commit	Wed, 10 Jan 2018 15:26:55 +0000	108 lines
Jenkins 5a cctbx Tests build 5682 Unstable	DLS Jenkins	Wed, 10 Jan 2018 15:17:20 +0000	1456 lines
[git/cctbx] master: missed one import for #113 (94b57e324)	CCTBX commit	Wed, 10 Jan 2018 15:11:54 +0000	68 lines
Jenkins 5a cctbx Tests build 5681 Failure	DLS Jenkins	Wed, 10 Jan 2018 14:55:51 +0000	160 lines
[git/cctbx] master: Retire stdlib top level module. (c63f5e720)	CCTBX commit	Wed, 10 Jan 2018 14:54:57 +0000	1481 lines
[git/cctbx] master: Test for ramalyze and pdb file with several models. Expected to fail. (0118b455a)	CCTBX commit	Tue, 9 Jan 2018 16:06:35 -0800	934 lines
[git/cctbx] master: retire unused helper functions numstr7 and real_imag from global namespace (15d28fb21)	CCTBX commit	Tue, 9 Jan 2018 23:54:34 +0000	108 lines
[git/cctbx] master: Retire libtbx.subprocess_with_fixes (3ed9636d2)	CCTBX commit	Tue, 9 Jan 2018 23:53:53 +0000	3278 lines
[git/cctbx] master: Bugfix: proper handling ? in mmCIF for altloc. with tests. (6ea4d9fa1)	CCTBX commit	Tue, 9 Jan 2018 13:51:24 -0800	433 lines
[git/cctbx] master: Send more data into the reflection table version of cxi.merge (9fee661d1)	CCTBX commit	Tue, 9 Jan 2018 13:02:29 -0800	240 lines
[git/cctbx] master: Bugfix in hierarchy production from mmCIF with several models and one chain. (e3aea0ffa)	CCTBX commit	Tue, 9 Jan 2018 12:06:47 -0800	478 lines
[git/cctbx] master: Bugfix. Plus test. (2fdff58e3)	CCTBX commit	Mon, 8 Jan 2018 11:40:07 -0800	378 lines
[git/cctbx] master: iotbx/bioinformatics tests (82a41591d)	CCTBX commit	Mon, 8 Jan 2018 13:47:18 +0000	77 lines
[git/cctbx] master: mmtbx/geometry tests (0518ad9b0)	CCTBX commit	Mon, 8 Jan 2018 13:41:55 +0000	1537 lines
[git/cctbx] master: cleanup (1ecfb867a)	CCTBX commit	Fri, 5 Jan 2018 17:55:48 -0800	91 lines
[git/cctbx] master: Ramachandran/Rotamer plots: Enable recentering for other points (not just outliers) (a160692ec)	CCTBX commit	Fri, 5 Jan 2018 16:22:36 -0800	102 lines
[git/cctbx] master: this print only serves to clutter output (5b7826321)	CCTBX commit	Fri, 5 Jan 2018 14:36:04 +0000	90 lines
[git/cctbx] master: remove unused import (fd283bf8a)	CCTBX commit	Fri, 5 Jan 2018 12:02:28 +0000	69 lines
[git/cctbx] master: Documentation build issue dials/dials#481: Disable ReST-parsing of PHIL strings. (5aa2305fc)	CCTBX commit	Fri, 5 Jan 2018 11:48:14 +0000	237 lines
[git/cctbx] master: Documentation build issue dials/dials#481: pipes in phil output need escaping (15c492659)	CCTBX commit	Fri, 5 Jan 2018 10:59:55 +0000	118 lines
[git/cctbx] master: bugfix with test. (82e0c8fd0)	CCTBX commit	Thu, 4 Jan 2018 17:02:26 -0800	119 lines
[git/cctbx] master: Bugfix for reflection table version of cxi.merge. crystal_orientation.crystal_rotation_matrix is not the same thing as the U* matrix. (d355b3440)	CCTBX commit	Mon, 1 Jan 2018 13:07:09 -0800	103 lines
[git/cctbx] master: Update FormatXTCCspad.py (ec671376e)	CCTBX commit	Mon, 18 Dec 2017 15:27:28 -0800	164 lines
[git/cctbx] master: adding CSPAD reader (5216b80e4)	CCTBX commit	Mon, 18 Dec 2017 15:24:10 -0800	486 lines

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