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April 2018


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[git/cctbx] master: Count number of fragments in chain_comparison (3ed10a9a1)

CCTBX commit

Mon, 30 Apr 2018 16:23:24 -0600

570 lines

[git/cctbx] master: DataManager: update passing of PHIL scope to model (2f4e6f206)

CCTBX commit

Mon, 30 Apr 2018 14:02:25 -0700

162 lines

Jenkins 5b cctbx MacOS build 2467 Unstable

DLS Jenkins

Mon, 30 Apr 2018 21:36:29 +0100

46 lines

[git/cctbx] master: DataManager: update CCTBXParser to pass logger argument (a99301d5f)

CCTBX commit

Mon, 30 Apr 2018 13:33:57 -0700

158 lines

[git/cctbx] master: DataManager: add restraints to models (44097c00a)

CCTBX commit

Mon, 30 Apr 2018 13:19:50 -0700

674 lines

[git/cctbx] master: Fix incorrect copy (6acc2996c)

CCTBX commit

Mon, 30 Apr 2018 11:49:49 -0600

180 lines

[git/cctbx] master: mmtbx.model: setter function for restraints files (59b93f3d0)

CCTBX commit

Mon, 30 Apr 2018 10:45:25 -0700

99 lines

[git/cctbx] master: set sequence in sharpening_info_object (dd858245d)

CCTBX commit

Mon, 30 Apr 2018 10:22:58 -0600

73 lines

[git/cctbx] master: Validate hydrogens: ensure restraints manager exists (28513e698)

CCTBX commit

Mon, 30 Apr 2018 09:20:34 -0700

133 lines

[git/cctbx] master: improve some comments (d85f4d2d3)

CCTBX commit

Mon, 30 Apr 2018 14:53:07 +0100

200 lines

[git/cctbx] master: optional assert_is_compatible_unit_cell=True parameter (e6cd25bad)

CCTBX commit

Mon, 30 Apr 2018 10:57:49 +0100

88 lines

[git/cctbx] master: dxtbx.model.crystal: add convinence get_crystal_symmetry() function (3e55194c5)

CCTBX commit

Mon, 30 Apr 2018 10:21:01 +0100

132 lines

[git/cctbx] master: Fixed image readers test (eb066297c)

CCTBX commit

Mon, 30 Apr 2018 09:25:29 +0100

189 lines

[git/cctbx] master: Bugfix (9dddd3c38)

CCTBX commit

Sat, 28 Apr 2018 23:43:56 -0700

91 lines

[git/cctbx] master: Remove dxtbx root imports (cbc9e8210)

CCTBX commit

Sat, 28 Apr 2018 21:11:39 +0100

91 lines

[git/cctbx] master: catch case where there is no helical ncs (0fbd692ce)

CCTBX commit

Fri, 27 Apr 2018 19:25:10 -0600

230 lines

[git/cctbx] master: DataManager: reorganize miller_array datatype (af299a4d7)

CCTBX commit

Fri, 27 Apr 2018 16:23:18 -0700

801 lines

[git/cctbx] master: XFEL GUI: add select run blocks button (b2f5c3c02)

CCTBX commit

Fri, 27 Apr 2018 15:44:35 -0700

466 lines

[git/cctbx] master: If dispatch.integrate=False, still log a frame (07d12364f)

CCTBX commit

Fri, 27 Apr 2018 10:40:59 -0700

101 lines

[git/cctbx] master: Only apply compatibility fixes on Python2 (7ec80c302)

CCTBX commit

Fri, 27 Apr 2018 12:31:42 +0100

121 lines

[git/cctbx] master: Restore use of Python2-3 object() (16a95b854)

CCTBX commit

Fri, 27 Apr 2018 10:03:58 +0100

317 lines

Jenkins 5a cctbx Tests build 6492 Fixed

DLS Jenkins

Fri, 27 Apr 2018 08:59:30 +0100

37 lines

[git/cctbx] master: Spell needed to make iterator thing an iterator (80cddad41)

CCTBX commit

Fri, 27 Apr 2018 08:53:42 +0100

73 lines

Jenkins 5a cctbx Tests build 6491 Failure

DLS Jenkins

Fri, 27 Apr 2018 08:51:48 +0100

150 lines

[git/cctbx] master: fix install/refresh error and failing scitbx test for now (767cdf7c3)

CCTBX commit

Fri, 27 Apr 2018 08:46:34 +0100

76 lines

[git/cctbx] master: clean clutter (0d0a376a5)

CCTBX commit

Thu, 26 Apr 2018 20:04:15 -0600

74 lines

[git/cctbx] master: Add map_box capability to extract unique part of a ap based on symmetry or symmetry file (7501c1a39)

CCTBX commit

Thu, 26 Apr 2018 17:55:52 -0700

2491 lines

[git/cctbx] master: Add parameter hash_filenames to cxi.merge (d547ac124)

CCTBX commit

Thu, 26 Apr 2018 16:37:38 -0700

272 lines

[git/cctbx] master: Add tabulate to install base packages. (888cf1bd6)

CCTBX commit

Thu, 26 Apr 2018 10:54:21 -0700

263 lines

Jenkins 5a cctbx Tests build 6485 Unstable

DLS Jenkins

Thu, 26 Apr 2018 18:53:17 +0100

42 lines

[git/cctbx] master: Remaining C++ compile problems for python 3 (33b97d490)

CCTBX commit

Thu, 26 Apr 2018 10:43:57 -0700

814 lines

[git/cctbx] master: First work on converting C++ code to use the python 3 interfaces (#165) (d3f7d71d8)

CCTBX commit

Thu, 26 Apr 2018 10:43:57 -0700

971 lines

[git/cctbx] master: Don't rely on UTF8 being available. (722bea760)

CCTBX commit

Thu, 26 Apr 2018 10:43:57 -0700

86 lines

[git/cctbx] master: clean up imports (56dab55a6)

CCTBX commit

Thu, 26 Apr 2018 10:43:57 -0700

248 lines

[git/cctbx] master: Python3: Convert run_tests_parallel (733f17870)

CCTBX commit

Thu, 26 Apr 2018 10:43:57 -0700

2157 lines

[git/cctbx] master: Tweaks to allow python3 build on mac (d979a624b)

CCTBX commit

Thu, 26 Apr 2018 12:05:33 +0100

146 lines

[git/cctbx] master: removing unnecessary modules from PhaserBuilder (9886e5f09)

CCTBX commit

Thu, 26 Apr 2018 11:20:44 +0100

120 lines

[git/cctbx] master: Add basic functionality to Goniometer to record a scan-varying setting rotation (0eb48b78a)

CCTBX commit

Thu, 26 Apr 2018 11:00:03 +0100

447 lines

[git/cctbx] master: Extend serialisation for MultiAxisGoniometer (0d189be57)

CCTBX commit

Thu, 26 Apr 2018 11:00:03 +0100

244 lines

[git/cctbx] master: extend operator== and is_similar_to checks to test scan-varying setting matrix (690d3ce6e)

CCTBX commit

Thu, 26 Apr 2018 11:00:03 +0100

338 lines

[git/cctbx] master: Add pickle support for goniometer with scan-varying setting rotation (2c95618ee)

CCTBX commit

Thu, 26 Apr 2018 11:00:03 +0100

141 lines

[git/cctbx] master: Serialisation test for MultiAxisGoniometer (a83e954b4)

CCTBX commit

Thu, 26 Apr 2018 11:00:03 +0100

210 lines

[git/cctbx] master: Support conversion of scan-varying goniometer to/from dict (b96c4a73d)

CCTBX commit

Thu, 26 Apr 2018 11:00:03 +0100

289 lines

[git/cctbx] master: Bugfix (14ef29e7d)

CCTBX commit

Wed, 25 Apr 2018 17:36:09 -0700

79 lines

[git/cctbx] master: Bugfix (1887c2e56)

CCTBX commit

Wed, 25 Apr 2018 17:05:21 -0700

97 lines

[git/cctbx] master: fix bug: always read indexing solution from memory. (f4b3deaba)

CCTBX commit

Wed, 25 Apr 2018 16:21:19 -0700

80 lines

[git/cctbx] master: XFEL UI: strongest spots get strongest color (313448e60)

CCTBX commit

Wed, 25 Apr 2018 16:16:47 -0700

75 lines

[git/cctbx] master: XFEL UI: allow the user to select higher threshold # multiple lattices. (d9e70a66e)

CCTBX commit

Wed, 25 Apr 2018 14:43:57 -0700

546 lines

[git/cctbx] master: XFEL UI: track lengths of spots in the Spotfinder tab. (88ac831b0)

CCTBX commit

Wed, 25 Apr 2018 13:49:44 -0700

643 lines

[git/cctbx] master: Get radial lengths of all spotfinder spots. (1b05d2ce2)

CCTBX commit

Wed, 25 Apr 2018 13:49:44 -0700

260 lines

[git/cctbx] master: XFEL UI: Color spot length subplot by individual spot intensity. (ce8dd616e)

CCTBX commit

Wed, 25 Apr 2018 13:49:44 -0700

430 lines

[git/cctbx] master: bugfix (d7b099186)

CCTBX commit

Wed, 25 Apr 2018 13:49:44 -0700

98 lines

[git/cctbx] master: Catch multiple calls to define_entry_points (d56ce4189)

CCTBX commit

Wed, 25 Apr 2018 15:04:04 +0100

114 lines

[git/cctbx] master: bump procrunner version (a3dae538b)

CCTBX commit

Wed, 25 Apr 2018 08:55:55 +0100

77 lines

[git/cctbx] master: A few syntax fixes required for Python3 build (36e32209c)

CCTBX commit

Wed, 25 Apr 2018 08:50:11 +0100

227 lines

[git/cctbx] master: Minor cleanup (f80b84e0f)

CCTBX commit

Tue, 24 Apr 2018 17:12:52 -0700

191 lines

[git/cctbx] master: Add paramter save_cbf to quadrants_cbf (0e6cf4eb4)

CCTBX commit

Tue, 24 Apr 2018 17:04:35 -0700

140 lines

[git/cctbx] master: Add to detector_residuals new parameters: verbose and repredict_input_reflections (80e2aac00)

CCTBX commit

Tue, 24 Apr 2018 17:04:29 -0700

515 lines

[git/cctbx] master: added a few methods (a1f97d90d)

CCTBX commit

Tue, 24 Apr 2018 15:43:03 -0700

191 lines

[git/cctbx] master: Putative fix for https://jira.diamond.ac.uk/browse/SCI-7188; may need to directly patch installed version unless @Anthchirp we're able to push out a release today? (3435790c5)

CCTBX commit

Tue, 24 Apr 2018 09:35:18 +0100

84 lines

[git/cctbx] master: changes to make it look like the old output if only one file selected (899e059d8)

CCTBX commit

Mon, 23 Apr 2018 11:18:06 -0700

97 lines

[git/cctbx] master: added model_list parameter (b12369b1e)

CCTBX commit

Mon, 23 Apr 2018 11:18:06 -0700

192 lines

[git/cctbx] master: Attempt to set Rayonix gain, for #51 (c882109ea)

CCTBX commit

Mon, 23 Apr 2018 14:47:59 +0100

290 lines

[git/cctbx] master: More conventional to query dxtbx object directly rather than going through to_dict method (bcfe22efe)

CCTBX commit

Mon, 23 Apr 2018 12:47:08 +0100

85 lines

[git/cctbx] master: dxtbx Beam.get_direction() rather perversely returns the sample-to-source direction, not the direction of propagation of photons. Use get_unit_s0() instead and fix for knock-on effects (d19eda848)

CCTBX commit

Mon, 23 Apr 2018 12:47:08 +0100

145 lines

[git/cctbx] master: Set beam centre explicitly to avoid the detector being moved within the call to update_beamcenter() (50bab30df)

CCTBX commit

Mon, 23 Apr 2018 12:47:08 +0100

85 lines

[git/cctbx] master: Sensible default rotation axis (10b1538d4)

CCTBX commit

Mon, 23 Apr 2018 12:47:08 +0100

87 lines

[git/cctbx] master: Be explicit with variable type for sqrt() on Windows (5abf78285)

CCTBX commit

Mon, 23 Apr 2018 12:10:23 +0100

70 lines

[git/cctbx] master: This file was only a FIXME note, not fixed for 5 years (de36fc248)

CCTBX commit

Mon, 23 Apr 2018 10:37:19 +0100

64 lines

[git/cctbx] master: After cloning a new git repository print out the current commit ID (256736eec)

CCTBX commit

Mon, 23 Apr 2018 08:16:33 +0100

95 lines

[git/cctbx] master: clean clutter (f9084687a)

CCTBX commit

Sun, 22 Apr 2018 17:38:04 -0700

49 lines

[git/cctbx] master: Add test for translational_shift (3d1990850)

CCTBX commit

Sun, 22 Apr 2018 17:26:01 -0700

224 lines

[git/cctbx] master: clean clutter (3dd705d16)

CCTBX commit

Sun, 22 Apr 2018 14:53:21 -0700

52 lines

[git/cctbx] master: by default (keep_origin=True) map_box writes out maps in original location with map_box cell. PDB written with map_box cell in original location. Temporary work-around to xplor map writer allowing writing of any part of any maps marked with 'XXX temporary flag allowing any cell' (fae224ca9)

CCTBX commit

Sun, 22 Apr 2018 14:44:23 -0700

1212 lines

[git/cctbx] master: improved the PHIL scope (fc5421329)

CCTBX commit

Fri, 20 Apr 2018 16:24:20 -0700

111 lines

[git/cctbx] master: Add Schrodinger force field phil. (54c879841)

CCTBX commit

Fri, 20 Apr 2018 16:24:20 -0700

123 lines

[git/cctbx] master: Base_geometry class (a5b2178f6)

CCTBX commit

Fri, 20 Apr 2018 16:24:20 -0700

961 lines

[git/cctbx] master: bugfix (c3b984f4b)

CCTBX commit

Fri, 20 Apr 2018 16:24:20 -0700

76 lines

[git/cctbx] master: bugfix (43252d391)

CCTBX commit

Fri, 20 Apr 2018 16:24:20 -0700

75 lines

[git/cctbx] master: New approach to schrodinger. Let it have fully constructed geometry to work with. (e0732559b)

CCTBX commit

Fri, 20 Apr 2018 16:24:20 -0700

316 lines

[git/cctbx] master: bugfix (20d500de8)

CCTBX commit

Fri, 20 Apr 2018 16:24:20 -0700

108 lines

[git/cctbx] master: Stub in the model to init Schrodinger (07cab0024)

CCTBX commit

Fri, 20 Apr 2018 16:24:20 -0700

364 lines

[git/cctbx] master: fix typo (317d69de3)

CCTBX commit

Fri, 20 Apr 2018 13:01:35 -0700

77 lines

[git/cctbx] master: simtbx now works on windows and no warnings on mac (317298daa)

CCTBX commit

Fri, 20 Apr 2018 12:14:25 -0700

229 lines

Jenkins 5a cctbx Tests build 6450 Fixed

DLS Jenkins

Fri, 20 Apr 2018 14:01:23 +0100

37 lines

Jenkins 5a cctbx Tests build 6449 Unstable

DLS Jenkins

Fri, 20 Apr 2018 13:47:10 +0100

27 lines

[git/cctbx] master: Fixed bug in identifiers (be84c0812)

CCTBX commit

Fri, 20 Apr 2018 13:46:57 +0100

113 lines

[git/cctbx] master: Add test for experiments.identifiers() method. This appears to kill the test :( (d79d547c2)

CCTBX commit

Fri, 20 Apr 2018 13:41:14 +0100

82 lines

[git/cctbx] master: dxtbx/model/crystal.h: add constructor from A matrix (#175) (9cec75049)

CCTBX commit

Fri, 20 Apr 2018 11:18:36 +0100

305 lines

[git/cctbx] master: Not OK: remove "print OK" from all dxtbx tests. (d7be89a0b)

CCTBX commit

Fri, 20 Apr 2018 08:58:01 +0100

2122 lines

[git/cctbx] master: Probably a fix, no tests to verify. Original was not working for sure. (c761275a0)

CCTBX commit

Thu, 19 Apr 2018 18:16:01 -0700

78 lines

[git/cctbx] master: reach correct object (86524aafb)

CCTBX commit

Thu, 19 Apr 2018 18:06:49 -0700

103 lines

[git/cctbx] master: HKL slice viewer (70656f12a)

CCTBX commit

Thu, 19 Apr 2018 17:39:15 -0700

1305 lines

[git/cctbx] master: Add function to set/unset ramachandran restraints. Some refactoring to support using model in phenix.real_space_refine. Fix one of molprobity tests. (6a166b33b)

CCTBX commit

Thu, 19 Apr 2018 16:18:18 -0700

707 lines

[git/cctbx] master: Added a test (2768e7069)

CCTBX commit

Thu, 19 Apr 2018 15:32:19 +0100

296 lines

[git/cctbx] master: Adding identifier to experiment (91052b73f)

CCTBX commit

Thu, 19 Apr 2018 15:32:19 +0100

581 lines

[git/cctbx] master: Must ensure proper linkage to OpenMP library on Windows. Otherwise module won't load in python (023b108cb)

CCTBX commit

Thu, 19 Apr 2018 12:50:51 +0100

94 lines

[git/cctbx] master: clean clutter (8a7162a78)

CCTBX commit

Wed, 18 Apr 2018 20:38:42 -0600

51 lines

[git/cctbx] master: Use symmetry instead of ncs where possible (ea6907de5)

CCTBX commit

Wed, 18 Apr 2018 20:20:17 -0600

518 lines

[git/cctbx] master: Bugfix (259359632)

CCTBX commit

Wed, 18 Apr 2018 17:39:11 -0700

81 lines

[git/cctbx] master: Radial average: use imageset instead of format instance. (a8324f1be)

CCTBX commit

Wed, 18 Apr 2018 17:05:02 -0700

293 lines

[git/cctbx] master: last import fix broke the test. Now both work. (be3f16dd3)

CCTBX commit

Wed, 18 Apr 2018 16:10:15 -0700

81 lines

[git/cctbx] master: fixing import "bug" again (a0eca69a7)

CCTBX commit

Wed, 18 Apr 2018 16:06:47 -0700

108 lines

[git/cctbx] master: XFEL gui: add mask to cctbx.xfel.process (c21a063fa)

CCTBX commit

Wed, 18 Apr 2018 15:41:21 -0700

87 lines

[git/cctbx] master: fix for name change (29298a908)

CCTBX commit

Wed, 18 Apr 2018 15:11:39 -0700

79 lines

[git/cctbx] master: fix case where max_ops is not defined (8e1d565fe)

CCTBX commit

Wed, 18 Apr 2018 15:03:14 -0700

74 lines

[git/cctbx] master: add test for map_symmetry (de31922e4)

CCTBX commit

Wed, 18 Apr 2018 16:00:14 -0600

251 lines

[git/cctbx] master: adding ice ring to pilatus example and fixing pivot import "bug" (10e41528a)

CCTBX commit

Wed, 18 Apr 2018 14:44:06 -0700

172 lines

[git/cctbx] master: DataManager: map_coefficients handles multiple files (b89b35ea0)

CCTBX commit

Wed, 18 Apr 2018 14:38:52 -0700

153 lines

[git/cctbx] master: skip optimization if unnecessary (90ef086ba)

CCTBX commit

Wed, 18 Apr 2018 15:16:39 -0600

102 lines

[git/cctbx] master: renaming per Nigel's suggestion. (601ab159e)

CCTBX commit

Wed, 18 Apr 2018 14:04:48 -0700

489 lines

[git/cctbx] master: Catch case with very low resolution peak (2f0dd67a8)

CCTBX commit

Wed, 18 Apr 2018 14:21:57 -0600

90 lines

[git/cctbx] master: Update optimization of helical symmetry (46f684240)

CCTBX commit

Wed, 18 Apr 2018 14:18:09 -0600

418 lines

[git/cctbx] master: Using freshly discovered function for command-line programs. Now this is official way of doing default stuff. (c03b00286)

CCTBX commit

Wed, 18 Apr 2018 13:16:01 -0700

275 lines

[git/cctbx] master: Placeholder for phenix.fix_cablam. With test. (a2e4d1dac)

CCTBX commit

Wed, 18 Apr 2018 12:51:46 -0700

564 lines

[git/cctbx] master: refactoring idea (e343bf552)

CCTBX commit

Wed, 18 Apr 2018 12:51:46 -0700

89 lines

[git/cctbx] master: testing sandbox (e419467b2)

CCTBX commit

Wed, 18 Apr 2018 12:20:49 -0700

66 lines

[git/cctbx] master: tst_nanoBragg_pilatus.py will create a Pilatus-like image, complete with bad pixels, window panes, thickness effects, module-to-module misalignment and 0.1 deg of phi rotation. It takes one optional argument, which is the image number in a sequence of 3600. I've processed this simulated data set with xia2 and XDS and found the anomalous signal has the right sign. (ba8a47b7b)

CCTBX commit

Wed, 18 Apr 2018 12:20:49 -0700

2631 lines

[git/cctbx] master: DataManager: remove unused import for map_coefficients (d984ae4e4)

CCTBX commit

Wed, 18 Apr 2018 10:41:56 -0700

79 lines

[git/cctbx] master: DataManager: initial code for map_coefficients (d22010521)

CCTBX commit

Wed, 18 Apr 2018 10:40:06 -0700

413 lines

Jenkins 5b cctbx MacOS build 2403 Fixed

DLS Jenkins

Wed, 18 Apr 2018 18:27:18 +0100

37 lines

[git/cctbx] master: using omptbx/omp_or_stubs.h as per Nick Sauter's suggestion (09a6e1125)

CCTBX commit

Wed, 18 Apr 2018 18:11:45 +0100

74 lines

Jenkins 5b cctbx MacOS build 2402 Failure

DLS Jenkins

Wed, 18 Apr 2018 17:44:31 +0100

174 lines

[git/cctbx] master: Must ensure proper linkage to OpenMP library on Windows. Otherwise module won't load in python (b46ed35d9)

CCTBX commit

Wed, 18 Apr 2018 17:18:48 +0100

99 lines

[git/cctbx] master: clean clutter (e87fc9684)

CCTBX commit

Wed, 18 Apr 2018 08:51:00 -0600

280 lines

[git/cctbx] master: Optimize helical symmetry ops (f8018110f)

CCTBX commit

Wed, 18 Apr 2018 08:38:14 -0600

2159 lines

Jenkins 5a cctbx Tests build 6417 Fixed

DLS Jenkins

Wed, 18 Apr 2018 08:26:06 +0100

38 lines

Jenkins 5b cctbx MacOS build 2398 Fixed

DLS Jenkins

Wed, 18 Apr 2018 08:22:09 +0100

38 lines

[git/cctbx] master: fix some weird python variable scoping issue (75751ba07)

CCTBX commit

Wed, 18 Apr 2018 08:20:11 +0100

115 lines

Jenkins 5a cctbx Tests build 6416 Failure

DLS Jenkins

Wed, 18 Apr 2018 08:13:51 +0100

170 lines

[git/cctbx] master: fix package management for pip version >=10 (c10703993)

CCTBX commit

Wed, 18 Apr 2018 08:12:56 +0100

87 lines

Jenkins 5b cctbx MacOS build 2397 Unstable

DLS Jenkins

Wed, 18 Apr 2018 06:30:44 +0100

35 lines

[git/cctbx] master: Commenting out and marking for deletion obsolete functionality with test. Probably will remove it in a week if nothing will come up. (ca4d42e09)

CCTBX commit

Tue, 17 Apr 2018 17:06:33 -0700

643 lines

[git/cctbx] master: Major cleanup first time since I implemented it. Got rid of a lot of nonsence code somehow accuulated here over past several years. The only true and potentially useful functionality that I removed is filters. However, filters are not used anywhere and it is not clear if they ever will be used. It's trivial to restore anyway. (15c442f91)

CCTBX commit

Tue, 17 Apr 2018 12:43:38 -0700

1065 lines

[git/cctbx] master: iotbx: centralize location for CIF/MTZ data labels (4c4a99a38)

CCTBX commit

Tue, 17 Apr 2018 11:15:38 -0700

627 lines

[git/cctbx] master: Plot run stats from experiments: use integrated instead of indexed reflections and sync with interface changes to plot_run_stats() (d930fd327)

CCTBX commit

Tue, 17 Apr 2018 10:36:05 -0700

268 lines

[git/cctbx] master: XFEL GUI run stats plotting: futher updates for multiple lattices (b425f6826)

CCTBX commit

Tue, 17 Apr 2018 10:36:04 -0700

956 lines

[git/cctbx] master: cc (0a7cfd135)

CCTBX commit

Tue, 17 Apr 2018 10:31:08 -0700

68 lines

[git/cctbx] master: more useful traceback when import modules test fails (f11f940ce)

CCTBX commit

Tue, 17 Apr 2018 17:21:47 +0100

95 lines

[git/cctbx] master: windows build now using python2.7.14_x86_64_plus_relocatable.zip with additional modules required by Dials (4a087f7fb)

CCTBX commit

Tue, 17 Apr 2018 16:56:21 +0100

78 lines

[git/cctbx] master: fix --git-reference option (c00ad10b3)

CCTBX commit

Tue, 17 Apr 2018 14:56:23 +0100

105 lines

Jenkins 5a cctbx Tests build 6405 Fixed

DLS Jenkins

Tue, 17 Apr 2018 11:41:13 +0100

38 lines

Jenkins 5a cctbx Tests build 6404 Failure

DLS Jenkins

Tue, 17 Apr 2018 09:46:23 +0100

127 lines

[git/cctbx] master: Bootstrap now works with newly released pip version 10 (e74723951)

CCTBX commit

Tue, 17 Apr 2018 08:54:01 +0100

113 lines

[git/cctbx] master: Further fix for second half of https://github.com/pypa/pip/issues/5156 (69f7ee156)

CCTBX commit

Tue, 17 Apr 2018 08:39:20 +0100

81 lines

[git/cctbx] master: compatibility fix with pip v10 (000b01c69)

CCTBX commit

Tue, 17 Apr 2018 08:22:42 +0100

87 lines

[git/cctbx] master: Removing obsolete functionality (afbd7f7f3)

CCTBX commit

Mon, 16 Apr 2018 18:12:42 -0700

371 lines

[git/cctbx] master: Moving pdbtools closer to model. Test for segid manipulations. (d64ac4458)

CCTBX commit

Mon, 16 Apr 2018 17:43:07 -0700

784 lines

[git/cctbx] master: Unifying extract_ss in pdb_input and mmcif_input, fixing handling of these in SS restraints manager. (b0e0c9217)

CCTBX commit

Mon, 16 Apr 2018 14:46:20 -0700

133 lines

[git/cctbx] master: Restoring lost functionality in pdbtools to clear/set segids. (fbcc4f2fa)

CCTBX commit

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[git/cctbx] master: DataManager: rename ncs datatype to ncs_spec (72574f86c)

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[git/cctbx] master: Update map_symmetry (29d0657a9)

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[git/cctbx] master: Program template: simple function for running template (9fdb614e2)

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[git/cctbx] master: DataManager: fix function name (has_ncss -> has_ncs) (a492e644f)

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[git/cctbx] master: DataManager: add support for ncs spec (c8a44ed51)

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[git/cctbx] master: Add map_symmetry (7d50769a5)

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[git/cctbx] master: clean_clutter (8320208f9)

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[git/cctbx] master: Allow keeping origin in map_box (bc2f30eff)

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[git/cctbx] master: more flexible binning for CDL (b5313d16e)

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[git/cctbx] master: fix write_output_maps=False in map_box (e68cf29dd)

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[git/cctbx] master: Update Sphinx (4183fde63)

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[git/cctbx] master: Updates and tweaks to sphinx documentation building (368cc6e2a)

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[git/cctbx] master: Pre-refactoring code-review and suggestions. (1332926b3)

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[git/cctbx] master: Add jungfrau as a known detector in the XFEL gui (140a7afb2)

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[git/cctbx] master: test for creating mmtbx.model from hierarchy (353a5846f)

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[git/cctbx] master: DataManager: initial code for miller_array (f4b117a7a)

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[git/cctbx] master: FormatXTC: move populate_events out of subclasses, and use it instead of the event_list (89fb6679e)

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[git/cctbx] master: Remove dangerous pattern of producing GRM. (6006f7d75)

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[git/cctbx] master: Remove dangerous pattern of producing GRM. (b46835ebc)

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[git/cctbx] master: Also drop processed_pdb_file because it contains significant part of GRM. (adc4ba0e2)

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[git/cctbx] master: Fighting dangerous pattern of getting GRM (8f6b952b4)

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[git/cctbx] master: Remove global variable. (7ea778270)

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[git/cctbx] master: Remove dangerous pattern. (bb2a5c8b9)

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[git/cctbx] master: Putting in python3 compatibility (d18f6a624)

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[git/cctbx] master: Changes to handle frames with missing wavelength. Also get_event function has been moved to FormatXTC (a87ca4173)

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[git/cctbx] master: Cleaning clutter for FormatXTCJungfrau (2f2b36bd7)

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[git/cctbx] master: Adding XTC reader for Jungfrau 1M detector at LCLS (ad356c0b8)

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[git/cctbx] master: Be smarter about path quoting in test runner (7c07da608)

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[git/cctbx] master: fix libtbx execution of pytests on Windows (ec0ecdfaa)

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[git/cctbx] master: Add mechanism for .tgz files and be more error tolerant (9a2a50f02)

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[git/cctbx] master: XFEL GUI: add a spotfinder tab for LS49. (b53bffe8a)

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[git/cctbx] master: XFEL GUI: no main method -- redundant with command line version. (8d33a9433)

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[git/cctbx] master: GUI update - faster old run recovery (c3db78064)

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[git/cctbx] master: Implement processing XTC streams directly without a CBF intermediary, by way of FormatXTC (5b2c497eb)

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[git/cctbx] master: Few more FormatXTC tweaks (55400341e)

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[git/cctbx] master: Add image_number parameter to dxtbx.radial_average (fac871b87)

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[git/cctbx] master: CCTBXParse: parse files defined in PHIL (46377caa0)

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[git/cctbx] master: Move set_up_and_apply_soft_mask to separate method (265ddbd68)

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[git/cctbx] master: Add --wxpython4 option to bootstrap. Closes #171 and is prerequisite to #170 (a56103bec)

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[git/cctbx] master: Set OPENBLAS_NUM_THREADS in dispatchers (90839ddca)

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[git/cctbx] master: make print() changes to format classes where trivial (f9003d413)

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[git/cctbx] master: fix remaining test (ac17710ff)

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[git/cctbx] master: Fixed bug in path (298f6d3d9)

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[git/cctbx] master: This test is pining for the fjords. (fba3fcbd5)

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[git/cctbx] master: Expand variables in path before testing whether it is absolute or not (f33316305)

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[git/cctbx] master: Convert monolithic test to a pytest to aid in problem identification (d21f93afd)

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[git/cctbx] master: proper type (139bb0c32)

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[git/cctbx] master: Run ensurepip separately from the python configuration (c0f906d9a)

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[git/cctbx] master: Only run test if DIALS is available (4016c930d)

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[git/cctbx] master: Remove DIALS extensions, fixes #167. (9ae0d3bc4)

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[git/cctbx] master: Disable user site directory before building python (74cd90dfa)

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[git/cctbx] master: Removed temp_chdir context manager. Fixes #150 (2baca7cf9)

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[git/cctbx] master: First attempt to use hybrid36 for SS annotations (7427b4709)

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[git/cctbx] master: Changing tests. This partiular field in mmCIF is just characters. (b398cd824)

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[git/cctbx] master: Fix bug: NCS multiplication with separated chains. Make sure tests are actually using correct answer. (2441115cd)

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[git/cctbx] master: XFEL UI: hook up the averaging button (4a91ae09b)

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[git/cctbx] master: clean clutter (8df540fcc)

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[git/cctbx] master: Allow optimization of placed model (0eb7b0020)

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[git/cctbx] master: Enable import of eiger hdf5 files in import_xds. Fixes dials/dials#529 (ac31b2f91)

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[git/cctbx] master: drop libtbx env dependency (34884982d)

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[git/cctbx] master: Order formats in registry by alphabetical order (dd1bd6508)

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[git/cctbx] master: Added some more helpful error messages in ImageSet class (1be974736)

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[git/cctbx] master: Fixed check (df067d7b5)

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[git/cctbx] master: allow logging to be used in dxtbx like in a proper library (153fc21e8)

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[git/cctbx] master: fix typo (c4b2fb62b)

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[git/cctbx] master: Don't install from the base_tmp cache directory when files have not been downloaded there (29eae5f39)

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[git/cctbx] master: XFEL UI: fix sliding windows for multiple lattice local rates (97eef3b39)

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[git/cctbx] master: FormatXTC tweaks (a24704607)

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[git/cctbx] master: define target_b_iso_to_d_cut (6eb383b23)

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[git/cctbx] master: define target_b_iso_to_d_cut (ec0a5df20)

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[git/cctbx] master: Simplify python pip builder (1637273a9)

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[git/cctbx] master: Fix bootstrap on Mac, resolves #160. (904792a27)

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[git/cctbx] master: allow iteration in auto-sharpen (4171caaaa)

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[git/cctbx] master: analysis tab bugfixes (c6268c0eb)

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[git/cctbx] master: analysis tab bugfix (27fd68a8f)

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[git/cctbx] master: analyzer bugfix (7b74d6f5f)

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[git/cctbx] master: XFEL GUI: move logging out of xtc_process (f9d1cc864)

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[git/cctbx] master: Bugfix for job submission in XFEL gui (c73042237)

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[git/cctbx] master: save ncs cc (2dd4ee0a9)

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[git/cctbx] master: clean clutter (dc96110d6)

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[git/cctbx] master: allow sequence from pdb file (02dbf2aeb)

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[git/cctbx] master: FormatXTC: allow data source to be specified as experiment and run in the locator file. This allows the mode to be optional (default smd). (a8b931e53)

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[git/cctbx] master: Bugfix for striping: sort filenames. (790599e06)

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[git/cctbx] master: Add extra filters (filter by detector or by deltapsi) (871692779)

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[git/cctbx] master: Allow datablocks (a3c5e9004)

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Jenkins 5a cctbx Tests build 6313 Fixed

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[git/cctbx] master: bug fix for h5 files: write template expected by xds (fbb71b93e)

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Jenkins 5a cctbx Tests build 6312 Unstable

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[git/cctbx] master: clean clutter (7ca6b2526)

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[git/cctbx] master: Revert "This file belongs to fable." (cf53dc694)

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[git/cctbx] master: working update of segment_and_split to allow passing in sequence and ncs_object (c194d6e4a)

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[git/cctbx] master: Validation: update to use model (f7d0fd28a)

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[git/cctbx] master: GUI updates (f7cacb5da)

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[git/cctbx] master: cluster - moved imports outside of for loop (6c50b93ce)

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[git/cctbx] master: save info file (c187170ab)

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[git/cctbx] master: fix end of xrange (96da2033b)

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[git/cctbx] master: Remove boost_adaptbx from PYTHONPATH. Closes #149 (032d4e1a1)

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[git/cctbx] master: Catch case where there are no atoms (3cbf905ba)

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[git/cctbx] master: fix typo (220bc27df)

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[git/cctbx] master: small change to rounding function (6007ec965)

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Jenkins 5b cctbx MacOS build 2324 Fixed

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[git/cctbx] master: Fix underlying reason for the missing rt library (67451411e)

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[git/cctbx] master: libtbx.pkg_utils: tolerate missing package features (937e7d530)

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[git/cctbx] master: On python3 boost_threads.so must link to rt for whatever reason. (4cac27adb)

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[git/cctbx] master: More SConscript cleanup (5f287498f)

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[git/cctbx] master: Remove Python2.3 optimizations and re-enable deprecation warning from 2008. (bf2b08ea1)

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[git/cctbx] master: Don't use string.join, not even in SConscript (22779eac7)

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[git/cctbx] master: Some semantic changes for Python3 conversion, #80 (1321f6860)

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[git/cctbx] master: Remaining trivial Python3 conversions for build step (a721607d2)

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[git/cctbx] master: Fable: Python3 conversion: xrange, cStringIO, sorting with keys (965561873)

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[git/cctbx] master: Fable: code cleanup and remove unneeded imports (881af38e3)

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[git/cctbx] master: Fable: Python3 conversion for print statements and relative imports (40c0a147c)

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[git/cctbx] master: This file belongs to fable. (6b1a88ee6)

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[git/cctbx] master: It's a harmless windows lowercase uppercase thing. (a55ed2ff1)

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[git/cctbx] master: Investigate why this breaks on Windows (969ac63ee)

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[git/cctbx] master: Stick to officially documented functions of Python-internal libraries (28e3c5a3f)

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[git/cctbx] master: Use internal python API to determine include path (4ea5f46e4)

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[git/cctbx] master: Remove -Q parameter from dispatchers when in Python3 environment (3905c7249)

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[git/cctbx] master: more idiomatic fix for #164 (d7d2a513d)

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[git/cctbx] master: Someone left unused import, yt blamed by phenix buildbot (443422fd9)

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[git/cctbx] master: Only dereference exposure time if > 0 images; fixes #164 (65ac9e51a)

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[git/cctbx] master: XFEL GUI: update dispatchers (d5c1f4226)

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[git/cctbx] master: bugfix (a8c68f657)

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[git/cctbx] master: XFEL GUI: second lattices (946c41b70)

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[git/cctbx] master: Add test for bug found by James Holton (1fa7ebf40)

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[git/cctbx] master: python3 changes in dxtbx (6e0b48a07)

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[git/cctbx] master: more python3 conversion (1958cbe0d)

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[git/cctbx] master: Python3 syntax (087cc6da1)

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[git/cctbx] master: python3 compatibility change (dbbea5695)

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[git/cctbx] master: Fix minor operator precedence error in rstbx (7ee844905)

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[git/cctbx] master: remove unused import (dbb2c8217)

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[git/cctbx] master: allow add_identity_op (6a151ae91)

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[git/cctbx] master: allow selection of first ncs operator (8dbd29ed6)

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[git/cctbx] master: Validation: clashscore bug fix (b33d0cd67)

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[git/cctbx] master: Use Python bundle with updated pip for base installation, part of solution for #160 (6eb212de4)

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[git/cctbx] master: fix typo, and more python3 syntax compatibility (26319bf0d)

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Tue, 3 Apr 2018 09:22:48 +0100

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[git/cctbx] master: python3 syntax compatibility (8f75fffcc)

CCTBX commit

Tue, 3 Apr 2018 09:21:34 +0100

286 lines

[git/cctbx] master: Correct descr (cea780dd5)

CCTBX commit

Mon, 2 Apr 2018 13:00:00 -0700

74 lines

[git/cctbx] master: Write out models for callbacks (ac8506915)

CCTBX commit

Sun, 1 Apr 2018 08:25:29 -0600

171 lines

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