Pushed Revisions

branch: master 「№56676」
Commited by: Matthew O'Meara
GitHub commit link: 「3ee83d73f48e20ed」
Difference from previous tested commit: code diff
Commit date: 2014-04-16 22:14:41

Fix typos in performance benchmark readme

branch: master 「№56675」
Commited by: Zibo Chen
GitHub commit link: 「99e9cedaf680153b」
Difference from previous tested commit: code diff
Commit date: 2014-04-16 21:19:24

merge cryst_design.cc changes to master

branch: master 「№56674」
Commited by: Luki Goldschmidt
GitHub commit link: 「31a81b7bfe60e2c7」
Difference from previous tested commit: code diff
Commit date: 2014-04-16 19:19:48

Bug fixes: 1) Max pose selection count in TopNByProperty pose selector. 2) MultiplePoseMover: Drop poses for which sub-protocol failed (via mover status). Unit tests: Pass.

branch: master 「№56673」
Commited by: Frank DiMaio
GitHub commit link: 「2f1ff135d303d7bb」
Difference from previous tested commit: code diff
Commit date: 2014-04-16 14:11:25

cryst_gen: support for O,T + small bugfix

branch: master 「№56672」
Commited by: Dominik Gront
GitHub commit link: 「901f93b2830efb39」
Difference from previous tested commit: code diff
Commit date: 2014-04-16 08:17:02

Fixing warning that broke the build under gcc 4.7.2 I added a cast in StructureFeatures::write_schema_to_db from uint32 to SSize to avoid 'comparison between signed and unsigned integer' warning

branch: master 「№56671」
Commited by: Vikram K. Mulligan
GitHub commit link: 「f363f8ab2d398458」
Difference from previous tested commit: code diff
Commit date: 2014-04-16 03:01:51

Merging vmullig/metals into master. This fixes some bugs in automatic metal setup and in handling noncanonical amino acids templated on canonicals. --All canonical l-amino acids are now metalbinding, since the backbone carbonyl coordinates metals in some structures. --Some bugs in src/core/util/metalloproteins_util.cc have been fixed. --An assertion failure in debug mode in metalloproteins_util.cc has been fixed. --An assertion failure in debug mode with templated noncanonicals has been fixed. --BPY.params has been tweaked to avoid a (benign) assert failure. Unit test status: All Pass Integration test status: 1 changed test: The carbohydrates integration test shows cosmetic changes (since it outputs loaded residue type properties, including whether the types are metalbinding or not). modified: database/chemical/residue_type_sets/fa_standard/residue_types/l-caa/ALA.params modified: database/chemical/residue_type_sets/fa_standard/residue_types/l-caa/ARG.params modified: database/chemical/residue_type_sets/fa_standard/residue_types/l-caa/ASN.params modified: database/chemical/residue_type_sets/fa_standard/residue_types/l-caa/ASP.params modified: database/chemical/residue_type_sets/fa_standard/residue_types/l-caa/CYD.params modified: database/chemical/residue_type_sets/fa_standard/residue_types/l-caa/CYS.params modified: database/chemical/residue_type_sets/fa_standard/residue_types/l-caa/CYV.params modified: database/chemical/residue_type_sets/fa_standard/residue_types/l-caa/CYZ.params modified: database/chemical/residue_type_sets/fa_standard/residue_types/l-caa/GLN.params modified: database/chemical/residue_type_sets/fa_standard/residue_types/l-caa/GLU.params modified: database/chemical/residue_type_sets/fa_standard/residue_types/l-caa/GLY.params modified: database/chemical/residue_type_sets/fa_standard/residue_types/l-caa/HIS.params modified: database/chemical/residue_type_sets/fa_standard/residue_types/l-caa/HIS_D.params modified: database/chemical/residue_type_sets/fa_standard/residue_types/l-caa/ILE.params modified: database/chemical/residue_type_sets/fa_standard/residue_types/l-caa/LEU.params modified: database/chemical/residue_type_sets/fa_standard/residue_types/l-caa/LYS.params modified: database/chemical/residue_type_sets/fa_standard/residue_types/l-caa/MET.params modified: database/chemical/residue_type_sets/fa_standard/residue_types/l-caa/PHE.params modified: database/chemical/residue_type_sets/fa_standard/residue_types/l-caa/PRO.params modified: database/chemical/residue_type_sets/fa_standard/residue_types/l-caa/SER.params modified: database/chemical/residue_type_sets/fa_standard/residue_types/l-caa/THR.params modified: database/chemical/residue_type_sets/fa_standard/residue_types/l-caa/TRP.params modified: database/chemical/residue_type_sets/fa_standard/residue_types/l-caa/TYR.params modified: database/chemical/residue_type_sets/fa_standard/residue_types/l-caa/VAL.params modified: database/chemical/residue_type_sets/fa_standard/residue_types/metal_binding_ncaa/BPY.params modified: database/chemical/residue_type_sets/fa_standard/residue_types/metal_ions/CA.params modified: source/src/apps/pilot/vmullig/test_metalloproteins.cc modified: source/src/core/import_pose/import_pose.cc modified: source/src/core/pack/dunbrack/RotamericSingleResidueDunbrackLibrary.tmpl.hh modified: source/src/core/util/metalloproteins_util.cc

branch: master 「№56670」
Commited by: Labonte
GitHub commit link: 「2f37a37976b0812a」
Difference from previous tested commit: code diff
Commit date: 2014-04-15 19:53:20

Carbohydrates: adding new sugars to database ---------------------------------------- Unit test status: Not Run Integration test status: Not Run carbohydrates, rings: change in number of ResidueTypes reported expected

branch: master 「№56669」
Commited by: Sergey Lyskov
GitHub commit link: 「49c01a1515d28984」
Difference from previous tested commit: code diff
Commit date: 2014-04-14 13:48:38

Fixing some build problem on Windows

branch: master 「№56668」
Commited by: unknown name
GitHub commit link: 「6dac15a0653d5ca5」
Difference from previous tested commit: code diff
Commit date: 1711-11-19 00:00:00

branch: master 「№56667」
Commited by: Frank DiMaio
GitHub commit link: 「69f60e514cf78b2a」
Difference from previous tested commit: code diff
Commit date: 2014-04-13 19:17:26

Merging cryst generator code with master

branch: master 「№56666」
Commited by: Rhiju Das
GitHub commit link: 「f693e713813e8020」
Difference from previous tested commit: code diff
Commit date: 2014-04-13 18:34:00

restore unit tests involving BinarySilentStruct after my last checkin

branch: master 「№56665」
Commited by: Rhiju Das
GitHub commit link: 「41d82a0076333b99」
Difference from previous tested commit: code diff
Commit date: 2014-04-13 18:20:23

(part of fix) removing highly illegal dependency of ObjexxFCL on utility (due to change of assert to runtime_assert, which was useful for debugging but not critical).

branch: master 「№56664」
Commited by: Per Greisen
GitHub commit link: 「008a7c9bc8eae11b」
Difference from previous tested commit: code diff
Commit date: 2014-04-13 17:38:06

To use this protocol via BOINC the random number has to be moved outside the class in order for the BOINC build to initialze it otherwise a null pointer will be generated and the protocol will crash

branch: master 「№56663」
Commited by: Rocco Moretti
GitHub commit link: 「b16aa9dd9f44592d」
Difference from previous tested commit: code diff
Commit date: 2014-04-13 13:49:44

Remove autogenerated options files which were added back in Also, update xcode/make_project.py to (re)generate options automatically.

branch: master 「№56662」
Commited by: Rhiju Das
GitHub commit link: 「c099724ec1a08434」
Difference from previous tested commit: code diff
Commit date: 2014-04-13 11:01:27

fix to builds after merge with rhiju/swm_general.

branch: master 「№56661」
Commited by: Sergey Lyskov
GitHub commit link: 「41be622af5802138」
Difference from previous tested commit: code diff
Commit date: 2014-04-13 00:14:06

Legend:

queued	Queued Test
queued for comparison	Test finished running but not yet compared
running	Test is Running right now
comparing	Test results is now comparing with previous results
finished	Test is finished without errors
failed	Test failed
build Failed	Test could not be run because build failed
script failed	Test results is unknow because test-script failed
canceled	Test was canceled