Jim Procter [Thu, 10 Aug 2017 09:31:54 +0000 (10:31 +0100)]
Merge branch 'develop' into releases/Release_2_10_2_Branch
Jim Procter [Thu, 10 Aug 2017 09:31:39 +0000 (10:31 +0100)]
Merge branch 'documentation/JAL-2418_release2102' into develop
Jim Procter [Thu, 10 Aug 2017 09:31:23 +0000 (10:31 +0100)]
JAL-2418 set final release date to 15th August 2017 for 2.10.2
Signed-off-by: Jim Procter <jprocter@issues.jalview.org>
Jim Procter [Thu, 10 Aug 2017 09:30:00 +0000 (10:30 +0100)]
JAL-2418 typo in release notes
Jim Procter [Thu, 10 Aug 2017 09:29:53 +0000 (10:29 +0100)]
JAL-2418 known defect for JAL-2321 in release notes
Jim Procter [Thu, 10 Aug 2017 09:19:29 +0000 (10:19 +0100)]
JAL-2418 reorganised release notes to topic sections rather than General/Application/Applet
gmungoc [Thu, 10 Aug 2017 09:17:14 +0000 (10:17 +0100)]
JAL-2505 apply changed description to new, not deleted, feature!
gmungoc [Thu, 10 Aug 2017 09:10:51 +0000 (10:10 +0100)]
JAL-2658 ensure features dropdown entries are unique
gmungoc [Thu, 10 Aug 2017 07:52:56 +0000 (08:52 +0100)]
JAL-2593 don't filter out 'colour by label' features
gmungoc [Thu, 10 Aug 2017 07:12:06 +0000 (08:12 +0100)]
Merge branch 'develop' into features/JAL-2446NCList
Jim Procter [Wed, 9 Aug 2017 20:40:35 +0000 (21:40 +0100)]
Merge branch 'documentation/JAL-2418_release2102' into releases/Release_2_10_2_Branch
Jim Procter [Wed, 9 Aug 2017 20:40:25 +0000 (21:40 +0100)]
Merge branch 'documentation/JAL-2418_release2102' into develop
Jim Procter [Wed, 9 Aug 2017 20:40:05 +0000 (21:40 +0100)]
JAL-2418 JAL-2398 JAL-2397 simpler documentation for reinstating legacy behaviour
Jim Procter [Wed, 9 Aug 2017 20:15:55 +0000 (21:15 +0100)]
Merge branch 'develop' into releases/Release_2_10_2_Branch
Jim Procter [Wed, 9 Aug 2017 20:15:27 +0000 (21:15 +0100)]
Merge branch 'documentation/JAL-2418_release2102' into develop
Jim Procter [Wed, 9 Aug 2017 20:14:58 +0000 (21:14 +0100)]
JAL-2397 JAL-2398 documentation for reinstating legacy PCA calculation with asymmetric Blosum62 matrix.
Jim Procter [Wed, 9 Aug 2017 19:24:00 +0000 (20:24 +0100)]
JAL-2426 Rfam download suffix
Jim Procter [Wed, 9 Aug 2017 18:32:05 +0000 (19:32 +0100)]
JAL-2426 JAL-1270 report Xfam download URL used if debug enabled
Jim Procter [Wed, 9 Aug 2017 18:31:29 +0000 (19:31 +0100)]
JAL-2425 raw stockholm download URLs
Jim Procter [Wed, 9 Aug 2017 18:29:54 +0000 (19:29 +0100)]
JAL-1270 testProps should also enable debug logging
Jim Procter [Wed, 9 Aug 2017 18:29:05 +0000 (19:29 +0100)]
JAL-2425 test for alignment metadata retrieved from Pfam and Rfam
Jim Procter [Wed, 9 Aug 2017 18:27:53 +0000 (19:27 +0100)]
JAL-2425 remove overloaded getSequenceRecords method (don’t need it ?)
Jim Procter [Wed, 9 Aug 2017 15:44:02 +0000 (16:44 +0100)]
JAL-2418 release notes
kiramt [Wed, 9 Aug 2017 11:14:57 +0000 (12:14 +0100)]
JAL-2587 Adjusting height for progress bar
gmungoc [Wed, 9 Aug 2017 10:45:53 +0000 (11:45 +0100)]
Merge branch 'develop' into features/JAL-2446NCList
kiramt [Wed, 9 Aug 2017 10:34:55 +0000 (11:34 +0100)]
JAL-2587 fiddling with dimensions
kiramt [Wed, 9 Aug 2017 10:20:34 +0000 (11:20 +0100)]
JAL-2587 Keep progress bar panel in position regardless of visibility
gmungoc [Wed, 9 Aug 2017 09:28:58 +0000 (10:28 +0100)]
JAL-2480 inline one method, improve comments
Jim Procter [Wed, 9 Aug 2017 08:46:08 +0000 (09:46 +0100)]
JAL-2418 more release notes
Jim Procter [Wed, 9 Aug 2017 08:45:50 +0000 (09:45 +0100)]
JAL-2418 JAL-2611 and rejigged overview documentation
Jim Procter [Wed, 9 Aug 2017 08:09:56 +0000 (09:09 +0100)]
Merge branch 'bug/JAL-2634' into develop
Jim Procter [Wed, 9 Aug 2017 07:56:01 +0000 (08:56 +0100)]
Merge branch 'documentation/JAL-2418_release2102' into develop
gmungoc [Wed, 9 Aug 2017 07:39:23 +0000 (08:39 +0100)]
Merge branch 'develop' into features/JAL-2446NCList
gmungoc [Tue, 8 Aug 2017 15:44:45 +0000 (16:44 +0100)]
JAL-2560 alternative fix (reinstate lost line of code)
kiramt [Tue, 8 Aug 2017 14:03:17 +0000 (15:03 +0100)]
JAL-2587 tidies
kiramt [Tue, 8 Aug 2017 13:01:54 +0000 (14:01 +0100)]
JAL-2587 Added progress bar to overview. Not fully working yet.
gmungoc [Tue, 8 Aug 2017 10:30:04 +0000 (11:30 +0100)]
Merge branch 'develop' into features/JAL-2446NCList
gmungoc [Tue, 8 Aug 2017 10:18:12 +0000 (11:18 +0100)]
JAL-2649 JAL-2650 wait for Conservation calc to complete before setting
on new View coloured by Conservation
gmungoc [Tue, 8 Aug 2017 09:08:46 +0000 (11:08 +0200)]
JAL-2650 configure new viewport settings before selecting view tab
Jim Procter [Mon, 7 Aug 2017 14:33:47 +0000 (15:33 +0100)]
Merge branch 'bug/JAL-2592userDefinedScheme' into develop
gmungoc [Mon, 7 Aug 2017 14:09:57 +0000 (16:09 +0200)]
Merge branch 'develop' into features/JAL-2446NCList
Jim Procter [Mon, 7 Aug 2017 13:31:35 +0000 (14:31 +0100)]
Merge branch 'develop' into releases/Release_2_10_2_Branch
Jim Procter [Mon, 7 Aug 2017 13:31:13 +0000 (14:31 +0100)]
Merge branch 'documentation/JAL-2418_release2102' into develop
Jim Procter [Mon, 7 Aug 2017 11:24:05 +0000 (12:24 +0100)]
JAL-2418 JAL-2468 known issue
Jim Procter [Mon, 7 Aug 2017 11:07:45 +0000 (12:07 +0100)]
JAL-2482 JAL-2487 documented in release notes
Jim Procter [Mon, 7 Aug 2017 11:04:48 +0000 (12:04 +0100)]
JAL-2482 release notes
Jim Procter [Mon, 7 Aug 2017 10:56:46 +0000 (11:56 +0100)]
JAL-2418 release notes formatting
Jim Procter [Mon, 7 Aug 2017 10:56:01 +0000 (11:56 +0100)]
JAL-2418 release notes
Jim Procter [Mon, 7 Aug 2017 10:55:46 +0000 (11:55 +0100)]
JAL-2418 typo and formatting of search.html
Jim Procter [Mon, 7 Aug 2017 10:54:25 +0000 (11:54 +0100)]
JAL-1648 documentation of search history for Find command
Jim Procter [Mon, 7 Aug 2017 08:50:33 +0000 (09:50 +0100)]
JAL-2418 reformatting and scripting section in what’s new
Jim Procter [Mon, 7 Aug 2017 08:49:38 +0000 (09:49 +0100)]
JAL-2418 release notes
Jim Procter [Mon, 7 Aug 2017 08:49:10 +0000 (09:49 +0100)]
JAL-2418 formatting
Jim Procter [Mon, 7 Aug 2017 08:48:58 +0000 (09:48 +0100)]
JAL-1476 JAL-2418 insufficient columns for superposition docs/release notes
kiramt [Fri, 4 Aug 2017 13:29:58 +0000 (14:29 +0100)]
Merge remote-tracking branch 'origin/develop' into feature/JAL-2587
kiramt [Fri, 4 Aug 2017 13:28:43 +0000 (14:28 +0100)]
JAL-2587 First working effort
Jim Procter [Fri, 4 Aug 2017 12:40:20 +0000 (13:40 +0100)]
JAL-2418 JAL-1632 JAL-2416 calculations dialog documentation page and release notes
Jim Procter [Fri, 4 Aug 2017 10:28:36 +0000 (11:28 +0100)]
JAL-2418 new features in release notes JAL-1933 JAL-2375
Jim Procter [Fri, 4 Aug 2017 10:10:43 +0000 (11:10 +0100)]
JAL-2418 release notes
Jim Procter [Fri, 4 Aug 2017 10:10:09 +0000 (11:10 +0100)]
JAL-1551 JAL-2418 reformat releases.html to remove tabs
Jim Procter [Fri, 4 Aug 2017 08:13:06 +0000 (09:13 +0100)]
Merge branch 'documentation/JAL-2418_release2102' into releases/Release_2_10_2_Branch
Jim Procter [Fri, 4 Aug 2017 08:12:44 +0000 (09:12 +0100)]
Merge branch 'documentation/JAL-2418_release2102' into develop
Jim Procter [Fri, 4 Aug 2017 08:12:35 +0000 (09:12 +0100)]
Merge branch 'develop' into documentation/JAL-2418_release2102
gmungoc [Thu, 3 Aug 2017 11:47:18 +0000 (13:47 +0200)]
JAL-2500 JAL-2365 lightGray changed to lightgray for backwards
compatibility!
JAL-1551 source formatting definition for eclipse
gmungoc [Thu, 3 Aug 2017 11:45:25 +0000 (13:45 +0200)]
JAL-2500 JAL-2365 lightGray changed to gray in example file for
backwards compatibility
gmungoc [Thu, 3 Aug 2017 16:01:03 +0000 (18:01 +0200)]
JAL-2643 updated threshold on threshold value focus lost
gmungoc [Thu, 3 Aug 2017 13:29:02 +0000 (15:29 +0200)]
Merge branch 'develop' into features/JAL-2446NCList
Jim Procter [Thu, 3 Aug 2017 13:09:25 +0000 (14:09 +0100)]
Merge branch 'develop' into releases/Release_2_10_2_Branch
Jim Procter [Thu, 3 Aug 2017 13:09:10 +0000 (14:09 +0100)]
Merge branch 'documentation/JAL-2418_release2102' into develop
Jim Procter [Thu, 3 Aug 2017 13:07:51 +0000 (14:07 +0100)]
Merge branch 'develop' into documentation/JAL-2418_release2102
Jim Procter [Thu, 3 Aug 2017 13:05:30 +0000 (14:05 +0100)]
Merge branch 'develop' of source.jalview.org/git/jalview into develop
Jim Procter [Thu, 3 Aug 2017 13:05:14 +0000 (14:05 +0100)]
JAL-2418 what’s new - faster PCA, calculations UI and score model framework
Jim Procter [Thu, 3 Aug 2017 13:04:43 +0000 (14:04 +0100)]
JAL-2418 release notes
Jim Procter [Thu, 3 Aug 2017 12:59:31 +0000 (13:59 +0100)]
JAL-1551 updated source code formatting settings from gmungoc and README on how to compare between versions
gmungoc [Thu, 3 Aug 2017 12:13:24 +0000 (14:13 +0200)]
Merge branch 'develop' into features/JAL-2446NCList
gmungoc [Thu, 3 Aug 2017 12:13:00 +0000 (14:13 +0200)]
JAL-2500 JAL-2365 feature colour "gray" _not_ "lightgray" for backwards
compatibility!!
gmungoc [Thu, 3 Aug 2017 11:47:18 +0000 (13:47 +0200)]
JAL-2500 JAL-2365 lightGray changed to lightgray for backwards
compatibility!
gmungoc [Thu, 3 Aug 2017 11:45:25 +0000 (13:45 +0200)]
JAL-2500 JAL-2365 lightGray changed to gray in example file for
backwards compatibility
gmungoc [Thu, 3 Aug 2017 11:18:03 +0000 (13:18 +0200)]
JAL-2435 test for 'mirror font' option visible (not enabled) (safer)
Jim Procter [Thu, 3 Aug 2017 10:33:46 +0000 (11:33 +0100)]
Merge branch 'bug/JAL-2591overviewupdate' into develop
kiramt [Thu, 3 Aug 2017 07:56:42 +0000 (08:56 +0100)]
JAL-2587 Attempt to add timed dissolve
Jim Procter [Wed, 2 Aug 2017 16:02:06 +0000 (17:02 +0100)]
Merge branch 'documentation/JAL-2418_release2102' into develop
Jim Procter [Wed, 2 Aug 2017 16:01:50 +0000 (17:01 +0100)]
Merge branch 'develop' into documentation/JAL-2418_release2102
Jim Procter [Wed, 2 Aug 2017 16:01:02 +0000 (17:01 +0100)]
Merge branch 'bug/JAL-2321_merged' into develop
Jim Procter [Wed, 2 Aug 2017 14:31:01 +0000 (15:31 +0100)]
Merge branch 'bug/JAL-2321' into bug/JAL-2321_merged
Jim Procter [Wed, 2 Aug 2017 14:28:12 +0000 (15:28 +0100)]
JAL-2418 release notes for JAL-2582
gmungoc [Wed, 2 Aug 2017 14:23:29 +0000 (16:23 +0200)]
Merge branch 'develop' into features/JAL-2446NCList
gmungoc [Wed, 2 Aug 2017 14:02:14 +0000 (16:02 +0200)]
JAL-2418 corrected link url for "overview" target
Jim Procter [Tue, 1 Aug 2017 16:12:18 +0000 (17:12 +0100)]
Merge branch 'develop' into releases/Release_2_10_2_Branch
Jim Procter [Tue, 1 Aug 2017 16:12:05 +0000 (17:12 +0100)]
Merge branch 'documentation/JAL-2418_release2102' into develop
Jim Procter [Tue, 1 Aug 2017 16:11:32 +0000 (17:11 +0100)]
JAL-2418 known defect for eggnog tree import (JAL-2590)
Jim Procter [Tue, 1 Aug 2017 15:43:09 +0000 (16:43 +0100)]
Merge branch 'develop' into releases/Release_2_10_2_Branch
Jim Procter [Tue, 1 Aug 2017 15:42:52 +0000 (16:42 +0100)]
Merge branch 'documentation/JAL-2418_release2102' into develop
Jim Procter [Tue, 1 Aug 2017 15:42:43 +0000 (16:42 +0100)]
Merge branch 'develop' into documentation/JAL-2418_release2102
Jim Procter [Tue, 1 Aug 2017 15:42:28 +0000 (16:42 +0100)]
Merge branch 'bug/JAL-2632' into develop
Jim Procter [Tue, 1 Aug 2017 15:39:23 +0000 (16:39 +0100)]
JAL-2418 documentation
Jim Procter [Tue, 1 Aug 2017 15:16:25 +0000 (16:16 +0100)]
Merge branch 'develop' into releases/Release_2_10_2_Branch
Jim Procter [Tue, 1 Aug 2017 15:16:05 +0000 (16:16 +0100)]
Merge branch 'documentation/JAL-2418_release2102' into develop
Jim Procter [Tue, 1 Aug 2017 15:15:46 +0000 (16:15 +0100)]
JAL-2631 JAL-2623 JAL-2624 JAL-2630 JAL-147 JAL-2034 release notes and signoff
Jim Procter [Tue, 1 Aug 2017 15:14:53 +0000 (16:14 +0100)]
JAL-2418 update 2.10.2 release date
git://source.jalview.org / jalview.git / log