jalview.git
6 years agoJAL-2920 parse variation and original elements of the feature element, and include...
Jim Procter [Mon, 26 Feb 2018 15:59:53 +0000 (15:59 +0000)]
JAL-2920 parse variation and original elements of the feature element, and include them in the returned description if they are present in the record

6 years agoMerge branch 'feature/JAL-984splitAdjuster' into releases/Release_2_10_4_Branch
Jim Procter [Mon, 26 Feb 2018 10:13:30 +0000 (10:13 +0000)]
Merge branch 'feature/JAL-984splitAdjuster' into releases/Release_2_10_4_Branch

6 years agoJAL-984 remove all references to idwidth.gif - in build.xml too :) feature/JAL-984splitAdjuster
Jim Procter [Mon, 26 Feb 2018 10:12:45 +0000 (10:12 +0000)]
JAL-984 remove all references to idwidth.gif - in build.xml too :)

6 years agoJAL-2885 release notes
Jim Procter [Fri, 23 Feb 2018 16:54:28 +0000 (16:54 +0000)]
JAL-2885 release notes

6 years agoMerge branch 'features/JAL-2885UniprotHttps' into releases/Release_2_10_4_Branch
Jim Procter [Fri, 23 Feb 2018 16:01:42 +0000 (16:01 +0000)]
Merge branch 'features/JAL-2885UniprotHttps' into releases/Release_2_10_4_Branch

6 years agoJAL-2885 xfam https features/JAL-2885UniprotHttps
Jim Procter [Fri, 23 Feb 2018 11:40:15 +0000 (11:40 +0000)]
JAL-2885 xfam https

6 years agoJAL-2885 XFAM_DOMAIN->XFAM_BASEURL
Jim Procter [Fri, 23 Feb 2018 11:39:34 +0000 (11:39 +0000)]
JAL-2885 XFAM_DOMAIN->XFAM_BASEURL

6 years agoJAL-2885 Ensembl* -> https
Jim Procter [Fri, 23 Feb 2018 11:35:43 +0000 (11:35 +0000)]
JAL-2885 Ensembl* -> https

6 years agoJAL-2885 ENSEMBL-DOMAIN -> ENSEMBL-BASEURL
Jim Procter [Fri, 23 Feb 2018 11:33:41 +0000 (11:33 +0000)]
JAL-2885 ENSEMBL-DOMAIN -> ENSEMBL-BASEURL

6 years agoJAL-2885 renamed base URL getter from getDomain..
Jim Procter [Fri, 23 Feb 2018 11:24:03 +0000 (11:24 +0000)]
JAL-2885 renamed base URL getter from getDomain..

6 years agoMerge branch 'feature/JAL-984splitAdjuster' into releases/Release_2_10_4_Branch
Jim Procter [Thu, 22 Feb 2018 15:15:35 +0000 (15:15 +0000)]
Merge branch 'feature/JAL-984splitAdjuster' into releases/Release_2_10_4_Branch

6 years agoJAL-984 ID width adjuster needs to be white !
Jim Procter [Thu, 22 Feb 2018 15:14:46 +0000 (15:14 +0000)]
JAL-984 ID width adjuster needs to be white !

6 years agoJAL-2666 release notes
Jim Procter [Thu, 22 Feb 2018 15:05:36 +0000 (15:05 +0000)]
JAL-2666 release notes

6 years agoMerge branch 'bug/JAL-2666' into releases/Release_2_10_4_Branch
Jim Procter [Thu, 22 Feb 2018 14:48:58 +0000 (14:48 +0000)]
Merge branch 'bug/JAL-2666' into releases/Release_2_10_4_Branch

6 years agoMerge branch 'feature/JAL-984splitAdjuster' into releases/Release_2_10_4_Branch
Jim Procter [Thu, 22 Feb 2018 14:34:44 +0000 (14:34 +0000)]
Merge branch 'feature/JAL-984splitAdjuster' into releases/Release_2_10_4_Branch

6 years agoJAL-984 remove all references to idwidth.gif and use int constants in place of width...
Jim Procter [Thu, 22 Feb 2018 14:34:23 +0000 (14:34 +0000)]
JAL-984 remove all references to idwidth.gif and use int constants in place of width/height of image when switching between margin adjustment active/inactive mouse cursor

6 years agoJAL-2906 typo fixes
Jim Procter [Thu, 22 Feb 2018 14:16:26 +0000 (14:16 +0000)]
JAL-2906 typo fixes

6 years agoJAL-984 release notes
Jim Procter [Thu, 22 Feb 2018 14:15:19 +0000 (14:15 +0000)]
JAL-984 release notes

6 years agoMerge branch 'feature/JAL-984splitAdjuster' into releases/Release_2_10_4_Branch
Jim Procter [Thu, 22 Feb 2018 14:08:47 +0000 (14:08 +0000)]
Merge branch 'feature/JAL-984splitAdjuster' into releases/Release_2_10_4_Branch

6 years agoJAL-294 remove unneeded paint() method
Jim Procter [Thu, 22 Feb 2018 14:08:15 +0000 (14:08 +0000)]
JAL-294 remove unneeded paint() method

6 years agoJAL-984 remove commented/unnecessary if clause
Jim Procter [Thu, 22 Feb 2018 14:07:58 +0000 (14:07 +0000)]
JAL-984 remove commented/unnecessary if clause

6 years agoJAL-2906 release notes for 2.10.4
Jim Procter [Wed, 21 Feb 2018 17:40:04 +0000 (17:40 +0000)]
JAL-2906 release notes for 2.10.4

6 years agoMerge branch 'bug/JAL-2778again' into releases/Release_2_10_4_Branch
Jim Procter [Wed, 21 Feb 2018 17:19:01 +0000 (17:19 +0000)]
Merge branch 'bug/JAL-2778again' into releases/Release_2_10_4_Branch

6 years agoJAL-2778 reinstate transparent windows to avoid ugly borders on OSX bug/JAL-2778again
Jim Procter [Wed, 21 Feb 2018 16:28:31 +0000 (16:28 +0000)]
JAL-2778 reinstate transparent windows to avoid ugly borders on OSX

6 years agoJAL-2778 Adjust cursor changes in overview panel
kiramt [Wed, 21 Feb 2018 09:28:40 +0000 (09:28 +0000)]
JAL-2778 Adjust cursor changes in overview panel

6 years agoJAL-2778 Revert back to old synchronisation
kiramt [Wed, 21 Feb 2018 08:00:35 +0000 (08:00 +0000)]
JAL-2778 Revert back to old synchronisation

6 years agoMerge branch 'bugs/JAL-2780_JAL-2781_pdbnegativenums' into releases/Release_2_10_4_Branch
Jim Procter [Tue, 20 Feb 2018 09:02:56 +0000 (09:02 +0000)]
Merge branch 'bugs/JAL-2780_JAL-2781_pdbnegativenums' into releases/Release_2_10_4_Branch

6 years agoMerge branch 'develop' into releases/Release_2_10_4_Branch
Jim Procter [Thu, 15 Feb 2018 15:52:11 +0000 (15:52 +0000)]
Merge branch 'develop' into releases/Release_2_10_4_Branch

6 years agoJAL-2906 bump release version and cut new release note entry
Jim Procter [Thu, 15 Feb 2018 15:51:48 +0000 (15:51 +0000)]
JAL-2906 bump release version and cut new release note entry

6 years agoJAL-2780 scan all test IDs before testing and reporting test failures - currently... bugs/JAL-2780_JAL-2781_pdbnegativenums
Jim Procter [Tue, 13 Feb 2018 16:16:04 +0000 (16:16 +0000)]
JAL-2780 scan all test IDs before testing and reporting test failures - currently failing for 4im2 and Resnum==0 (seq pos 0)

6 years agoJAL-2780 SequenceI.findFeatures takes column numbers in base 1…

Jim Procter [Tue, 13 Feb 2018 16:15:12 +0000 (16:15 +0000)]
JAL-2780 SequenceI.findFeatures takes column numbers in base 1…


6 years agoJAL-2780 JAL-2781 don’t create a mapping if sequence position was not assigned but...
Jim Procter [Tue, 13 Feb 2018 15:35:41 +0000 (15:35 +0000)]
JAL-2780 JAL-2781 don’t create a mapping if sequence position was not assigned but still keep track of ‘unobserved’ counts for bookkeeping

6 years agoJAL-2780 JAL-2781 only create a mapping entry or write a character to the ‘mapped...
Jim Procter [Tue, 13 Feb 2018 15:34:22 +0000 (15:34 +0000)]
JAL-2780 JAL-2781 only create a mapping entry or write a character to the ‘mapped sequence’ for observed residues regardless of to/from coordinate frames

6 years agoJAL-2781 JAL-2780 include sequence start number when computing position in PDB sequen...
Jim Procter [Tue, 13 Feb 2018 15:33:16 +0000 (15:33 +0000)]
JAL-2781 JAL-2780 include sequence start number when computing position in PDB sequence when mapping from PDB to PDB

6 years agoJAL-2781 ensure Trim is disabled before test starts
Jim Procter [Tue, 13 Feb 2018 15:31:35 +0000 (15:31 +0000)]
JAL-2781 ensure Trim is disabled before test starts

6 years agoJAL-2781 refactor ‘trim retrieved sequence’ preference key to string constant for...
Jim Procter [Tue, 13 Feb 2018 15:28:21 +0000 (15:28 +0000)]
JAL-2781 refactor ‘trim retrieved sequence’ preference key to string constant for reuse in tests

6 years agoJAL-2781 null local siftsClient variable if exception occurs (probably not needed...
Jim Procter [Tue, 13 Feb 2018 13:48:23 +0000 (13:48 +0000)]
JAL-2781 null local siftsClient variable if exception occurs (probably not needed but clearer this way ?)

6 years agoJAL-2781 refactor StructureSelectionManager.siftsClient to local variable in computeM...
Jim Procter [Tue, 13 Feb 2018 13:47:37 +0000 (13:47 +0000)]
JAL-2781 refactor StructureSelectionManager.siftsClient to local variable in computeMapping

6 years agoJAL-2781 FIXME: value of sourceType parameter always overwritten
Jim Procter [Tue, 13 Feb 2018 13:46:26 +0000 (13:46 +0000)]
JAL-2781 FIXME: value of sourceType parameter always overwritten

6 years agoJAL-2781 refactor possibly non-functional ‘extract secondary structure’ logic out...
Jim Procter [Tue, 13 Feb 2018 13:45:28 +0000 (13:45 +0000)]
JAL-2781 refactor possibly non-functional ‘extract secondary structure’ logic out of computeMapping

6 years agoJAL-2781 tidy up comments on getMapping/computeMapping
Jim Procter [Tue, 13 Feb 2018 13:44:30 +0000 (13:44 +0000)]
JAL-2781 tidy up comments on getMapping/computeMapping

6 years agoJAL-2781 report exactly which residues do not receive RESNUM annotation from associat...
Jim Procter [Tue, 13 Feb 2018 12:50:40 +0000 (12:50 +0000)]
JAL-2781 report exactly which residues do not receive RESNUM annotation from associated structure data

6 years agoJAL-2905 added additional jvmarg for testng task conditional on the JVM identifying...
Jim Procter [Tue, 13 Feb 2018 12:49:25 +0000 (12:49 +0000)]
JAL-2905 added additional jvmarg for testng task conditional on the JVM identifying as java.version==9

6 years agoJAL-2780 JAL-2781 extra column in mapping array
Jim Procter [Mon, 12 Feb 2018 17:13:50 +0000 (17:13 +0000)]
JAL-2780 JAL-2781 extra column in mapping array

6 years agoJAL-2904 JAL-2780 JAL-2781 update JmolCommandsTest for removal of redundant first...
Jim Procter [Mon, 12 Feb 2018 17:13:12 +0000 (17:13 +0000)]
JAL-2904 JAL-2780 JAL-2781 update JmolCommandsTest for removal of redundant first semicolon in commandset

6 years agoJAL-2780 JAL-2781 ahem - add a semicolon if there isn’t one
Jim Procter [Mon, 12 Feb 2018 17:12:19 +0000 (17:12 +0000)]
JAL-2780 JAL-2781 ahem - add a semicolon if there isn’t one

6 years agoJAL-2780 use value of ’UNASSIGNED’ constant in assert verifying expected unassigned...
Jim Procter [Mon, 12 Feb 2018 16:43:30 +0000 (16:43 +0000)]
JAL-2780 use value of ’UNASSIGNED’ constant in assert verifying expected unassigned positions

6 years agoJAL-2904 replaced assert for (getEnd()-getStart()+1)==getLength() in testPdb/mmCIFSeq...
Jim Procter [Mon, 12 Feb 2018 16:29:49 +0000 (16:29 +0000)]
JAL-2904 replaced assert for (getEnd()-getStart()+1)==getLength() in testPdb/mmCIFSeqRetrieve with test for RESNUM features at each position extracted from the PDB chain.

6 years agoJAL-2781 use SIFTs mapping rather than maxChain AlignSeq to propagate annotation...
Jim Procter [Sun, 11 Feb 2018 11:04:57 +0000 (11:04 +0000)]
JAL-2781 use SIFTs mapping rather than maxChain AlignSeq to propagate annotation and sequence features to sequence being associated

6 years agoJAL-2780 JAL-2781 use PDBe numbering to map between sequence extracted from PDB chain...
Jim Procter [Sun, 11 Feb 2018 11:03:27 +0000 (11:03 +0000)]
JAL-2780 JAL-2781 use PDBe numbering to map between sequence extracted from PDB chain and Uniprot mapping

6 years agoJAL-2781 mark aligned positions via StructureMapping’s Mapping object, and transfer...
Jim Procter [Sun, 11 Feb 2018 10:54:00 +0000 (10:54 +0000)]
JAL-2781 mark aligned positions via StructureMapping’s Mapping object, and transfer residue positions via the Atom.resNum position rather than Residue.number

6 years agoJAL-2780 JAL-2781 include a Mapping object in StructureMapping to pass to sequence...
Jim Procter [Sun, 11 Feb 2018 10:49:50 +0000 (10:49 +0000)]
JAL-2780 JAL-2781 include a Mapping object in StructureMapping to pass to sequence annotation and feature transfer

6 years agoJAL-2780 JAL-2781 UNASSIGNED positions marked as Integer.Min
Jim Procter [Sun, 11 Feb 2018 10:45:23 +0000 (10:45 +0000)]
JAL-2780 JAL-2781 UNASSIGNED positions marked as Integer.Min

6 years agoJAL-2781 fix test data for full length annotation
Jim Procter [Sun, 11 Feb 2018 10:41:07 +0000 (10:41 +0000)]
JAL-2781 fix test data for full length annotation

6 years agoJAL-2789 avoid using transcript (with no UTR) as CDS sequence bug/JAL-2666
gmungoc [Fri, 9 Feb 2018 12:14:38 +0000 (12:14 +0000)]
JAL-2789 avoid using transcript (with no UTR) as CDS sequence

6 years agoJAL-2789 code format changes only (before functional fixes)
gmungoc [Fri, 9 Feb 2018 12:07:56 +0000 (12:07 +0000)]
JAL-2789 code format changes only (before functional fixes)

6 years agoJAL-2666 fix failure to scroll split alignment of height 1
gmungoc [Fri, 9 Feb 2018 12:03:57 +0000 (12:03 +0000)]
JAL-2666 fix failure to scroll split alignment of height 1

6 years agoUse the “PDBe” or “PDB” numbering (starts from 1, corresponds with the PDB SEQRES...
Jim Procter [Fri, 9 Feb 2018 09:46:25 +0000 (09:46 +0000)]
Use the “PDBe” or “PDB” numbering (starts from 1, corresponds with the PDB SEQRES record) to map to the dataset sequence if its primary coord system is PDB. (fixes StructureSelectionManagerTest.testMapping_EqualsSeqFeatures with 4im2_missing.pdb).

6 years agoJAL-2780 JAL-2781 should always ensure SIFTS mappings are made to dataset sequence...
Jim Procter [Fri, 9 Feb 2018 09:42:25 +0000 (09:42 +0000)]
JAL-2780 JAL-2781 should always ensure SIFTS mappings are made to dataset sequence rather than the alignment sequence.

6 years agoJAL-2666 basic initial fix for split screen scroll bug
gmungoc [Thu, 8 Feb 2018 16:16:41 +0000 (16:16 +0000)]
JAL-2666 basic initial fix for split screen scroll bug

6 years agoJAL-2780 JAL-2781 run sequentially and ensure windows are closed so structureselectio...
Jim Procter [Wed, 7 Feb 2018 16:58:09 +0000 (16:58 +0000)]
JAL-2780 JAL-2781 run sequentially and ensure windows are closed so structureselectionmanager is tidied up after each test.

6 years agoJAL-2780 JAL-2891 clear all windows always beforeTest for Jalview2XmlBase
Jim Procter [Wed, 7 Feb 2018 16:56:44 +0000 (16:56 +0000)]
JAL-2780 JAL-2891 clear all windows always beforeTest for Jalview2XmlBase

6 years agoJAL-2902 catch case where viewer is closed (therefore binding is null) before hasMapp...
Jim Procter [Wed, 7 Feb 2018 16:48:22 +0000 (16:48 +0000)]
JAL-2902 catch case where viewer is closed (therefore binding is null) before hasMapping is called. technically, hasMapping should return false… but not if it is being used to poll.

6 years agoJAL-2902 thread off dialog close op to avoid deadlock on the main swing thread.
Jim Procter [Wed, 7 Feb 2018 16:47:26 +0000 (16:47 +0000)]
JAL-2902 thread off dialog close op to avoid deadlock on the main swing thread.

6 years agoJAL-2780 JAL-2781 first pass at failing test for incorrect colouring of structure...
Jim Procter [Wed, 7 Feb 2018 13:10:18 +0000 (13:10 +0000)]
JAL-2780 JAL-2781 first pass at failing test for incorrect colouring of structure after import and display of fragment of PDB 4IM2

6 years agoJAL-2780 JAL-2781 JAL-2902 refactored helper method in test for programmatically...
Jim Procter [Wed, 7 Feb 2018 13:08:22 +0000 (13:08 +0000)]
JAL-2780 JAL-2781 JAL-2902 refactored helper method in test for programmatically viewing structure via structure chooser

6 years agoJAL-2902 - isBusy and hasMapping methods so client can wait until a newly opened...
Jim Procter [Wed, 7 Feb 2018 13:04:07 +0000 (13:04 +0000)]
JAL-2902 - isBusy and hasMapping methods so client can wait until a newly opened structure view has finished mapping sequences to structure data and sending initial colour commands to the structure view.
[ needed for JAL-2780 JAL-2781 tests]

6 years agoJAL-2780 JAL-2781 fix javadoc in line with behaviour for getPDBResNum
Jim Procter [Wed, 7 Feb 2018 12:57:24 +0000 (12:57 +0000)]
JAL-2780 JAL-2781 fix javadoc in line with behaviour for getPDBResNum

6 years agoJAL-2780 JAL-2781 JAL-2902 refactor ‘OK’ action to optionally blocking method for...
Jim Procter [Wed, 7 Feb 2018 12:55:30 +0000 (12:55 +0000)]
JAL-2780 JAL-2781 JAL-2902 refactor ‘OK’ action to optionally blocking method for retrieval/opening view for selected structures and getter for retrieving the handle for the last opened viewer

6 years agoJAL-2780 JAL-2781 don’t assume contiguous mapping to PDB residue numbering when gener...
Jim Procter [Wed, 7 Feb 2018 12:50:36 +0000 (12:50 +0000)]
JAL-2780 JAL-2781 don’t assume contiguous mapping to PDB residue numbering when generating Jmol colour commands (unmapped PDB residue data shouldn’t receive colour if mapped positions either side receive the same colour).

6 years agoJAL-2780 JAL-2781 (failing) test comparing location of transferred annotation from...
Jim Procter [Mon, 5 Feb 2018 16:43:26 +0000 (16:43 +0000)]
JAL-2780 JAL-2781 (failing) test comparing location of transferred annotation from PDB file via SIFTs to full length uniprot sequence vs transfer from same structure/SIFTS file to a subsequence through the StructureChooser

6 years agoJAL-2780 JAL-2781 programmatically select structures for retrieval via Structure...
Jim Procter [Mon, 5 Feb 2018 16:39:20 +0000 (16:39 +0000)]
JAL-2780 JAL-2781 programmatically select structures for retrieval via Structure Chooser GUI

6 years agoJAL-2780 JAL-2871 only look up current table view once
Jim Procter [Mon, 5 Feb 2018 16:38:48 +0000 (16:38 +0000)]
JAL-2780 JAL-2871 only look up current table view once

6 years agoJAL-2780 JAL-2781 test AlignmentI.findAnnotations locates sequence associated annotat...
Jim Procter [Mon, 5 Feb 2018 16:36:33 +0000 (16:36 +0000)]
JAL-2780 JAL-2781 test AlignmentI.findAnnotations locates sequence associated annotation by id and sequence reference

6 years agoJAL-2780 JAL-2781 - patch and first test for AlignmentI.findOrCreateAnnotation
Jim Procter [Mon, 5 Feb 2018 16:34:28 +0000 (16:34 +0000)]
JAL-2780 JAL-2781 - patch and first test for AlignmentI.findOrCreateAnnotation

6 years agoJAL-2788 possible adjustments to sequence accesses
kiramt [Mon, 5 Feb 2018 13:41:52 +0000 (13:41 +0000)]
JAL-2788 possible adjustments to sequence accesses

6 years agoJAL-2778 Sequence width benchmark
kiramt [Mon, 5 Feb 2018 09:52:38 +0000 (09:52 +0000)]
JAL-2778 Sequence width benchmark

6 years agoJAL-984 use cursor for drag regions to adjust annotation height or id width
gmungoc [Fri, 2 Feb 2018 11:33:39 +0000 (11:33 +0000)]
JAL-984 use cursor for drag regions to adjust annotation height or id width

6 years agoJAL-984 better behaved panel height adjuster
gmungoc [Fri, 2 Feb 2018 10:14:17 +0000 (10:14 +0000)]
JAL-984 better behaved panel height adjuster

6 years agoMerge branch 'releases/Release_2_10_3_Branch' into bugs/JAL-2780_JAL-2781_pdbnegativenums
Jim Procter [Fri, 26 Jan 2018 18:30:48 +0000 (18:30 +0000)]
Merge branch 'releases/Release_2_10_3_Branch' into bugs/JAL-2780_JAL-2781_pdbnegativenums

6 years agoJAL-2778 try another way to draw sequences with reduced synchronisation
kiramt [Fri, 26 Jan 2018 16:32:50 +0000 (16:32 +0000)]
JAL-2778 try another way to draw sequences with reduced synchronisation

6 years agoJAL-2778 tightened up use of resetAlignmentDims
kiramt [Fri, 26 Jan 2018 10:27:46 +0000 (10:27 +0000)]
JAL-2778 tightened up use of resetAlignmentDims

6 years agoJAL-2778 Tidy
kiramt [Thu, 25 Jan 2018 17:09:16 +0000 (17:09 +0000)]
JAL-2778 Tidy

6 years agoJAL-2778 added JAL-2851 fix to avoid confusion
kiramt [Thu, 25 Jan 2018 14:06:52 +0000 (14:06 +0000)]
JAL-2778 added JAL-2851 fix to avoid confusion

6 years agoJAL-2778 Reinstate id width adjuster
kiramt [Thu, 25 Jan 2018 13:49:36 +0000 (13:49 +0000)]
JAL-2778 Reinstate id width adjuster

6 years agoMerge branch 'develop' into releases/Release_2_10_3_Branch releases/Release_2_10_3_Branch Release_2_10_3b1
Jim Procter [Wed, 24 Jan 2018 07:37:42 +0000 (07:37 +0000)]
Merge branch 'develop' into releases/Release_2_10_3_Branch

6 years agoJAL-2858 update release date and rejig what's new message
Jim Procter [Wed, 24 Jan 2018 07:36:56 +0000 (07:36 +0000)]
JAL-2858 update release date and rejig what's new message

6 years agoMerge branch 'develop' into releases/Release_2_10_3_Branch
Jim Procter [Tue, 23 Jan 2018 14:11:15 +0000 (14:11 +0000)]
Merge branch 'develop' into releases/Release_2_10_3_Branch

6 years agoJAL-2858 fix what's new
Jim Procter [Tue, 23 Jan 2018 13:52:31 +0000 (13:52 +0000)]
JAL-2858 fix what's new

6 years agoMerge branch 'develop' into releases/Release_2_10_3_Branch
Jim Procter [Tue, 23 Jan 2018 12:04:09 +0000 (12:04 +0000)]
Merge branch 'develop' into releases/Release_2_10_3_Branch

6 years agoJAL-2858 update latest release notes link in TOC
Jim Procter [Tue, 23 Jan 2018 12:03:37 +0000 (12:03 +0000)]
JAL-2858 update latest release notes link in TOC

6 years agoJAL-2859 release notes
Jim Procter [Tue, 23 Jan 2018 11:57:05 +0000 (11:57 +0000)]
JAL-2859 release notes

6 years agoJAL-2858 update release notes
Jim Procter [Tue, 23 Jan 2018 11:54:49 +0000 (11:54 +0000)]
JAL-2858 update release notes

6 years agoMerge branch 'develop' into releases/Release_2_10_3_Branch
Jim Procter [Mon, 22 Jan 2018 15:27:07 +0000 (15:27 +0000)]
Merge branch 'develop' into releases/Release_2_10_3_Branch

6 years agoJAL-2858 release notes for 2.10.3b1 (including revision to EnsemblGenomes client...
Jim Procter [Mon, 22 Jan 2018 15:26:10 +0000 (15:26 +0000)]
JAL-2858 release notes for 2.10.3b1 (including revision to EnsemblGenomes client as per JAL-2679)

6 years agoJAL-2858 bump version number for 2.10.3b1
Jim Procter [Mon, 22 Jan 2018 15:25:23 +0000 (15:25 +0000)]
JAL-2858 bump version number for 2.10.3b1

6 years agoJAL-2810 JAL-2886 i18n
gmungoc [Thu, 18 Jan 2018 16:12:50 +0000 (16:12 +0000)]
JAL-2810 JAL-2886 i18n

6 years agoJAL-2679 update query id to actual case of retrieved gene
gmungoc [Thu, 18 Jan 2018 14:54:49 +0000 (14:54 +0000)]
JAL-2679 update query id to actual case of retrieved gene

6 years agoJAL-2679 case-insensitive comparison of query and retrieved accession
gmungoc [Wed, 17 Jan 2018 11:37:09 +0000 (11:37 +0000)]
JAL-2679 case-insensitive comparison of query and retrieved accession

6 years agoJAL-2679 use object_type=Transcript for lookup of Parent for Protein
gmungoc [Tue, 16 Jan 2018 16:27:19 +0000 (16:27 +0000)]
JAL-2679 use object_type=Transcript for lookup of Parent for Protein