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Merge branch 'JAL-1601-direct-jpred4-rest-service' into development/Release_2_12_Branch
[jalview.git] / src /
2024-03-12 Mateusz WarownyJAL-1601 Read full file before passing to FileParse tree | commitdiff
2024-01-19 Mateusz WarownyJAL-1601 Patch JPred4 service tests. tree | commitdiff
2023-11-06 Mateusz WarownyJAL-1601 Expand secondary structure prediction tests tree | commitdiff
2023-11-06 Mateusz WarownyJAL-1601 Change getSubJobs return type tree | commitdiff
2023-11-01 Mateusz WarownyMerge branch 'bug/JAL-4313-make-visible-annot-fix'... tree | commitdiff
2023-11-01 Mateusz WarownyJAL-4313 Clamp start and end ranges to array size bug/JAL-4313-make-visible-annot-fix tree | commitdiff
2023-10-31 Mateusz WarownyJAL-4313 Test and patch annots trimming tree | commitdiff
2023-10-30 Mateusz WarownyMerge branch 'bug/JAL-4313-make-visible-annot-fix'... tree | commitdiff
2023-10-30 Mateusz WarownyJAL-4313 Change default trim end to (length - 1) tree | commitdiff
2023-10-19 Mateusz WarownyJAL-1601 Implement sec str pred for single sequences tree | commitdiff
2023-10-18 Mateusz WarownyJAL-1601 Reuse existing "getNonEmptySequenceSet" method tree | commitdiff
2023-10-18 Mateusz WarownyJAL-1601 Rename task class to SecStructPredMsaTask tree | commitdiff
2023-10-18 Mateusz WarownyJAL-1601 Move job class as inner task class tree | commitdiff
2023-10-17 Mateusz WarownyJAL-1601 Create alignment copying method in AlignmentUtils tree | commitdiff
2023-10-16 Mateusz WarownyJAL-1601 Propagate hidden columns to the output alignment tree | commitdiff
2023-10-16 Mateusz WarownyJAL-1601 Propagate representative sequence to the final... tree | commitdiff
2023-10-13 Mateusz WarownyJAL-1601 Set job status to server error if collecting... tree | commitdiff
2023-10-13 Mateusz WarownyJAL-1601 Create SecStructPredTask class tree | commitdiff
2023-10-13 Mateusz WarownyJAL-1601 Load and display JPred4 service in AlignFrame tree | commitdiff
2023-10-13 Mateusz WarownyJAL-1601 Implement JPred4 WS client and discoverer tree | commitdiff
2023-10-05 Mateusz WarownyJAL-1601 Create action and task for sec. str. pred... tree | commitdiff
2023-10-05 Mateusz WarownyJAL-1601 Implement JPred4 client and discoverer tree | commitdiff
2023-10-05 Mateusz WarownyJAL-1601 Update javadoc of getAlignmentAndHiddenColumns tree | commitdiff
2023-10-05 Mateusz WarownyJAL-1601 Add sec str pred provider and client interfaces tree | commitdiff
2023-09-14 Mateusz WarownyJAL-4241 Flter empty columns from annotation service... mmw/bug/JAL-4241-annotation-alignment-fix-slivka tree | commitdiff
2023-09-14 Mateusz WarownyJAL-4241 Add SequenceI.setSequence(char[]) method tree | commitdiff
2023-09-14 Mateusz WarownyJAL-4241 add SeqsetUtils.filterSequence function tree | commitdiff
2023-09-12 Mateusz WarownyJAL-4241 Fix non-standard residues replacement. tree | commitdiff
2023-07-31 Mateusz WarownyJAL-4241 Fix annotation and feature alignment with... tree | commitdiff
2023-07-28 Mateusz WarownyJAL-4241 Create sequence mapping before adjusting annot... tree | commitdiff
2023-07-26 Mateusz WarownyJAL-4245 Return null from getRootDataset if no dataset tree | commitdiff
2023-07-17 Mateusz WarownyJAL-4232 Disable menu items for RNA services for proteins. patch/JAL-4232-disable-unavailable-services tree | commitdiff
2023-07-14 Mateusz WarownyMerge branch 'feature/JAL-3954-ebi-phmmer' into mmw... mmw/JAL-4199-task-execution-update tree | commitdiff
2023-07-12 Mateusz WarownyJAL-4199 Fix cancel button not appearing on progress bar tree | commitdiff
2023-07-12 Mateusz WarownyJAL-4199 Restore deletable test when removing workers tree | commitdiff
2023-07-12 Mateusz WarownyJAL-4199 Remove viewport reference from AnnotationTask tree | commitdiff
2023-07-12 Mateusz WarownyJAL-4199 Fix slivka client to parse feature fileters tree | commitdiff
2023-07-12 Mateusz WarownyJAL-4199 remove viewport references from AlignmentTask tree | commitdiff
2023-07-12 Mateusz WarownyJAL-4199 Fix interactive jobs not being stopped tree | commitdiff
2023-07-12 Mateusz WarownyJAL-4199 Organise AlignCalcWorkerAdapter imports tree | commitdiff
2023-07-12 Mateusz WarownyJAL-4199 Implement toString in BaseTask tree | commitdiff
2023-07-12 Mateusz WarownyJAL-4199 Organise annotation task imports and fields tree | commitdiff
2023-07-12 Mateusz WarownyJAL-4199 Set initial delay of task executor to 0 tree | commitdiff
2023-07-12 Mateusz WarownyJAL-4199 Remove commented out code tree | commitdiff
2023-07-12 Mateusz WarownyJAL-4199 Perform null check for annotation sequenceRef tree | commitdiff
2023-07-12 Mateusz WarownyJAL-4199 Remove utility methods moved to other classes... tree | commitdiff
2023-07-12 Mateusz WarownyImplement getRootDatasetSequence for SequenceI tree | commitdiff
2023-07-12 Mateusz WarownyImplement getLastGraphGroup in for AnnotatedCollectionI tree | commitdiff
2023-07-12 Mateusz WarownyJAL-4199 Schedule tasks for execution from MenuManager tree | commitdiff
2023-07-12 Mateusz WarownyJAL-4199 Tidy up imports tree | commitdiff
2023-07-12 Mateusz WarownyJAL-4199 Update gui handler for annotation tasks tree | commitdiff
2023-07-12 Mateusz WarownyJAL-4199 Implement AlignCalcWorker adapter for annot... tree | commitdiff
2023-07-12 Mateusz WarownyJAL-4199 Fix method name typo tree | commitdiff
2023-07-12 Mateusz WarownyJAL-4199 Make all TaskEventListener methods default tree | commitdiff
2023-07-12 Mateusz WarownyJAL-4199 Remove taskRestarted from task events tree | commitdiff
2023-07-12 Mateusz WarownyJAL-4199 Allow multiple listeners in TaskEventSupport tree | commitdiff
2023-07-12 Mateusz WarownyJAL-4199 Change actions to be task factories tree | commitdiff
2023-07-12 Mateusz WarownyJAL-4199 Replace AbstractPollingTask with BaseTask tree | commitdiff
2023-06-22 Mateusz WarownyJAL-4199 Initialize jobs and tasks with status CREATED tree | commitdiff
2023-06-14 Mateusz WarownyJAL-4199 Test URL settings and basic service discovery tree | commitdiff
2023-06-14 Mateusz WarownyJAL-4199 Update slivka client tree | commitdiff
2023-06-02 Mateusz WarownyJAL-3954 Do not retrieve alignment for failed jobs feature/JAL-3954-ebi-phmmer tree | commitdiff
2023-06-02 Mateusz WarownyJAL-3954 Report error log when job fails tree | commitdiff
2023-06-02 Mateusz WarownyJAL-3954 Add query sequence aligned to consensus to... tree | commitdiff
2023-06-02 Mateusz WarownyJAL-3954 reuse spinner dialog to show search task status tree | commitdiff
2023-05-30 Mateusz WarownyJAL-3954 create primitive gui handler for search service tree | commitdiff
2023-05-16 Mateusz WarownyJAL-3954 Implement phmmer action and task as alignment... tree | commitdiff
2023-05-16 Mateusz WarownyJAL-3954 Log events TaskEventListener.NULL_LISTENER tree | commitdiff
2023-05-10 Mateusz WarownyJAL-3954 Create fallback for handling unknown actions tree | commitdiff
2023-05-10 Mateusz WarownyJAL-3954 Register AlignFrame as web service change... tree | commitdiff
2023-05-10 Mateusz WarownyJAL-3954 Implement job dispatcher service discoverer tree | commitdiff
2023-05-10 Mateusz WarownyJAL-3954 Implement NullAction and NullTask for testing... tree | commitdiff
2023-05-10 Mateusz WarownyJAL-3954 Fix typo in error message tree | commitdiff
2023-05-08 Mateusz WarownyJAL-3954 Implement proxy ws client for phmmer tree | commitdiff
2023-05-08 Mateusz WarownyJAL-3954 Create getters for Credentials record tree | commitdiff
2023-05-08 Mateusz WarownyJAL-3954 Add value parsers for double, int and bool... tree | commitdiff
2023-05-08 Mateusz WarownyJAL-3954 Create ParamDatastore builder for phmmer tree | commitdiff
2023-04-24 Mateusz WarownyJAL-4155 Replace unsafe casting to AlignmentPanel with... tree | commitdiff
2023-04-24 James ProcterJAL-4155 Viewport holds a reference to its AlignmentVie... tree | commitdiff
2023-03-28 Mateusz WarownyJAL-4154 Add Platform.forArch method. tree | commitdiff
2023-03-28 Mateusz WarownyMerge branch 'JAL-4152-typed-singleton-provider' into... tree | commitdiff
2023-03-28 Mateusz WarownyMerge branch 'development/Release_2_12_Branch' into... tree | commitdiff
2023-03-24 Mateusz WarownyJAL-4152 Remove redundant casts from getInstance usages. JAL-4152-typed-singleton-provider tree | commitdiff
2023-03-22 Mateusz WarownyJAL-4152 Make return type of getInstance a generic... tree | commitdiff
2023-03-15 Mateusz WarownyJAL-4146 Change occurrences of <br/> to <br> tree | commitdiff
2023-03-01 Mateusz WarownyJAL-4136 Replace uses of isBlank with isEmpty tree | commitdiff
2023-02-24 Mateusz WarownyJAL-4135 replace stream.toString(Charset) calls with... tree | commitdiff
2023-02-22 Mateusz WarownyJAL-4130 Replace Collection#forEach call with for loop tree | commitdiff
2023-02-22 Mateusz WarownyJAL-4130 Avoid using thenComparing of the Comparator... tree | commitdiff
2023-02-17 Mateusz WarownyJAL-4131 Replace usages of requireNonNullElse tree | commitdiff
2023-02-16 Mateusz WarownyJAL-4130 Workaround the j2s issue with final variables... tree | commitdiff
2023-02-06 Mateusz WarownyJAL-3878 Change Cache.log calls to Console tree | commitdiff
2023-02-06 Mateusz WarownyMerge branch 'JAL-3878_ws-overhaul-3' into mmw/Release_... tree | commitdiff
2023-01-20 Jim ProcterMerge branch 'develop' into development/Release_2_12_Br... tree | commitdiff
2023-01-20 Jim ProcterMerge branch 'patch/JAL-4114_updated_3dbeacons_api... tree | commitdiff
2023-01-20 Jim ProcterJAL-4114 model_page_url not required in v2.0 response patch/JAL-4114_updated_3dbeacons_api tree | commitdiff
2023-01-20 Jim ProcterJAL-4102 update 2.12 from 2.11.2.6 patch release -... tree | commitdiff
2023-01-20 Jim ProcterMerge branch 'patch/JAL-4114_updated_3dbeacons_api... tree | commitdiff
2023-01-20 Jim ProcterMerge branch 'patch/Release_2_11_2_6_Branch' into develop tree | commitdiff
2023-01-20 Jim ProcterJAL-2353 primary ref candidates that should be promoted... patch/Release_2_11_2_6_Branch tree | commitdiff
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