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Merge branch 'bug/JAL-4313-make-visible-annot-fix' into JAL-1601-direct-jpred4-rest...
2023-11-01 Mateusz WarownyMerge branch 'bug/JAL-4313-make-visible-annot-fix'...
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2023-11-01 Mateusz WarownyJAL-4313 Clamp start and end ranges to array size
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2023-10-31 Mateusz WarownyJAL-4313 Test and patch annots trimming
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2023-10-30 Mateusz WarownyMerge branch 'bug/JAL-4313-make-visible-annot-fix'...
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2023-10-30 Mateusz WarownyJAL-4313 Change default trim end to (length - 1)
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2023-10-30 Mateusz WarownyJAL-4313 Test makeVisibleAnnotations
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2023-10-30 Mateusz WarownyJAL-4313 Create Annotation tests
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2023-10-30 Mateusz WarownyJAL-4313 Patch AnnotationsMatcher to match nulls
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2023-10-30 Mateusz WarownyJAL-4313 Create utilities to test annotations
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2023-10-19 Mateusz WarownyJAL-1601 Implement sec str pred for single sequences
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2023-10-18 Mateusz WarownyJAL-1601 Reuse existing "getNonEmptySequenceSet" method
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2023-10-18 Mateusz WarownyJAL-1601 Rename task class to SecStructPredMsaTask
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2023-10-18 Mateusz WarownyJAL-1601 Move job class as inner task class
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2023-10-17 Mateusz WarownyJAL-1601 Create alignment copying method in AlignmentUtils
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2023-10-17 Mateusz WarownyJAL-1601 Test alignment submitted to service
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2023-10-16 Mateusz WarownyJAL-1601 Propagate hidden columns to the output alignment
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2023-10-16 Mateusz WarownyJAL-1601 Propagate representative sequence to the final...
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2023-10-13 Mateusz WarownyJAL-1601 Set job status to server error if collecting...
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2023-10-13 Mateusz WarownyJAL-1601 Create SecStructPredTask class
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2023-10-13 Mateusz WarownyJAL-1601 Load and display JPred4 service in AlignFrame
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2023-10-13 Mateusz WarownyJAL-1601 Implement JPred4 WS client and discoverer
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2023-10-05 Mateusz WarownyJAL-1601 Create action and task for sec. str. pred...
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2023-10-05 Mateusz WarownyJAL-1601 Implement JPred4 client and discoverer
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2023-10-05 Mateusz WarownyJAL-1601 Update javadoc of getAlignmentAndHiddenColumns
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2023-10-05 Mateusz WarownyJAL-1601 Add sec str pred provider and client interfaces
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2023-09-25 Mateusz WarownyJAL-1601 Test getVisibleCongigMapFor
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2023-09-14 Mateusz WarownyMerge branch 'mmw/bug/JAL-4241-annotation-alignment...
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2023-09-14 Mateusz WarownyJAL-4241 Flter empty columns from annotation service...
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2023-09-14 Mateusz WarownyJAL-4241 Add SequenceI.setSequence(char[]) method
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2023-09-14 Mateusz WarownyJAL-4241 add SeqsetUtils.filterSequence function
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2023-09-12 Mateusz WarownyJAL-4241 Fix non-standard residues replacement.
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2023-09-11 Mateusz WarownyMerge branch 'mmw/bug/JAL-4241-annotation-alignment...
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2023-09-11 Mateusz WarownyMerge branch 'mmw/JAL-4199-web-services-testing' into...
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2023-09-11 Mateusz WarownyMerge branch 'improvement/JAL-4245-return-null-from...
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2023-09-08 Mateusz WarownyMerge branch 'mmw/JAL-4199-web-services-testing' into...
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2023-09-08 Mateusz WarownyJAL-4199 Set all setup methods to alwaysRun
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2023-09-08 Mateusz WarownyJAL-4199 Add tests to the "Functional" group
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2023-08-04 Mateusz WarownyJAL-4241 Test sequences prepared for annotation job
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2023-07-31 Mateusz WarownyJAL-4241 Fix annotation and feature alignment with...
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2023-07-28 Mateusz WarownyJAL-4241 Create sequence mapping before adjusting annotations
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2023-07-26 Mateusz WarownyJAL-4245 Test getRootDataset method
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2023-07-26 Mateusz WarownyJAL-4245 Return null from getRootDataset if no dataset
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2023-07-19 Mateusz WarownyJAL-4199 Add tests to the "Functional" group
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2023-07-18 Mateusz WarownyMerge branch 'patch/JAL-4232-disable-unavailable-services...
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2023-07-18 Mateusz WarownyMerge branch 'mmw/JAL-4199-task-execution-update' into...
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2023-07-18 Mateusz WarownyMerge branch 'mmw/JAL-4199-web-services-testing' into...
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2023-07-17 Mateusz WarownyJAL-4232 Disable menu items for RNA services for proteins.
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2023-07-14 Mateusz WarownyMerge branch 'feature/JAL-3954-ebi-phmmer' into mmw...
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2023-07-12 Mateusz WarownyJAL-4199 Fix cancel button not appearing on progress bar
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2023-07-12 Mateusz WarownyJAL-4199 Restore deletable test when removing workers
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2023-07-12 Mateusz WarownyJAL-4199 Remove viewport reference from AnnotationTask
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2023-07-12 Mateusz WarownyJAL-4199 Fix slivka client to parse feature fileters
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2023-07-12 Mateusz WarownyJAL-4199 remove viewport references from AlignmentTask
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2023-07-12 Mateusz WarownyJAL-4199 Fix interactive jobs not being stopped
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2023-07-12 Mateusz WarownyJAL-4199 Organise AlignCalcWorkerAdapter imports
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2023-07-12 Mateusz WarownyJAL-4199 Implement toString in BaseTask
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2023-07-12 Mateusz WarownyJAL-4199 Organise annotation task imports and fields
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2023-07-12 Mateusz WarownyJAL-4199 Set initial delay of task executor to 0
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2023-07-12 Mateusz WarownyJAL-4199 Remove commented out code
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2023-07-12 Mateusz WarownyJAL-4199 Perform null check for annotation sequenceRef
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2023-07-12 Mateusz WarownyJAL-4199 Patch task execution in action tests
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2023-07-12 Mateusz WarownyJAL-4199 Remove utility methods moved to other classes...
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2023-07-12 Mateusz WarownyImplement getRootDatasetSequence for SequenceI
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2023-07-12 Mateusz WarownyImplement getLastGraphGroup in for AnnotatedCollectionI
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2023-07-12 Mateusz WarownyJAL-4199 Schedule tasks for execution from MenuManager
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2023-07-12 Mateusz WarownyJAL-4199 Tidy up imports
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2023-07-12 Mateusz WarownyJAL-4199 Update gui handler for annotation tasks
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2023-07-12 Mateusz WarownyJAL-4199 Implement AlignCalcWorker adapter for annot...
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2023-07-12 Mateusz WarownyJAL-4199 Fix method name typo
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2023-07-12 Mateusz WarownyJAL-4199 Make all TaskEventListener methods default
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2023-07-12 Mateusz WarownyJAL-4199 Remove taskRestarted from task events
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2023-07-12 Mateusz WarownyJAL-4199 Allow multiple listeners in TaskEventSupport
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2023-07-12 Mateusz WarownyJAL-4199 Change actions to be task factories
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2023-07-12 Mateusz WarownyJAL-4199 Replace AbstractPollingTask with BaseTask
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2023-06-22 Mateusz WarownyJAL-4199 Introduce AlignmentAction tests
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2023-06-22 Mateusz WarownyJAL-4199 Initialize jobs and tasks with status CREATED
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2023-06-19 Mateusz WarownyJAL-4199 Test basic service parameter construction
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2023-06-14 Mateusz WarownyJAL-4199 Test URL settings and basic service discovery
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2023-06-14 Mateusz WarownyJAL-4199 Update slivka client
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2023-06-02 Mateusz WarownyJAL-3954 Do not retrieve alignment for failed jobs
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2023-06-02 Mateusz WarownyJAL-3954 Report error log when job fails
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2023-06-02 Mateusz WarownyJAL-3954 Add query sequence aligned to consensus to...
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2023-06-02 Mateusz WarownyJAL-3954 reuse spinner dialog to show search task status
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2023-05-30 Mateusz WarownyJAL-3954 create primitive gui handler for search service
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2023-05-16 Mateusz WarownyJAL-3954 Implement phmmer action and task as alignment...
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2023-05-16 Mateusz WarownyJAL-3954 Log events TaskEventListener.NULL_LISTENER
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2023-05-10 Mateusz WarownyJAL-3954 Create fallback for handling unknown actions
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2023-05-10 Mateusz WarownyJAL-3954 Register AlignFrame as web service change...
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2023-05-10 Mateusz WarownyJAL-3954 Implement job dispatcher service discoverer
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2023-05-10 Mateusz WarownyJAL-3954 Implement NullAction and NullTask for testing...
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2023-05-10 Mateusz WarownyJAL-3954 Fix typo in error message
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2023-05-08 Mateusz WarownyJAL-3954 Update hmmer client lib, testEndpoint added
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2023-05-08 Mateusz WarownyJAL-3954 Implement proxy ws client for phmmer
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2023-05-08 Mateusz WarownyJAL-3954 Add client libraries for phmmer and j2s http
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2023-05-08 Mateusz WarownyJAL-3954 Create getters for Credentials record
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2023-05-08 Mateusz WarownyJAL-3954 Add value parsers for double, int and bool...
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2023-05-08 Mateusz WarownyJAL-3954 Create ParamDatastore builder for phmmer
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2023-04-24 Mateusz WarownyJAL-4155 Replace unsafe casting to AlignmentPanel with...
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2023-04-24 James ProcterJAL-4155 Viewport holds a reference to its AlignmentViewPane...
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2023-03-28 Mateusz WarownyJAL-4154 Remove not-bamboo flag from testGetVisibleWidth
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