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