git://source.jalview.org / jalview.git / commit
? search:
summary | shortlog | log | commit | commitdiff | tree
(parent: 14708cb) | patch
JAL-3253 preliminary static fixes for JavaScript
authorhansonr <hansonr@STO24954W.ad.stolaf.edu>
Wed, 8 May 2019 11:29:37 +0000 (06:29 -0500)
committerhansonr <hansonr@STO24954W.ad.stolaf.edu>
Wed, 8 May 2019 11:29:37 +0000 (06:29 -0500)
commit87256ba36fb105a1115067ffe2563412e9281d2d
tree594d58f6ea9aa03b36474b7c134cfa39b9fe194btree | snapshot
parent14708cbd0067706a7ca3f4ad06172d4c2e3cc866commit | diff
JAL-3253 preliminary static fixes for JavaScript

Desktop.instance and Desktop.getInstance()
Jalview.instance and Jalview.getInstance()
AlignmentSorter.instance and AlignmentSorter.getInstance()

ArgsParser static final options

*SoapBindingStub static final _operations

Clean up of headless business
Clean up of ArgsParser options
85 files changed:
doc/parameters.xlsx [new file with mode: 0644] blob
src/ext/vamsas/JpredSoapBindingStub.java [changed mode: 0755->0644] diff | blob | history
src/ext/vamsas/MuscleWSSoapBindingStub.java diff | blob | history
src/ext/vamsas/RegistryServiceSoapBindingStub.java diff | blob | history
src/ext/vamsas/SeqSearchServiceSoapBindingStub.java diff | blob | history
src/ext/vamsas/ServiceHandle.java diff | blob | history
src/jalview/analysis/AlignmentSorter.java diff | blob | history
src/jalview/analysis/GeneticCodes.java diff | blob | history
src/jalview/analysis/scoremodels/ScoreMatrix.java diff | blob | history
src/jalview/analysis/scoremodels/ScoreModels.java diff | blob | history
src/jalview/bin/ArgsParser.java diff | blob | history
src/jalview/bin/Cache.java diff | blob | history
src/jalview/bin/Jalview.java diff | blob | history
src/jalview/gui/AlignExportOptions.java diff | blob | history
src/jalview/gui/AlignFrame.java diff | blob | history
src/jalview/gui/AlignViewport.java diff | blob | history
src/jalview/gui/AlignmentPanel.java diff | blob | history
src/jalview/gui/AnnotationColourChooser.java diff | blob | history
src/jalview/gui/AnnotationLabels.java diff | blob | history
src/jalview/gui/AppJmol.java diff | blob | history
src/jalview/gui/AssociatePdbFileWithSeq.java diff | blob | history
src/jalview/gui/CalculationChooser.java diff | blob | history
src/jalview/gui/ChimeraViewFrame.java diff | blob | history
src/jalview/gui/ColourMenuHelper.java diff | blob | history
src/jalview/gui/CrossRefAction.java diff | blob | history
src/jalview/gui/CutAndPasteTransfer.java diff | blob | history
src/jalview/gui/Desktop.java diff | blob | history
src/jalview/gui/FeatureEditor.java diff | blob | history
src/jalview/gui/Finder.java diff | blob | history
src/jalview/gui/IdPanel.java diff | blob | history
src/jalview/gui/JalviewDialog.java diff | blob | history
src/jalview/gui/LineartOptions.java diff | blob | history
src/jalview/gui/OOMWarning.java diff | blob | history
src/jalview/gui/PopupMenu.java diff | blob | history
src/jalview/gui/Preferences.java diff | blob | history
src/jalview/gui/PromptUserConfig.java diff | blob | history
src/jalview/gui/SequenceFetcher.java diff | blob | history
src/jalview/gui/SplashScreen.java diff | blob | history
src/jalview/gui/SplitFrame.java diff | blob | history
src/jalview/gui/StructureChooser.java diff | blob | history
src/jalview/gui/StructureViewerBase.java diff | blob | history
src/jalview/gui/UserDefinedColours.java diff | blob | history
src/jalview/gui/UserQuestionnaireCheck.java diff | blob | history
src/jalview/gui/VamsasApplication.java diff | blob | history
src/jalview/gui/WebserviceInfo.java diff | blob | history
src/jalview/gui/WsJobParameters.java diff | blob | history
src/jalview/gui/WsParamSetManager.java diff | blob | history
src/jalview/gui/WsPreferences.java diff | blob | history
src/jalview/io/BackupFiles.java diff | blob | history
src/jalview/io/FileLoader.java diff | blob | history
src/jalview/io/HTMLOutput.java diff | blob | history
src/jalview/io/HtmlSvgOutput.java diff | blob | history
src/jalview/io/VamsasAppDatastore.java diff | blob | history
src/jalview/io/WSWUBlastClient.java diff | blob | history
src/jalview/io/vamsas/Sequencemapping.java diff | blob | history
src/jalview/jbgui/GAlignFrame.java diff | blob | history
src/jalview/jbgui/GDesktop.java diff | blob | history
src/jalview/jbgui/GPreferences.java diff | blob | history
src/jalview/jbgui/GSequenceLink.java diff | blob | history
src/jalview/project/Jalview2XML.java diff | blob | history
src/jalview/schemes/ResidueProperties.java diff | blob | history
src/jalview/util/Platform.java diff | blob | history
src/jalview/ws/jws1/Discoverer.java diff | blob | history
src/jalview/ws/jws1/JPredClient.java diff | blob | history
src/jalview/ws/jws1/MsaWSClient.java diff | blob | history
src/jalview/ws/jws1/SeqSearchWSClient.java diff | blob | history
src/jalview/ws/jws2/MsaWSClient.java diff | blob | history
src/jalview/ws/jws2/SequenceAnnotationWSClient.java diff | blob | history
src/jalview/ws/jws2/jabaws2/Jws2Instance.java diff | blob | history
src/jalview/ws/rest/RestClient.java diff | blob | history
test/jalview/analysis/DnaTest.java diff | blob | history
test/jalview/ext/jmol/JmolViewerTest.java diff | blob | history
test/jalview/ext/rbvi/chimera/JalviewChimeraView.java diff | blob | history
test/jalview/gui/AlignFrameTest.java diff | blob | history
test/jalview/gui/AlignViewportTest.java diff | blob | history
test/jalview/gui/FreeUpMemoryTest.java diff | blob | history
test/jalview/gui/SeqPanelTest.java diff | blob | history
test/jalview/io/AnnotatedPDBFileInputTest.java diff | blob | history
test/jalview/io/CrossRef2xmlTests.java diff | blob | history
test/jalview/io/FeaturesFileTest.java diff | blob | history
test/jalview/io/Jalview2xmlBase.java diff | blob | history
test/jalview/io/JalviewExportPropertiesTests.java diff | blob | history
test/jalview/project/Jalview2xmlTests.java diff | blob | history
test/jalview/schemes/ColourSchemesTest.java diff | blob | history
test/jalview/structure/StructureSelectionManagerTest.java diff | blob | history