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JAL-3281 first bit of perl
2019-04-26 Jim ProcterJAL-3236 see also previous commit - tweak the install4j...
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2019-04-26 Jim ProcterMerge branch 'develop' of http://source.jalview.org...
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2019-04-26 Jim ProcterJAL-3150 examples/exampleFile.jvp for updated manual...
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2019-04-24 Jim ProcterMerge branch 'task/JAL-3225_Integration_Gradle_building_into...
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2019-04-24 Jim ProcterJAL-1929 JAL-3224 java 8 and java 11 specific getdown...
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2019-04-24 Jim ProcterJAL-1929 JAL-3224 JRE getdown URLs must be relative...
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2019-04-23 Jim ProcterJAL-3130 add JAVA_VERSION to shadowJar classifier so...
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2019-04-23 Jim ProcterJAL-3130 make sure only libDistDir/*.jar are added...
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2019-04-23 Jim ProcterMerge branch 'develop' into bug/JAL-3224_getdown_changed_to_...
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2019-04-23 Jim ProcterJAL-1929 JAL-3224 getdown artefacts staged as getdown...
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2019-04-23 Jim ProcterJAL-1929 JAL-3224 getdown channel structure is {build...
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2019-04-22 Jim ProcterJAL-3224 JAL-3196 still trying to specify projectFile...
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2019-04-22 Jim ProcterJAL-3224 JAL-3196 still trying to specify projectFile...
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2019-04-22 Jim ProcterJAL-3224 JAL-3196 specify file object in projectFile...
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2019-04-22 Jim ProcterJAL-3130 JAL-3224 patch URL paths to point to www.jalview...
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2019-04-22 Jim ProcterJAL-3130 provide absolute module path as J11 compile...
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2019-04-22 Jim ProcterMerge branch 'jims/JAL-3130_Java11_Gradle_publishing...
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2019-04-17 Jim ProcterJAL-3111 fix 2.11 html anchor in docs
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2019-04-17 Jim ProcterMerge branch 'documentation/JAL-3111_release_211' into...
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2019-04-17 Jim ProcterJAL-3111 Jalview 2.11 what’s New and estimated release...
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2019-04-17 Jim ProcterJAL-3111 tweak PCA documentation
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2019-04-17 Jim ProcterMerge branch 'develop' into documentation/JAL-3111_release_211
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2019-04-16 Jim ProcterJAL-3130 tidy up system.output
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2019-04-16 Jim ProcterJAL-3130 call Jalview via the Test JVM’s JAVA_HOME...
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2019-04-16 Jim ProcterJAL-3130 refactored ‘clover’ to ‘use_clover’ since...
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2019-04-16 Jim ProcterJAL-3130 JAL-1889 reportCurrentWorkingDirectory test...
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2019-04-16 Jim ProcterJAL-3130 JAL-1889 report absolute paths for CommandLineTests
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2019-04-16 Jim ProcterJAL-3130 JAL-1889 report absolute paths for CommandLineTests
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2019-04-16 Jim ProcterJAL-3130 JAL-1889 report absolute paths for CommandLineTests
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2019-04-16 Jim ProcterJAL-3196 change default are resource properties to...
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2019-04-16 Jim ProcterReinstate imports from "JAL-1889 JAL-3130 patch broken...
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2019-04-16 Jim ProcterJAL-1189 JAL-3130 patch broken tests
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2019-04-14 Jim ProcterJAL-3130 write clover.xml during cloverReport phase
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2019-04-14 Jim ProcterJAL-3130 make sure testng-results.xml is generated
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2019-04-12 Jim ProcterJAL-3130 specify module list when launching new Jalview...
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2019-04-12 Jim ProcterJAL-3130 instrument main and compile separately to...
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2019-04-12 Jim ProcterJAL-3130 gradle test now runs open clover 4.3.1 and...
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2019-04-11 Jim ProcterMerge branch 'develop' into task/JAL-3130_Java_11_investigat...
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2019-04-11 Jim ProcterJAL-3130 ensure J11 libs/modules are added when building...
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2019-04-11 Jim ProcterJAL-3130 clean up eclipse class path for dependencies...
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2019-03-29 Jim ProcterJAL-3111 Disable the pubapplet target in build.xml...
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2019-03-28 Jim ProcterMerge branch 'develop' of http://source.jalview.org...
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2019-03-28 Jim ProcterJAL-3111 biojava dependencies
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2019-03-28 Jim ProcterJAL-3111 fix libquagua dependency paths - needs to...
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2019-03-28 Jim ProcterJAL-3111 fix jabaws dependency name in IA config
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2019-03-28 Jim ProcterJAL-3111 intervalstore library on IA classpath
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2019-03-28 Jim ProcterJAL-3111 typo in IA config
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2019-03-28 Jim ProcterJAL-3111 update InstallAnywhere dependencies for changed...
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2019-03-07 Jim ProcterJAL-3127 set ‘updateStructures’ flag for viewports...
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2019-03-04 Jim ProcterMerge branch 'develop' into documentation/JAL-3111_release_211
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2019-03-04 Jim Procterrelease notes for JAL-1767 JAL-2647 JAL-3198 JAL-3200...
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2019-02-28 Jim ProcterMerge branch 'develop' of http://source.jalview.org...
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2019-02-28 Jim ProcterMerge branch 'feature/JAL-3141_backupfiles_for211'...
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2019-01-18 Jim ProcterMerge branch 'feature/JAL-3063jaxbNoCastor' into feature...
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2019-01-18 Jim ProcterMerge branch 'develop' into feature/JAL-3063jaxbNoCastor
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2019-01-17 Jim ProcterJAL-3116 clear out whitespace when materialising Sequence...
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2019-01-16 Jim ProcterMerge branch 'feature/JAL-3063jaxbNoCastor' into develop
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2019-01-16 Jim ProcterMerge branch 'features/pca_jaxb_datasetrefs_JAL-3171_JAL...
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2019-01-15 Jim ProcterJAL-1767 test that changing view association for PCA...
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2019-01-15 Jim ProcterJAL-1767 refactor associated view logic to public method...
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2019-01-15 Jim ProcterJAL-1767 patch buggy PCA view association test
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2019-01-09 Jim ProcterJAL-1767 failing test to check if the PCA view association...
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2019-01-09 Jim ProcterMerge branch 'feature/JAL-3063JAXB' into features/pca_jaxb_d...
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2019-01-09 Jim ProcterMerge branch 'feature/JAL-3063JAXB' into feature/JAL...
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2019-01-09 Jim ProcterJAL-3063 remove stale JAXB binding POJO
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2019-01-09 Jim ProcterMerge branch 'feature/JAL-3063JAXB' into features/pca_jaxb_d...
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2019-01-09 Jim ProcterMerge branch 'feature/JAL-3063JAXB' into feature/JAL...
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2019-01-09 Jim ProcterJAL-3063 - ant task for regenerating JAXB schema -...
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2018-12-20 Jim ProcterJAL-1767 port save/load PCA panel to JAXB - JAL-3063
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2018-12-20 Jim ProcterJAL-3171 JAL-3063 merge updates from JAL-1767
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2018-12-19 Jim ProcterMerge branch 'features/JAL-1767pcaInProject' into bug...
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2018-12-18 Jim ProcterJAL-2846 ahem - proper release note for this fix from...
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2018-12-18 Jim ProcterJAL-3178 known defect in release notes
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2018-12-17 Jim ProcterJAL-3111 JAL-2846 release notes
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2018-12-17 Jim ProcterMerge branch 'bug/JAL-2846' into develop
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2018-12-17 Jim ProcterJAL-3111 tweaked release notes and documented JAL-2864
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2018-12-17 Jim ProcterMerge branch 'bug/JAL-2864nullOverviewCanvas' into...
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2018-12-17 Jim ProcterJAL-2865 release notes
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2018-12-17 Jim ProcterMerge branch 'bug/JAL-2750' into develop
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2018-12-17 Jim ProcterMerge branch 'task/JAL-3174_fixed_filename_tests' into...
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2018-12-17 Jim ProcterJAL-3174 backout un-needed stacktrace for exception...
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2018-12-17 Jim ProcterMerge branch 'bug/JAL-2541cutRelocateFeatures' into...
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2018-12-17 Jim ProcterJAL-2541 JAL-2822 release notes
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2018-12-17 Jim ProcterJAL-3111 bump release 2.11 release to January 2019
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2018-12-17 Jim ProcterMerge branch 'develop' into bug/JAL-2541cutRelocateFeatures
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2018-12-14 Jim ProcterJAL-3171 dataset reference tests now in Functional...
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2018-12-14 Jim ProcterJAL-3171 record mapping between unmarshalled sequence...
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2018-12-14 Jim ProcterJAL-3171 raise warning when a dataset reference exists...
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2018-12-14 Jim ProcterJAL-3171 more complex project test - where sequences...
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2018-12-14 Jim ProcterJAL-3171 resolve dataset for imported projects via...
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2018-12-14 Jim ProcterJAL-3171 failing test for legacy projects and fixing...
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2018-12-14 Jim ProcterJAL-3171 register existing dataset for new view
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2018-12-14 Jim ProcterJAL-3171 failing test checking preservation of dataset
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2018-11-20 Jim ProcterJAL-3127 Sequence ID Colour and nominal spanish translation
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2018-11-19 Jim ProcterJAL-3127 javadoc, don’t darken white when shading residues...
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2018-11-19 Jim ProcterJAL-3156 JAL-3127 code tidy
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2018-11-19 Jim ProcterJAL-3156 javadoc re JAL-3127 and FIXME to make AlignmentI...
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2018-11-19 Jim ProcterJAL-3127 drop redundant hidden representative sequences...
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2018-11-19 Jim ProcterJAL-3127 JAL-2773 don’t need to call paintAlignment...
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2018-11-19 Jim ProcterJAL-3127 tidier tree group colour -> view propagation
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