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2021-07-25	Jim Procter	JAL-3854 patched SeqSeqUtils.deUniquify to not use...	commit \| commitdiff \| tree
2021-07-25	Jim Procter	JAL-2994 disable tests for FileUtils path search methods...	commit \| commitdiff \| tree
2021-07-25	Jim Procter	JAL-3848 slivka preferences in javascript	commit \| commitdiff \| tree
2021-07-25	Jim Procter	JAL-3848 reinstate Fetch DB References submenu	commit \| commitdiff \| tree
2021-07-25	Jim Procter	JAL-3848 update jalview core with slivka classes, example...	commit \| commitdiff \| tree
2021-07-25	Jim Procter	JAL-3848 add compbio and jalview to direct connection...	commit \| commitdiff \| tree
2021-07-25	Jim Procter	JAL-3853 - tweak test again - since failed a few commits...	commit \| commitdiff \| tree
2021-07-25	Jim Procter	JAL-3848 update swingJS runtime and transpiler to 3.3.1	commit \| commitdiff \| tree
2021-07-25	Jim Procter	Merge branch 'improvement/JAL-3848_slivka_0.8' of https...	commit \| commitdiff \| tree
2021-07-22	Jim Procter	JAL-3671 hardwire log4j.root logger to INFO to supress...	commit \| commitdiff \| tree
2021-07-22	Jim Procter	JAL-3848 enable slivka services dialog in JalviewJS	commit \| commitdiff \| tree
2021-07-22	Jim Procter	JAL-3853 JAL-1870 toggle to enable/disable posterior...	commit \| commitdiff \| tree
2021-07-22	Jim Procter	JAL-3853 JAL-1870 patch tests for annotation colour...	commit \| commitdiff \| tree
2021-07-22	Jim Procter	JAL-1950 patch groovy bootstrap for importing hmmer3...	commit \| commitdiff \| tree
2021-07-22	Jim Procter	JAL-3853 patch sequence annotation report code and...	commit \| commitdiff \| tree
2021-07-22	Jim Procter	JAL-3848 ensure annotation from a service gets a calcId...	commit \| commitdiff \| tree
2021-07-22	Jim Procter	JAL-3848 don’t include sequence limits in sequence...	commit \| commitdiff \| tree
2021-07-22	Jim Procter	JAL-3848 - actually test the Slivka and JABAWS disorder...	commit \| commitdiff \| tree
2020-12-18	Jim Procter	JAL-3690 recoded AWSThread to use javax.swing.Timer...	commit \| commitdiff \| tree
2020-12-17	Jim Procter	JAL-3690 patch out use of java.streams/spliterator...	commit \| commitdiff \| tree
2020-12-15	Jim Procter	JAL-3690 tweak J2S direct DB access registration for...	commit \| commitdiff \| tree
2020-12-15	Jim Procter	JAL-3690 direct access to slivka, compbio, jalview...	commit \| commitdiff \| tree
2020-12-15	Jim Procter	JAL-3690 patch out need for java.time in j2s (see https...	commit \| commitdiff \| tree
2020-12-15	Jim Procter	JAL-3690 patch out spinning animation for web service...	commit \| commitdiff \| tree
2020-12-15	Jim Procter	JAL-3690 disable proxy server for JalviewJS	commit \| commitdiff \| tree
2020-12-14	Jim Procter	Merge branch 'Jalview-JS/develop' into merge_js_develop	commit \| commitdiff \| tree
2020-12-14	Jim Procter	Merge branch 'Jalview-JS/develop_j2s_v3_2_9_j11' into...	commit \| commitdiff \| tree
2020-12-10	Jim Procter	JAL-3223 - update swingjs to 3.2.9-j11	commit \| commitdiff \| tree
2020-06-29	Jim Procter	JAL-3493 fix patch for 2.11.1_js (nb - these changes...	commit \| commitdiff \| tree
2020-06-29	Jim Procter	JAL-3675 2.11.1.1 release notes	commit \| commitdiff \| tree
2020-06-29	Jim Procter	JAL-3493 clear search highlights when escape/deselect all	commit \| commitdiff \| tree
2020-06-29	Jim Procter	JAL-3493 failing test - creates a highlight and column...	commit \| commitdiff \| tree
2020-06-17	Jim Procter	JAL-3662 JAL-3660 JAL-3561 source formatting	commit \| commitdiff \| tree
2020-06-17	Jim Procter	Merge branch 'cherrypicks/JAL-3660_JAL-3561_JAL-3662_cli_out...	commit \| commitdiff \| tree
2020-06-17	Jim Procter	JAL-3660 JAL-3561 output alignment as requested file...	commit \| commitdiff \| tree
2020-06-17	Jim Procter	JAL-3561 JAL-3660 check resolved FileFormatI instances...	commit \| commitdiff \| tree
2020-06-17	Jim Procter	JAL-3561 failing test verifying expected fileformat...	commit \| commitdiff \| tree
2020-05-25	Jim Procter	JAL-3626 rescue automatic configuration of JALVIEW_VERSION...	commit \| commitdiff \| tree
2020-05-18	Jim Procter	Merge branch 'alpha/JAL-3362_Jalview_212_alpha' into...	commit \| commitdiff \| tree
2020-04-23	Jim Procter	Merge branch 'develop' into alpha/JAL-3362_Jalview_212_alpha	commit \| commitdiff \| tree
2020-04-23	Jim Procter	Merge branch 'alpha/JAL-3066_Jalview_212_slivka-integration...	commit \| commitdiff \| tree
2020-04-21	Jim Procter	Merge branch 'documentation/JAL-3407_2.11.1_release...	commit \| commitdiff \| tree
2020-04-21	Jim Procter	JAL-3407 add GPL license to Jalview source files	commit \| commitdiff \| tree
2020-04-21	Jim Procter	JAL-3407 release notes - JAL-247 - for auto-set-ID...	commit \| commitdiff \| tree
2020-04-21	Jim Procter	Merge branch 'documentation/JAL-3407_2.11.1_release...	commit \| commitdiff \| tree
2020-04-21	Jim Procter	JAL-3407 fix JAL-3574 - remove from known issues for...	commit \| commitdiff \| tree
2020-04-21	Jim Procter	Merge branch 'documentation/JAL-3407_2.11.1_release...	commit \| commitdiff \| tree
2020-04-21	Jim Procter	JAL-3574 JAL-3407 release notes	commit \| commitdiff \| tree
2020-04-21	Jim Procter	Merge branch 'bug/JAL-3574filterByPOS' into documentation...	commit \| commitdiff \| tree
2020-04-21	Jim Procter	Merge branch 'documentation/JAL-3407_2.11.1_release...	commit \| commitdiff \| tree
2020-04-21	Jim Procter	JAL-3407 add and document ComputePeptideVariants.groovy	commit \| commitdiff \| tree
2020-04-21	Jim Procter	Merge branch 'develop' of http://source.jalview.org...	commit \| commitdiff \| tree
2020-04-21	Jim Procter	JAL-3567 JAL-3407 document sequence features report...	commit \| commitdiff \| tree
2020-04-21	Jim Procter	Merge branch 'bug/JAL-3567virtualFeatureCoordinates...	commit \| commitdiff \| tree
2020-04-21	Jim Procter	JAL-367 code tidy	commit \| commitdiff \| tree
2020-04-21	Jim Procter	JAL-3567 translated rather than imputed peptide	commit \| commitdiff \| tree
2020-04-14	Jim Procter	JAL-3407 JAL-3529 release notes	commit \| commitdiff \| tree
2020-04-14	Jim Procter	Merge branch 'bug/JAL-3529_uniprotidsinstockholm' into...	commit \| commitdiff \| tree
2020-04-14	Jim Procter	JAL-3529 revert ordering of DBRef addition so it reflects...	commit \| commitdiff \| tree
2020-04-14	Jim Procter	JAL-3597 improved Memory test suite by detecting base...	commit \| commitdiff \| tree
2020-04-14	Jim Procter	JAL-3407 release date set to 16th April, known issue...	commit \| commitdiff \| tree
2020-04-14	Jim Procter	Merge branch 'testing/JAL-3577_jalviewversion_autoset_fixed...	commit \| commitdiff \| tree
2020-04-09	Jim Procter	JAL-3577 automatically configure JALVIEW_VERSION for...	commit \| commitdiff \| tree
2020-04-06	Jim Procter	JAL-3407 redact java 8 incompatible type inference	commit \| commitdiff \| tree
2020-04-06	Jim Procter	JAL-3407 updated release date to Thursday 9th April...	commit \| commitdiff \| tree
2020-03-31	Jim Procter	Merge branch 'documentation/Release_2_11_1_Branch'...	commit \| commitdiff \| tree
2020-03-31	Jim Procter	JAL-3407 basic doc for releasing jalview - will be...	commit \| commitdiff \| tree
2020-03-31	Jim Procter	JAL-3407 updated release date to 2nd April, and first...	commit \| commitdiff \| tree
2020-03-31	Jim Procter	Merge branch 'documentation/Release_2_11_1_Branch'...	commit \| commitdiff \| tree
2020-03-30	Jim Procter	JAL-3407 2.11.1.0 release date bump - maybe tomorrow...	commit \| commitdiff \| tree
2020-03-30	Jim Procter	JAL-3407 JAL-3130 back out java 9+ syntax that breaks...	commit \| commitdiff \| tree
2020-03-20	Jim Procter	JAL-3562 exclude testNG groups from a build via -PtestngExcl...	commit \| commitdiff \| tree
2020-03-20	Jim Procter	JAL-3407 JAL-3562 release notes	commit \| commitdiff \| tree
2020-03-20	Jim Procter	JAL-3407 rejigging new features - simplify release...	commit \| commitdiff \| tree
2020-03-20	Jim Procter	JAL-3407 reformat releases.html	commit \| commitdiff \| tree
2020-03-20	Jim Procter	JAL-3407 JAL-3549 javadoc	commit \| commitdiff \| tree
2020-03-20	Jim Procter	JAL-3407 - release notes for JAL-3547	commit \| commitdiff \| tree
2020-03-20	Jim Procter	JAL-3549 javadoc	commit \| commitdiff \| tree
2020-03-16	Jim Procter	JAL-3407 JAL-3187 help documentation for virtual features...	commit \| commitdiff \| tree
2020-03-16	Jim Procter	JAL-3407 JAL-3549 explicitly mention the ‘no features...	commit \| commitdiff \| tree
2020-03-16	Jim Procter	JAL-3407 group together ‘virtual feature’ related features...	commit \| commitdiff \| tree
2020-03-16	Jim Procter	Merge branch 'develop' of http://source.jalview.org...	commit \| commitdiff \| tree
2020-03-05	Jim Procter	Merge branch 'improvement/JAL-3543_dont_report_null_versions...	commit \| commitdiff \| tree
2020-03-03	Jim Procter	Merge branch 'groovy/JAL-3547_conservationsequenceexport...	commit \| commitdiff \| tree
2020-03-03	Jim Procter	JAL-3547 groovy script to get the conservation sequence...	commit \| commitdiff \| tree
2020-03-02	Jim Procter	JAL-3407 redact Java 8 incompatible '<>' with anonymous...	commit \| commitdiff \| tree
2020-02-27	Jim Procter	Merge branch 'bug/JAL-3412idWidthDiscrepancy' into...	commit \| commitdiff \| tree
2020-02-27	Jim Procter	JAL-3407 release notes for JAL-3412	commit \| commitdiff \| tree
2020-02-27	Jim Procter	JAL-3412 patch for failing test	commit \| commitdiff \| tree
2020-02-27	Jim Procter	Merge branch 'bug/JAL-3412idWidthDiscrepancy' into...	commit \| commitdiff \| tree
2020-02-27	Jim Procter	JAL-3407 JAL-3296 release notes	commit \| commitdiff \| tree
2020-02-27	Jim Procter	Merge branch 'bug/JAL-3296changeStartInvalidateCursor...	commit \| commitdiff \| tree
2020-02-26	Jim Procter	JAL-3477 jalview.jvmmemmax / jvmmemmax maximum value...	commit \| commitdiff \| tree
2020-02-26	Jim Procter	Merge branch 'bug/JAL-3477_memory_max_allocation' into...	commit \| commitdiff \| tree
2020-02-26	Jim Procter	JAL-3407 release notes for JAL-3449 JAL-3393 JAL-3420...	commit \| commitdiff \| tree
2020-02-26	Jim Procter	Merge branch 'improvement/JAL-3449_add_install4j_installer_g...	commit \| commitdiff \| tree
2020-02-26	Jim Procter	JAL-3541 docs for enabling OpenClover coverage reports...	commit \| commitdiff \| tree
2020-02-26	Jim Procter	JAL-3541 removed clover report generation debug flag...	commit \| commitdiff \| tree
2020-02-26	Jim Procter	JAL-3541 configurables for clover report generation...	commit \| commitdiff \| tree
2020-02-25	Jim Procter	JAL-3541 track own jalview.gui.Desktop clover source...	commit \| commitdiff \| tree
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