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Merge branch 'develop' into improvement/JAL-3594_BG_and_UoD_logos_added
2022-02-12 Ben SoaresJAL-3949 fix testProps path and make line count more...
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2022-02-11 Ben SoaresMerge branch 'update/JAL-3949_jalview_bin_Console_to_cure_sa...
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2022-02-11 Ben SoaresJLogger loglevel check on whether to call the actual...
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2022-02-11 Ben SoaresJAL-3949 fixed failing commandlinetests due to more...
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2022-02-11 Ben SoaresJAL-3949 added Java Console autoscrolling help paragraph
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2022-02-11 Ben SoaresJAL-3949 read ~/.jalview_properties before initialising...
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2022-02-11 Ben SoaresMerge branch 'develop' into update/JAL-3949_abstracted_loggi...
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2022-02-11 Ben SoaresJAL-3949 Complete new abstracted logging framework...
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2022-02-04 Ben SoaresJAL-3949 An attempt at converting to Log4j 2 -- no...
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2022-02-03 Ben SoaresJAL-3949 upgraded log4j to 2.17.1 (no actual known...
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2022-01-28 Ben SoaresMerge branch 'develop' into improvement/JAL-3420_match_jvl_i...
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2022-01-28 Ben Soaresnew jvl_file svg, png, ico and icns files, and changed...
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2022-01-12 Ben SoaresJAL-3703 Test that fails in Windows only, and only...
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2022-01-11 Ben SoaresJAL-3703 fix Gff3 shared InputStream with embedded...
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2022-01-11 Ben Soaresclose filehandles straight after parse, without setting...
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2022-01-10 Ben SoaresJAL-3937 enable AIA download of intermediate certificates...
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2021-12-22 Ben SoaresMerge branch 'develop' into critical/JAL-3933_log4j_update_f...
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2021-12-22 Ben SoaresJAL-3934 updated log4j from 2.16.0 to 2.17.0
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2021-12-15 Ben SoaresJAL-3933 updated THIRDPARTYLIBS
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2021-12-15 Ben SoaresJAL-3933 updated THIRDPARTYLIBS
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2021-12-14 Ben SoaresJAL-3933 updated log4j and slf4j jars with log4j1.2...
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2021-12-07 Ben SoaresJAL-3930 Added a customizedId="JALVIEW" to launcher...
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2021-11-29 Ben SoaresJAL-3594 correct Jalview Develop logo SVG added in...
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2021-11-05 Ben SoaresJAL-3746 Updated help docs for 3D-Beacons. Added and...
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2021-11-01 Ben SoaresJAL-3907 changed two commented out lines to reflect...
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2021-11-01 Ben SoaresJAL-3907 added creation of symbolic links to workaround...
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2021-10-26 Ben SoaresJAL-3907 adjusted download_jdks.sh and download_jres...
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2021-10-01 Ben SoaresMerge branch 'develop' into improvement/JAL-3594_BG_and_UoD_...
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2021-10-01 Ben SoaresMerge branch 'develop' into improvement/JAL-3594_BG_and_UoD_...
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2021-10-01 Ben SoaresMerge branch 'improvement/JAL-3594_logos_for_jalview_test...
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2021-10-01 Ben SoaresMerge branch 'develop' into improvement/JAL-3594_logos_for_j...
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2021-10-01 Ben SoaresJAL-3594 New Jalview Test logos and .icns/.ico creation...
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2021-09-30 Ben SoaresJAL-3594 Changed logo for Jalview Test
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2021-09-30 Ben SoaresJAL-1260 Added .gbk to GenBank extensions. Added GenBank...
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2021-09-29 Ben SoaresJAL-3885 Made the database JComboBox have StringPair...
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2021-09-28 Ben SoaresJAL-3783 Updated groovy-all-2.4. Currently newer stable...
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2021-09-23 Ben SoaresJAL-3594 added BG and UoD logo and banner to splashscreens...
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2021-09-21 Ben SoaresJAL-3691 automatic insertion of Locale.ROOT to toUpperCase...
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2021-09-21 Ben SoaresJAL-3521 'Debian-safe' version of minimal build.gradle...
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2021-09-20 Ben SoaresJAL-3521 Created a patch file to transform build.gradle...
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2021-09-20 Ben SoaresJAL-3521 working minimal build.gradle for debian and...
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2021-09-20 Ben SoaresJAL-3521 not quite working minimal build.gradle for...
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2021-09-17 Ben SoaresMerge branch 'merge/develop_JAL-1260' into develop
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2021-09-17 Ben SoaresJAL-1260 rudimentary parsing of LOCUS line to at least...
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2021-09-16 Ben SoaresJAL-3779 Added to documentation
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2021-09-16 Ben SoaresJAL-3774 combined changes from bug/JAL-3774_splitFrameFinder...
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2021-09-16 Ben SoaresJAL-3739 (combined) commits from feature/JAL-3739_useFormFie...
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2021-09-16 Ben SoaresJAL-3761 listToArray became rangeListToArray
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2021-09-16 Ben SoaresJAL-3761 listToArray became rangeListToArray
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2021-09-15 Ben SoaresJAL-3818 formatting
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2021-09-15 Ben SoaresMerge branch 'develop' into merge/develop_ben2
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2021-09-15 Ben SoaresMerge branch 'develop' of https://source.jalview.org...
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2021-09-15 Ben SoaresJAL-3829 Fixed Jmol jar -- duplicates of other classes...
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2021-09-15 Ben SoaresMerge branch 'develop' into merge/develop_ben2
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2021-09-14 Ben SoaresMerge branch 'develop' of https://source.jalview.org...
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2021-09-14 Ben SoaresJAL-3521 Adjusted wrapper shell script and .desktop...
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2021-09-14 Ben SoaresJAL-3521 High quality file icons for jalview associated...
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2021-09-14 Ben SoaresJAL-3521 Change grouped Jalview windows on linux taskbar...
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2021-09-14 Ben SoaresJAL-2422 Also look in ~/Applications for ChimeraX on...
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2021-09-14 Ben SoaresJAL-2422 More helpful highlighting/user guidance of...
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2021-09-14 Ben SoaresJAL-2422 Fixed URL encoding of REST calls (broken paths...
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2021-09-13 Ben SoaresMerge branch 'develop' of https://source.jalview.org...
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2021-09-13 Ben SoaresJAL-2422 Fixed URL encoding of REST calls (broken paths...
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2021-09-13 Ben SoaresMerge branch 'develop' into feature/JAL-2422ChimeraX
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2021-09-13 Ben SoaresJAL-2422 Added linux rpm and deb install locations...
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2021-07-21 Ben SoaresJAL-3850 fixed full class name
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2021-07-21 Ben SoaresJAL-3850 using reflection for SimpleHttpFileServerFactory
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2021-06-18 Ben SoaresJAL-3594 Updated the Jalview Develop getdown splashscreen...
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2021-06-08 Ben SoaresMerge branch 'develop' into improvement/JAL-3830_macOS_bundl...
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2021-04-26 Ben SoaresJAL-3248 Moved old README to doc/old_README and put...
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2021-04-26 Ben SoaresJAL-3743 JAL-3745 Fixed NullPointerExceptions happening...
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2021-04-22 Ben SoaresJAL-3833 Allow setHiDPI and setHiDPIScale to work more...
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2021-04-18 Ben SoaresJAL-3833 cap the scaling used by HiDPISetting for incorrect...
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2021-04-13 Ben SoaresJAL-3830 Improved jalview.bat to find either pwsh.exe...
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2021-03-31 Ben SoaresJAL-3830 BAT file wrapper around powershell, so jalview...
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2021-03-30 Ben SoaresJAL-3830 Follow all SymbolicLinks in Windows powershell...
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2021-03-26 Ben SoaresJAL-3830 delete channel.props and channel.propsv when...
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2021-03-25 Ben SoaresJAL-3633 new getdown jars
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2021-03-25 Ben SoaresJAL-3633 refactored/simplified LaunchUtils code
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2021-03-25 Ben SoaresJAL-3633 new getdown jars
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2021-03-25 Ben SoaresJAL-3633 getdown reads jalview_properties for proxy...
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2021-03-24 Ben SoaresJAL-3830 Moved wrappers to bin/jalview.* and make a...
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2021-03-20 Ben SoaresJAL-3503 Changed decimal display of memory in Prefences
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2021-03-19 Ben SoaresJAL-3594 Making default .jalview_properties file separate...
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2021-03-19 Ben SoaresJAL-3503 missed a widget being disabled
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2021-03-19 Ben SoaresJAL-3503 New getdown version and jar files
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2021-03-19 Ben SoaresJAL-3503 Added a Startup tab in Preferences, with gui...
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2021-03-17 Ben SoaresJAL-3830 Allow paths to start with '~'. Make path check...
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2021-03-17 Ben SoaresJAL-3830 Now using a single universal bash script ...
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2021-03-17 Ben SoaresJAL-3830 add the windows bash script to getdown files...
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2021-03-17 Ben SoaresJAL-3830 bash script that works in both cygwin and...
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2021-03-15 Ben SoaresJAL-3830 Delete wrapper scripts and getdown *v files...
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2021-03-15 Ben SoaresJAL-3830 powershell wrapper tested on linux, macos...
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2021-03-14 Ben SoaresJAL-3830 minor fix in powershell wrapper
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2021-03-14 Ben SoaresJAL-3830 powershell follows symlinks as they do exist...
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2021-03-14 Ben SoaresJAL-3830 Powershell wrapper now works cross-platform...
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2021-03-14 Ben SoaresJAL-3830 Make wrapper scripts executable
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2021-03-12 Ben SoaresJAL-3830 powershell wrapper tested and fixed
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2021-03-12 Ben SoaresJAL-3830 improved bash scripts. Added powershell script...
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2021-03-12 Ben SoaresJAL-3830 unix and macos wrappers. Symbolic link to...
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