JAL-3851 remove old interface
[jalview.git] / src /
2021-09-02 Ben SoaresJAL-3851 remove old interface
2021-09-02 Ben SoaresJAL-3851 tidy up REMOVEME logging
2021-09-02 Ben SoaresJAL-3851 start highlight
2021-09-02 Ben SoaresJAL-3851 fix caching and tidy up old methods
2021-09-02 Ben SoaresJAL-3851 re-engineering endpoints as separate classes
2021-09-02 Ben SoaresJAL-3851 API handling of rest calls
2021-09-02 Ben SoaresJAL-3851 convenience methods for logging exceptions
2021-06-09 Jim ProcterJAL-3840 don’t update the modal residue count for gaps patch/JAL-3840_2_11_2
2021-06-09 Jim Procterfixes JAL-3840
2021-06-09 Jim ProcterJAL-3840 failing test - show that addGaps overflows
2021-04-22 Ben SoaresJAL-3833 Allow setHiDPI and setHiDPIScale to work more...
2021-04-18 Ben SoaresJAL-3833 cap the scaling used by HiDPISetting for incor...
2021-03-05 Ben SoaresJAL-3618 Enable appBundleIsTraversable in JFileChooser...
2021-03-04 Ben SoaresJAL-3594 Allow a channel to use a different preferences...
2021-02-18 gmungocJAL-3822 pass panel height and width to wrapped geometr...
2021-02-18 gmungocJAL-2422 remove temporary patch (requires ChimeraX...
2021-02-10 Ben SoaresJAL-3251 On linux set (sun.awt.X11.XToolkit.)awtAppClas...
2021-02-04 gmungocJAL-2422 a fix and a fudge for two failing ChimeraX...
2021-01-21 gmungocJAL-3038 corrected code that reads editable JComboBox...
2020-12-14 Ben SoaresJAL-3280 Fixed the version checking URL formulation... Develop-2_11_2_0-d20201215
2020-12-14 Ben SoaresJAL-3594 Allow setting of getdownappbase and getdowndis...
2020-12-14 Ben SoaresJAL-3280 Test for remote release build_properties file...
2020-12-14 Ben SoaresJAL-3280 fixes after CR-JAL-241. Now only checking...
2020-12-14 Ben SoaresJAL-3280 Pass appbase and appdir from getdown to jalvew...
2020-12-11 Ben SoaresJAL-3594 Defintely want SplashScreen to appear in the...
2020-12-11 Ben SoaresJAL-3594 Adjustments to allow JalviewJS to use ChannelP...
2020-12-11 Ben SoaresJAL-3775 JAL-3633 Make java.net.Authenticator code...
2020-12-09 Ben SoaresJAL-3594 Images for splash screen
2020-12-09 Ben SoaresJAL-3594 JAL-3728 Added taskbar icons to desktop and...
2020-12-08 Ben SoaresMerge branch 'merge/develop_and_rebase_squashed_merge_J...
2020-12-08 Ben SoaresJAL-3594 Change main window title
2020-12-07 Ben SoaresJAL-3594 added BG logo. Changed some named Jalviews...
2020-12-05 Ben SoaresJAL-3594 Default values for channel properties defined...
2020-12-04 Ben SoaresJAL-3594 Added rotating logo png
2020-12-04 Ben SoaresJAL-3594 New jalview.util.ChannelProperties to get...
2020-12-01 Ben SoaresJAL-3609 JAL-3775 Tests for jalview.bin.HiDPISetting
2020-12-01 Ben SoaresJAL-3609 JAL-3775 Refactoring a bit of jalview.bin...
2020-12-01 Ben SoaresJAL-3660 Fix for specified output format when using...
2020-12-01 Ben SoaresJAL-3530 Added a -nowebservicediscovery command line...
2020-11-27 Ben SoaresJAL-3660 Fix for specified output format when using...
2020-11-13 Jim ProcterJAL-3757 JAL-3689 use AppletFormat.checkProtocol to...
2020-11-13 Ben SoaresJAL-3757 JAL-3689 Fixed checks for URLs by adding check...
2020-11-13 Ben SoaresJAL-3775 Eclipse re-formatting commit
2020-11-13 Ben SoaresJAL-3633 last minute refinement so password box doesn...
2020-11-13 Ben SoaresJAL-3633 Apply (proxy) button enabled when needed
2020-11-13 Ben SoaresJAL-3633 Small changes to allow future fitting with...
2020-11-13 Ben SoaresJAL-3275 JAL-3633: JAL-3275 Turned Preferences into...
2020-11-13 Ben SoaresJAL-3633 Set proxy preferences before web calls in...
2020-11-13 Ben SoaresJAL-3633 Memory only proxy auth password storage. Open...
2020-11-12 Ben SoaresJAL-3633 Added Proxy Authentication credentials in...
2020-11-12 Ben SoaresJAL-3633 Added Preferences for Proxy Authentication...
2020-11-12 Ben SoaresJAL-3633 label.proxy_server -> label.proxy_servers
2020-11-12 Ben SoaresJAL-3633 Remember system set proxy properties. Add...
2020-11-12 Ben SoaresJAL-3633 ensure check both or https:// for urls
2020-11-12 Ben SoaresJAL-3628 Error when saving alert box has been moved...
2020-11-12 Ben SoaresJAL-3676 More explicit tooltip about resetting log...
2020-11-12 Ben SoaresJAL-3676 Removed BACKUPFILESPRESETENTRY logging for...
2020-11-10 Ben SoaresJAL-3628 Fixed oddly worded and non-formatted error...
2020-11-10 Ben SoaresJAL-3676 improvement for visual selection of console...
2020-11-10 Ben SoaresJAL-3676 code review -- added non-listed Level into...
2020-11-10 Ben SoaresJAL-3676 Added Log Level ComboBox and Copy to Clipboard...
2020-11-10 Ben SoaresJAL-3628 Fix for slightly incorrect boolean usage to...
2020-11-10 Ben SoaresJAL-3628 Even more Cache.log.debug statements
2020-11-10 Ben SoaresJAL-3628 More Cache.log.debug statements
2020-11-06 Ben SoaresJAL-3628 Changed other calls to renameTo to use BackupF...
2020-11-06 Ben SoaresJAL-3628 Changed all file1.renameTo(file2) calls to...
2020-11-06 Ben SoaresJAL-3609 formatting save after cherry-picks
2020-11-06 Ben SoaresJAL-3609 Report when scale setting used.
2020-11-06 Ben SoaresJAL-3609 New auto-scale 'formula' for linux HiDPI....
2020-11-06 soaresJAL-3609 corrected maxdimension to mindimension. Adjust...
2020-11-06 Ben SoaresJAL-3609 removed debugging prints
2020-11-06 Ben SoaresJAL-3609 changed property names to something more palat...
2020-11-06 Ben SoaresJAL-3609 system properties to force a scale, or automat...
2020-11-06 Ben SoaresJAL-3609 Added a -DforceHiDPISetting=true option mainly...
2020-11-05 Ben SoaresJAL-3608 cherry pick of 92cb745e7
2020-10-28 Jim ProcterJAL-3760 refactor nucleotide proportion test to per...
2020-10-28 Jim Procterfix for JAL-3765
2020-09-21 Jim ProcterMerge branch 'merge_review/JAL-3490_2_11_2_develop...
2020-09-14 Ben SoaresMerge branch 'develop' of https://source.jalview.org...
2020-09-14 Ben SoaresMerge branch 'feature/JAL-3615gzipXfam' into develop
2020-09-14 Ben SoaresJAL-3609 HiDPI scale setting done via system prop in...
2020-09-10 gmungocJAL-3518 removed unneeded override in ChimeraCommands
2020-09-03 gmungocJAL-3648 resize annotation panel after dragging to...
2020-09-03 Ben SoaresMerge branch 'develop' of https://source.jalview.org...
2020-08-31 Jim ProcterJAL-3732 - sequences can be moved up/down in cursor...
2020-08-31 gmungocJAL-3018 Ensembl reviewed REST version updated to 13.0
2020-08-31 gmungocJAL-1191 use Cache.log for logging
2020-08-31 gmungocJAL-1191 reduce logging level for warnings
2020-08-24 gmungocJAL-3018 updated reviewed REST version to 12.0
2020-08-21 Jim ProcterJAL-3615 code tidy, improve unit test
2020-08-20 Ben SoaresJAL-2656 better read of (potential) gzip magic bytes
2020-08-18 gmungocJAL-2656 Java 8 compatible test for gzipped, refactored...
2020-08-17 Jim ProcterJAL-3490 don't init the combo box's history cache for...
2020-08-17 Jim ProcterJAL-3490 merged with 2.11.2 develop
2020-08-17 Jim ProcterMerge branch 'task/JAL-3597memoryLeakTest' into develop
2020-08-12 Ben SoaresMerge branch 'develop' of https://source.jalview.org...
2020-08-12 Jim ProcterMerge branch 'task/JAL-3608_property_set_laf_and_tests...
2020-08-09 Ben SoaresJAL-3691 Changed .toUppoerCase().startsWith(...) to...
2020-08-04 Ben SoaresJAL-3477 Added -help text for jvmmempc and jvmmemmax...
2020-08-03 Jim ProcterMerge branch 'bug/JAL-2983negativeSliderMin' into develop
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