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2022-12-05	Ben Soares	JAL-629 implementation of --tempfac options	commit \| commitdiff \| tree
2022-11-23	Ben Soares	JAL-629 Doing things with the command line arguments	commit \| commitdiff \| tree
2022-10-27	Ben Soares	JAL-4083 don't need globalUseScriptWait after all,...	commit \| commitdiff \| tree
2022-10-27	Ben Soares	JAL-4083 only set globalUseScriptWait if needed	commit \| commitdiff \| tree
2022-10-27	Ben Soares	JAL-4083 Use jmolViewer.scriptWait instead of jmolViewer...	commit \| commitdiff \| tree
2022-10-26	Ben Soares	Merge branch 'features/r2_11_2_alphafold/JAL-2349_JAL...	commit \| commitdiff \| tree
2022-10-26	Ben Soares	JAL-3416 (and others) increasing number of STDERR lines...	commit \| commitdiff \| tree
2022-10-25	Ben Soares	JAL-3416 Making FlatLaF default for macs due to a problem...	commit \| commitdiff \| tree
2022-10-11	Ben Soares	JAL-4014 Changed gecos display names to match labels...	commit \| commitdiff \| tree
2022-08-23	Ben Soares	JAL-4014 JAL-4063 Added gecos colourScheme names (INFO...	commit \| commitdiff \| tree
2022-08-01	Ben Soares	JAL-4056 fixed tl;dr section of doc/building.md	commit \| commitdiff \| tree
2022-07-26	Ben Soares	JAL-4036 Fixed the virus_host_id query field	commit \| commitdiff \| tree
2022-07-26	Ben Soares	JAL-4036 Added text to help about different number...	commit \| commitdiff \| tree
2022-07-25	Ben Soares	JAL-4036 updated help about new UniProt API	commit \| commitdiff \| tree
2022-07-25	Ben Soares	JAL-4036 moved a comment block	commit \| commitdiff \| tree
2022-07-25	Ben Soares	JAL-4034 button looks better also on other OSes with...	commit \| commitdiff \| tree
2022-07-24	Ben Soares	JAL-4034 add round corners to 3DB confirmation button...	commit \| commitdiff \| tree
2022-07-22	Ben Soares	JAL-4036 Changes made from code review CR-JAL-265	commit \| commitdiff \| tree
2022-07-22	Ben Soares	JAL-4036 Add getDbName to the GFTSPanelI and add an...	commit \| commitdiff \| tree
2022-07-22	Ben Soares	JAL-4036 removing the query field code from the dropdown...	commit \| commitdiff \| tree
2022-07-21	Ben Soares	JAL-4036 Don't autosearch changing index when autosearch...	commit \| commitdiff \| tree
2022-07-21	Ben Soares	JAL-4036 add search fieldname to dropdown list	commit \| commitdiff \| tree
2022-07-21	Ben Soares	JAL-4036 removed often duplicated pluralisation in...	commit \| commitdiff \| tree
2022-07-21	Ben Soares	JAL-4036 New configuration, target and pagination process...	commit \| commitdiff \| tree
2022-07-15	Ben Soares	JAL-4034 Use the new non-modal JDialog for 3DBeacons...	commit \| commitdiff \| tree
2022-07-15	Ben Soares	JAL-4034 Allow request for non-modal JDialog, which...	commit \| commitdiff \| tree
2022-07-12	Ben Soares	JAL-4034 change to jalview property name	commit \| commitdiff \| tree
2022-07-12	Ben Soares	JAL-4034 showConfirmDialog works for both desktop and...	commit \| commitdiff \| tree
2022-07-11	Ben Soares	JAL-4034 Non-blocking 3D Beacons query after warning...	commit \| commitdiff \| tree
2022-07-11	Ben Soares	JAL-4034 allow a jalview_property to set the threshold...	commit \| commitdiff \| tree
2022-06-28	Ben Soares	Merge branch 'improvement/JAL-1988+JAL-3416_Java8_macOS_APQH...	commit \| commitdiff \| tree
2022-06-28	Ben Soares	JAL-1988 Don't put Quit in the File menu if there's...	commit \| commitdiff \| tree
2022-06-23	Ben Soares	Merge branch 'improvement/JAL-1988+JAL-3416_Java8_macOS_APQH...	commit \| commitdiff \| tree
2022-06-23	Ben Soares	JAL-1988 Check for setHandler capability to avoid About...	commit \| commitdiff \| tree
2022-06-17	Ben Soares	JAL-3027 Avoid FlatLAF Desktop class is JalviewJS	commit \| commitdiff \| tree
2022-06-13	Ben Soares	JAL-1988 Hack to ensure Quit dialog box is moved to...	commit \| commitdiff \| tree
2022-06-13	Ben Soares	JAL-1988 Moved APQHandlers to jalview.jbgui and called...	commit \| commitdiff \| tree
2022-06-13	Ben Soares	Merge branch 'develop' into improvement/JAL-1988+JAL...	commit \| commitdiff \| tree
2022-06-13	Ben Soares	JAL-4004 Fix missing whatsNew.html when not building...	commit \| commitdiff \| tree
2022-06-13	Ben Soares	JAL-3416 remove flat as default for linux	commit \| commitdiff \| tree
2022-06-13	Ben Soares	JAL-1988 JAL-3416 Using the flatlaf-extras About, Preference...	commit \| commitdiff \| tree
2022-06-13	Ben Soares	JAL-3416 Added some mac specific FlatLAF settings....	commit \| commitdiff \| tree
2022-06-13	Ben Soares	JAL-3416 updated FlatLAF libraries to 2.3. Added the...	commit \| commitdiff \| tree
2022-06-07	Ben Soares	JAL-4020 class formatting	commit \| commitdiff \| tree
2022-06-07	Ben Soares	JAL-4020 added the \Scripts\pymol.exe. to the pathList	commit \| commitdiff \| tree
2022-06-06	Ben Soares	JAL-4020 Added the +2 arg for PyMOLWin.exe allowing...	commit \| commitdiff \| tree
2022-06-06	Ben Soares	JAL-4020 updated tests	commit \| commitdiff \| tree
2022-06-06	Ben Soares	JAL-4020 class reformatting	commit \| commitdiff \| tree
2022-06-06	Ben Soares	JAL-4020 Added path search for global installation...	commit \| commitdiff \| tree
2022-06-06	Ben Soares	JAL-4020 Added search for PyMOLWinWithConsole.bat ...	commit \| commitdiff \| tree
2022-05-12	Ben Soares	Merge branch 'develop' into issues/JAL-3553+JAL-3978...	commit \| commitdiff \| tree
2022-05-12	Ben Soares	JAL-4014 4 gecos colour schemes added to help documentation	commit \| commitdiff \| tree
2022-05-12	Ben Soares	JAL-4014 4 gecos colour schemes added	commit \| commitdiff \| tree
2022-05-10	Ben Soares	JAL-4004 cosmetic improvements for Java documentation...	commit \| commitdiff \| tree
2022-05-09	Ben Soares	JAL-4004 gradle task releasesTemplates now part of...	commit \| commitdiff \| tree
2022-05-09	Ben Soares	JAL-4004 working templates and generated whatsNew.html...	commit \| commitdiff \| tree
2022-05-09	Ben Soares	JAL-4004 remove stray empty h3 headers	commit \| commitdiff \| tree
2022-05-09	Ben Soares	JAL-4004 gradle releasesTemplates builds releases.html	commit \| commitdiff \| tree
2022-05-09	Ben Soares	JAL-4004 Temporary mechanism to add JalviewJS link...	commit \| commitdiff \| tree
2022-05-09	Ben Soares	JAL-3989 Code tidying, added JVL_HEADER for older versions...	commit \| commitdiff \| tree
2022-05-05	Ben Soares	JAL-4004 Now generating hugo files from help/markdown/...	commit \| commitdiff \| tree
2022-05-04	Ben Soares	JAL-4004 existing releases-VERSION.md files and releases...	commit \| commitdiff \| tree
2022-05-04	Ben Soares	JAL-4004 locations for markdown to go into whatsnew...	commit \| commitdiff \| tree
2022-05-03	Ben Soares	JAL-3989 improved parsing and formatting now using...	commit \| commitdiff \| tree
2022-05-03	Ben Soares	JAL-1544 minor errors in releases.html and one missing...	commit \| commitdiff \| tree
2022-04-29	Ben Soares	JAL-3989 small improvements to output markdown	commit \| commitdiff \| tree
2022-04-28	Ben Soares	JAL-3989 add in issue shortcodes to the archive version...	commit \| commitdiff \| tree
2022-04-27	Ben Soares	JAL-1544 version number typo, probably copy and paste	commit \| commitdiff \| tree
2022-04-27	Ben Soares	JAL-3989 Populate template files for hugo build: archive...	commit \| commitdiff \| tree
2022-04-25	Ben Soares	JAL-3989 moved getdown build dirs to build/website...	commit \| commitdiff \| tree
2022-04-25	Ben Soares	JAL-3989 Independent creation of JSON installer sections	commit \| commitdiff \| tree
2022-04-25	Ben Soares	JAL-3978 clean up unnecessary local variables for JALVIEW_VE...	commit \| commitdiff \| tree
2022-04-22	Ben Soares	JAL-3989 Changed to using com.google.common.hash for...	commit \| commitdiff \| tree
2022-04-21	Ben Soares	Merge branch 'develop' into merge/JAL-3978+JAL-3553...	commit \| commitdiff \| tree
2022-04-21	Ben Soares	Merge branch 'develop' into task/JAL-3991_check_actual_JAVA_...	commit \| commitdiff \| tree
2022-04-06	Ben Soares	JAL-3991 Made info displayed only when needed (Java...	commit \| commitdiff \| tree
2022-04-06	Ben Soares	JAL-3991 Added information output about the slightly...	commit \| commitdiff \| tree
2022-04-06	Ben Soares	JAL-3991 JAVA_COMPILE_VERSION put into build_properties...	commit \| commitdiff \| tree
2022-04-05	Ben Soares	JAL-3989 slight refactor of build.gradle, add more...	commit \| commitdiff \| tree
2022-04-04	Ben Soares	JAL-3989 fix a build date once in build.gradle, not...	commit \| commitdiff \| tree
2022-03-31	Ben Soares	Merge branch 'task/JAL-3553_improved_install4j_output_txt...	commit \| commitdiff \| tree
2022-03-31	Ben Soares	Merge branch 'develop' into improvement/JAL-3978_add_gradle_...	commit \| commitdiff \| tree
2022-03-21	Ben Soares	JAL-3416 Updated FlatLaF to 2.1	commit \| commitdiff \| tree
2022-03-18	Ben Soares	JAL-3978 Using getdowninstanceappdir and getdowninstanceappb...	commit \| commitdiff \| tree
2022-03-18	Ben Soares	JAL-3978 Getdown add getdownappbase property to launched...	commit \| commitdiff \| tree
2022-03-18	Ben Soares	JAL-3978 New tasks to build archive 'old' dir with...	commit \| commitdiff \| tree
2022-03-16	Ben Soares	JAL-3978 task stub and getdown splash screens	commit \| commitdiff \| tree
2022-03-13	Ben Soares	Append git.hash and git.branch to RELEASE file stored...	commit \| commitdiff \| tree
2022-03-11	Ben Soares	JAL-3973 This fixes the gradle build when not in a...	commit \| commitdiff \| tree
2022-03-08	Ben Soares	JAL-3103 updated help doc to remove default browser...	commit \| commitdiff \| tree
2022-03-08	Ben Soares	JAL-3103 Removed code and unused widgets for defaultBrowser	commit \| commitdiff \| tree
2022-03-08	Ben Soares	JAL-3103 Remove BrowserLauncher2 and use Desktop.browse...	commit \| commitdiff \| tree
2022-03-08	Ben Soares	JAL-3103 add BrowserLauncher2 LGPLv2.1 to THIRDPARTYLIBS	commit \| commitdiff \| tree
2022-03-08	Ben Soares	JAL-3103 Put jalview.jar first in getdown for .properties...	commit \| commitdiff \| tree
2022-03-07	Ben Soares	JAL-3103 Switched to (a wrapper around) BrowserLauncher2	commit \| commitdiff \| tree
2022-03-04	Ben Soares	JAL-3830 added command line to whatsnew and releases	commit \| commitdiff \| tree
2022-03-04	Ben Soares	JAL-3830 Added new command line usage to docs	commit \| commitdiff \| tree
2022-03-04	Ben Soares	JAL-3608 added to LaF documentation	commit \| commitdiff \| tree
2022-03-03	Ben Soares	JAL-3830 fix broken/buggy install4j9 setting of executeSetup...	commit \| commitdiff \| tree
2022-03-02	Ben Soares	JAL-3691 bumped the version to 1.8.3-1.2.12 in source...	commit \| commitdiff \| tree
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