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jalview.git
2024-09-13 Jim ProcterMerge branch 'feature/JAL-4386_JAL-4435_trees_from_anno... feature/JAL-4386_JAL-4435_trees_from_annotations_on_alignment_2114_update commit | commitdiff | tree | snapshot
2024-09-13 Jim ProcterMerge branch 'develop' into feature/JAL-4386_calculate_... commit | commitdiff | tree | snapshot
2024-09-13 Jim ProcterJAL-4418 sign off JAL-4454 and convert markdown header... commit | commitdiff | tree | snapshot
2024-09-12 Jim ProcterMerge branch 'bug/JAL-4427_HTML_code_in_sequence_ID_tex... commit | commitdiff | tree | snapshot
2024-09-12 Jim ProcterJAL-4418 sign off JAL-4427 JAL-4451 fix commit | commitdiff | tree | snapshot
2024-09-12 Jim ProcterMerge branch 'bug/JAL-4427_HTML_code_in_sequence_ID_tex... commit | commitdiff | tree | snapshot
2024-09-12 Jim Procter JAL-4454 make sure 2.11.4.0-test is stripped - *for... commit | commitdiff | tree | snapshot
2024-09-11 Jim ProcterJAL-4418 release notes for JAL-4460 commit | commitdiff | tree | snapshot
2024-09-11 Jim ProcterMerge branch 'bug/JAL-4460_alignment_save_as_format_not... commit | commitdiff | tree | snapshot
2024-09-11 Jim ProcterJAL-4454 make sure 2.11.4.0-test is stripped commit | commitdiff | tree | snapshot
2024-09-11 Ben SoaresJAL-4460 In save as, set format from file extension... commit | commitdiff | tree | snapshot
2024-09-11 Ben SoaresJAL-4460 Don't add .aln for an 'All known formats.... commit | commitdiff | tree | snapshot
2024-09-11 Ben SoaresJAL-4460 Update currentFileFormat /after/ new format... commit | commitdiff | tree | snapshot
2024-09-11 Jim ProcterJAL-4418 JAL-4428,JAL-4421,JAL-3393 release notes commit | commitdiff | tree | snapshot
2024-09-11 Jim ProcterMerge branch 'patch/JAL-4428_osx_codesigning_scripts... commit | commitdiff | tree | snapshot
2024-09-11 Jim ProcterJAL-4428 codesign jnilibs commit | commitdiff | tree | snapshot
2024-09-11 Jim ProcterJAL-4428 informational output (possibly needs verbosity... commit | commitdiff | tree | snapshot
2024-09-11 Jim ProcterJAL-4428 giving another XXX commit | commitdiff | tree | snapshot
2024-09-11 Jim ProcterJAL-4428 add some XXXX for mktemp -t commit | commitdiff | tree | snapshot
2024-09-11 Ben SoaresJAL-4428 Fixes to -z's and mktemp commit | commitdiff | tree | snapshot
2024-09-10 Jim ProcterMerge branch 'patch/JAL-4428_osx_codesigning_scripts... commit | commitdiff | tree | snapshot
2024-09-10 Jim ProcterJAL-4454 allow channels to pick up most recent 'whatsNe... commit | commitdiff | tree | snapshot
2024-09-09 Jim ProcterJAL-4418 initial pasimap documentation and updated... commit | commitdiff | tree | snapshot
2024-09-09 Jim ProcterJAL-4418 postpone release to Thursday 12th Sept 2024 commit | commitdiff | tree | snapshot
2024-09-03 Renia CorreyaMerge branch 'develop' into feature/JAL-4386_calculate_... commit | commitdiff | tree | snapshot
2024-09-03 Jim ProcterJAL-4386 remove magic string in registerScoreModel... commit | commitdiff | tree | snapshot
2024-09-02 Jim ProcterJAL-4418 fix linkCheck documentation/JAL-4418_2_11_4_0_docs commit | commitdiff | tree | snapshot
2024-09-02 Jim ProcterJAL-4418 release 10th September commit | commitdiff | tree | snapshot
2024-09-02 Jim ProcterMerge branch 'documentation/JAL-4418_2_11_4_0_docs... commit | commitdiff | tree | snapshot
2024-09-02 Jim ProcterMerge branch 'feature/JAL-4446_cancellable_pasimap_etal... commit | commitdiff | tree | snapshot
2024-09-02 Jim ProcterJAL-4418 first pass at updating docs with pasimap,... commit | commitdiff | tree | snapshot
2024-08-30 Renia CorreyaFix for JAL-4427 commit | commitdiff | tree | snapshot
2024-08-30 Renia CorreyaJAL-4436 Colour by secondary structure conservation commit | commitdiff | tree | snapshot
2024-08-29 Jim ProcterJAL-4446 improved reporting of progress, and transition... feature/JAL-4446_cancellable_pasimap_etal commit | commitdiff | tree | snapshot
2024-08-29 Jim ProcterJAL-4446 refactor progress listener handler code for... commit | commitdiff | tree | snapshot
2024-08-29 Jim ProcterMerge branch 'develop' into feature/JAL-4446_cancellabl... commit | commitdiff | tree | snapshot
2024-08-28 Jim ProcterJAL-4418 tweak release notes for JAL-4328 commit | commitdiff | tree | snapshot
2024-08-28 Jim ProcterMerge branch 'feature/JAL-3631_allow_jalview_to_work_fr... commit | commitdiff | tree | snapshot
2024-08-28 Ben SoaresJAL-3631 Allow use of ~/ for unixBinDir specified in... feature/JAL-3631_allow_jalview_to_work_from_user-space_directory commit | commitdiff | tree | snapshot
2024-08-28 Ben SoaresJAL-3631 Allow unixBinDir (where a symbolic link gets... commit | commitdiff | tree | snapshot
2024-08-28 Ben SoaresJAL-3631 Configuration tweaks if using the response... commit | commitdiff | tree | snapshot
2024-08-28 Ben SoaresJAL-3631 Adjustments to allow setting the Advanced... commit | commitdiff | tree | snapshot
2024-08-26 Ben SoaresJAL-3631 Fix interpolatove quotation marks in grep... commit | commitdiff | tree | snapshot
2024-08-26 Ben SoaresJAL-3631 Fix interpolative quotation marks in new grep commit | commitdiff | tree | snapshot
2024-08-26 Jim ProcterMerge branch 'jims/JAL-4420_review_redo' into develop commit | commitdiff | tree | snapshot
2024-08-26 Ben SoaresJAL-3631 When appdir/jre can't be found, look for the... commit | commitdiff | tree | snapshot
2024-08-26 Ben SoaresJAL-3631 Create an installer.properties file in the... commit | commitdiff | tree | snapshot
2024-08-26 Jim ProcterJAL-4418 JAL-4420 is experimental feature jims/JAL-4420_review_redo commit | commitdiff | tree | snapshot
2024-08-26 Jim ProcterJAL-4420 new drag'n'drop behaviour is now an 'Experimen... commit | commitdiff | tree | snapshot
2024-08-26 Jim ProcterJAL-4420 report exceptions raised during a drop rather... commit | commitdiff | tree | snapshot
2024-08-26 Jim ProcterJAL-4418 release notes for JAL-4398 and rejigged order... commit | commitdiff | tree | snapshot
2024-08-26 Jim ProcterMerge branch 'bug/JAL-4398_Window_menu_font_rendering... commit | commitdiff | tree | snapshot
2024-08-23 Jim ProcterMerge branch 'develop' into bug/JAL-4449_ensembl_sequen... commit | commitdiff | tree | snapshot
2024-08-23 Jim ProcterJAL-4449 signed off and also updated Ensembl REST API... commit | commitdiff | tree | snapshot
2024-08-23 Jim ProcterJAL-4418 JAL-3064 JAL-4111 release notes commit | commitdiff | tree | snapshot
2024-08-22 Ben SoaresJAL-4449 Changed HttpUtils.followConnection(conn0)... commit | commitdiff | tree | snapshot
2024-08-22 Jim ProcterJAL-4418 JAL-4450 known issue for 2.11.4 and 2.11.3.3 commit | commitdiff | tree | snapshot
2024-08-22 Jim ProcterJAL-4418 JAL-4100 ncrna genbank as known issue commit | commitdiff | tree | snapshot
2024-08-19 Ben SoaresJAL-4428 README.md file for sign_and_stapled_dmg.sh commit | commitdiff | tree | snapshot
2024-08-19 Jim ProcterJAL-789 limit applicable score models to substitution... commit | commitdiff | tree | snapshot
2024-08-19 Ben SoaresJAL-3631 Change macos-install-jalview.sh to use ditto... commit | commitdiff | tree | snapshot
2024-08-19 Jim ProcterJAL-4446 allow progress bar to become indeterminate... commit | commitdiff | tree | snapshot
2024-08-19 Jim ProcterMerge branch 'develop' into feature/JAL-4446_cancellabl... commit | commitdiff | tree | snapshot
2024-08-19 Ben SoaresJAL-4428 localise function vars. Add -q -q option.... commit | commitdiff | tree | snapshot
2024-08-18 Ben SoaresJAL-4428 More coherent command line options and better... commit | commitdiff | tree | snapshot
2024-08-17 Ben SoaresJAL-4428 Added in stapling into (now) sign_and_staple_d... commit | commitdiff | tree | snapshot
2024-08-16 Ben SoaresJAL-4428 sign_dmg.sh with bells on commit | commitdiff | tree | snapshot
2024-08-16 Ben SoaresJAL-3631 Fix EnvConfig.getUserAppdir() in getdown when... commit | commitdiff | tree | snapshot
2024-08-15 Ben SoaresJAL-3631 Create a jalview_x_update link in appdir/bin... commit | commitdiff | tree | snapshot
2024-08-15 Ben SoaresMerge branch 'develop' into feature/JAL-3631_allow_jalv... commit | commitdiff | tree | snapshot
2024-08-15 Jim ProcterJAL-4386 JAL-4435 TODO and refactored TreeViewer constr... commit | commitdiff | tree | snapshot
2024-08-15 Jim ProcterJAL-1551 spotless commit | commitdiff | tree | snapshot
2024-08-13 Ben SoaresJAL-4111 Remove unnecessary dependency on gradle-imagem... commit | commitdiff | tree | snapshot
2024-08-12 Ben SoaresMerge branch 'develop' into feature/JAL-3631_allow_jalv... commit | commitdiff | tree | snapshot
2024-08-08 Ben SoaresJAL-3631 Better messaging and a root check on updating... commit | commitdiff | tree | snapshot
2024-08-08 Ben SoaresJAL-3631 Change name of update link in DMGs. Correct... commit | commitdiff | tree | snapshot
2024-08-07 Jim ProcterMerge branch 'feature/JAL-3631_allow_jalview_to_work_fr... commit | commitdiff | tree | snapshot
2024-08-07 Jim ProcterJAL-4447 standardised title formula for reporting score... commit | commitdiff | tree | snapshot
2024-08-07 Jim ProcterJAL-4446 reuse lasteta value commit | commitdiff | tree | snapshot
2024-08-07 Jim ProcterJAL-4159 JAL-789 report pasimap and pairwise alignment... commit | commitdiff | tree | snapshot
2024-08-07 Jim ProcterJAL-4159 suppress pairwise alignment display options... commit | commitdiff | tree | snapshot
2024-08-07 Jim ProcterJAL-4446 better reporting of ETA estimation - particula... commit | commitdiff | tree | snapshot
2024-08-06 Ben SoaresJAL-3631 Made bespoke command line arguments for consol... commit | commitdiff | tree | snapshot
2024-08-06 Ben SoaresJAL-3631 Added install4j installer command line options... commit | commitdiff | tree | snapshot
2024-08-06 Ben SoaresJAL-3631 Important change to Execution Level in Windows... commit | commitdiff | tree | snapshot
2024-08-06 Ben SoaresJAL-3631 Short sleep added to 100% progress on installe... commit | commitdiff | tree | snapshot
2024-08-06 Ben SoaresJAL-3631 An attempt to add a Reset to defaults button... commit | commitdiff | tree | snapshot
2024-08-06 Jim ProcterJAL-4446 avoid NPE when progress bar message is null commit | commitdiff | tree | snapshot
2024-08-06 Ben SoaresJAL-3631 Some small but important changes to run_other_... commit | commitdiff | tree | snapshot
2024-08-05 Ben SoaresJAL-3631 JAL-4444 Change way we add the jalview_x and... commit | commitdiff | tree | snapshot
2024-08-05 Ben SoaresJAL-3631 Icons for installer wizard title bar commit | commitdiff | tree | snapshot
2024-08-05 Ben SoaresJAL-3631 update.ps1 has fixed Readlink-f function,... commit | commitdiff | tree | snapshot
2024-08-05 Ben SoaresJAL-3631 Revert the Jalview installer icon back to... commit | commitdiff | tree | snapshot
2024-08-05 Jim ProcterJAL-1551 source formatting and header commit | commitdiff | tree | snapshot
2024-08-05 Jim ProcterJAL-4446 .. missing methods for cancellable pasimap commit | commitdiff | tree | snapshot
2024-08-05 Jim ProcterJAL-4446 cancellable Pasimap - still need to make the... commit | commitdiff | tree | snapshot
2024-08-05 Jim ProcterJAL-4446 calculate and report PaSiMap ETA in progress bar commit | commitdiff | tree | snapshot
2024-08-05 Jim ProcterJAL-4446 allow progress bar message to be changed whils... commit | commitdiff | tree | snapshot
2024-08-05 Jim ProcterJAL-1551 apply GPLv3 for source files commit | commitdiff | tree | snapshot
2024-08-05 Jim ProcterJAL-1551 gradle spotlessApply and doc tweaks commit | commitdiff | tree | snapshot
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