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jalview.git
2022-03-04 Jim ProcterJAL-3746 JAL-3812 new argument ‘-nohtmltemplates’ and... commit | commitdiff | tree | snapshot
2022-03-04 Jim ProcterJAL-3746 JAL-3813 NOIDENTIFIERSSERVICE preference disab... commit | commitdiff | tree | snapshot
2022-03-04 Jim ProcterJAL-3746 JAL-3814 don’t automatically launch the news... commit | commitdiff | tree | snapshot
2022-03-04 Jim ProcterJAL-3746 JAL-3814 NONEWS property commit | commitdiff | tree | snapshot
2022-03-04 Jim ProcterJAL-3608 JAL-3830 tweaked the what’s new text and updat... commit | commitdiff | tree | snapshot
2022-03-04 Jim ProcterJAL-3608 JAL-3830 simplified command line docs a bit commit | commitdiff | tree | snapshot
2022-03-04 Jim ProcterMerge branch 'doc/JAL-3608+JAL-3830_added_to_help_docs... commit | commitdiff | tree | snapshot
2022-03-04 Ben SoaresJAL-3830 added command line to whatsnew and releases commit | commitdiff | tree | snapshot
2022-03-04 Ben SoaresJAL-3830 Added new command line usage to docs commit | commitdiff | tree | snapshot
2022-03-04 Ben SoaresJAL-3608 added to LaF documentation commit | commitdiff | tree | snapshot
2022-03-03 Ben SoaresJAL-3830 fix broken/buggy install4j9 setting of execute... commit | commitdiff | tree | snapshot
2022-03-02 Jim ProcterMerge branch 'bug/JAL-3962_awt_dll_problem' into develop commit | commitdiff | tree | snapshot
2022-03-02 Jim ProcterJAL-3746 release notes for JAL-3867 commit | commitdiff | tree | snapshot
2022-03-02 Jim ProcterJAL-3746 release note for JAL-3907 building Jalview... commit | commitdiff | tree | snapshot
2022-03-02 Jim ProcterJAL-3746 release note for JAL-3618 Vaqua config so... commit | commitdiff | tree | snapshot
2022-03-02 Jim ProcterMerge branch 'benreview/JAL-3691_for_2_11_2_getdownrebu... commit | commitdiff | tree | snapshot
2022-03-02 Jim ProcterJAL-3594 release notes and mention jalview develop... commit | commitdiff | tree | snapshot
2022-03-02 Jim ProcterRelease notes for JAL—3728 - waiting for ben to sign... commit | commitdiff | tree | snapshot
2022-03-02 Jim ProcterJAL-3208 release notes and docs for setprop commit | commitdiff | tree | snapshot
2022-03-02 Jim ProcterJAL-3746 release notes and cli arg docs for JAL-3530 commit | commitdiff | tree | snapshot
2022-03-02 Ben SoaresJAL-3691 bumped the version to 1.8.3-1.2.12 in source... benreview/JAL-3691_for_2_11_2_getdownrebuilds commit | commitdiff | tree | snapshot
2022-03-02 Jim ProcterJAL-3746 release notes JAL-3391 JAL-3829 improved 3dbea... commit | commitdiff | tree | snapshot
2022-03-02 Jim ProcterJAL-3746 release notes for JAL-3929 commit | commitdiff | tree | snapshot
2022-03-02 Jim ProcterJAL-3746 more what’s new commit | commitdiff | tree | snapshot
2022-03-02 Jim ProcterJAL-3619 fix up error messages and try to bail quietly... commit | commitdiff | tree | snapshot
2022-03-02 Jim ProcterJAL-3619 fix up warning message and minimal patch to... commit | commitdiff | tree | snapshot
2022-03-02 Ben SoaresJAL-3962 Added jre/bin and dist folders to the native... commit | commitdiff | tree | snapshot
2022-03-02 Ben SoaresJAL-3130 updated download_jres.sh commit | commitdiff | tree | snapshot
2022-03-02 Jim ProcterJAL-3746 what’s new.. commit | commitdiff | tree | snapshot
2022-03-02 Jim ProcterJAL-3746 release notes for JAL-3202 (JalviewJS) commit | commitdiff | tree | snapshot
2022-03-02 Jim ProcterJAL-3746 update release date and release notes/docs... commit | commitdiff | tree | snapshot
2022-02-28 Jim ProcterJAL-3746 more what’s new and release notes commit | commitdiff | tree | snapshot
2022-02-28 Jim ProcterJAL-3503 2.11.2.0 release notes and docs commit | commitdiff | tree | snapshot
2022-02-28 Jim ProcterJAL-3746 JAL-3551 update pymol docs and what’s new... commit | commitdiff | tree | snapshot
2022-02-28 Jim ProcterJAL-3746 document -no-annotation cli arg commit | commitdiff | tree | snapshot
2022-02-23 Jalview Development... Merge branch 'improvement/JAL-3830_install4j9_macos_set... commit | commitdiff | tree | snapshot
2022-02-23 Jalview Development... JAL-3830 temporarily disable the setup screen for OSX... commit | commitdiff | tree | snapshot
2022-02-23 Jalview Development... JAL-3796 additional steps for notarization commit | commitdiff | tree | snapshot
2022-02-17 Jim ProcterMerge branch 'develop' into improvement/JAL-3830_instal... commit | commitdiff | tree | snapshot
2022-02-17 Jim ProcterJAL-3551 patch superpose test for additional undo dis... commit | commitdiff | tree | snapshot
2022-02-17 Jim ProcterJAL-3823 JAL-3830 update gradle plugin for install4j... commit | commitdiff | tree | snapshot
2022-02-17 Jim ProcterMerge branch 'develop' into improvement/JAL-3830_instal... commit | commitdiff | tree | snapshot
2022-02-17 Jim ProcterJAL-3959 add key retrieval urls that support CORS neede... commit | commitdiff | tree | snapshot
2022-02-17 Jim ProcterJAL-3746 more release notes and docs: JAL-3863 JAL... commit | commitdiff | tree | snapshot
2022-02-17 Jim ProcterJAL-3691 rebuilt getdown jars commit | commitdiff | tree | snapshot
2022-02-17 Jim ProcterJAL-3691 patch toUpper/toLower to use Locale.ROOT for... commit | commitdiff | tree | snapshot
2022-02-17 Jim ProcterJAL-3691 patch toUpper/toLower to use Locale.ROOT for... commit | commitdiff | tree | snapshot
2022-02-16 Jim ProcterJAL-3746 release notes.. in progress commit | commitdiff | tree | snapshot
2022-02-16 Jim ProcterJAL-3551 - wrap pair_fit with undo_disable and undo_enable commit | commitdiff | tree | snapshot
2022-02-16 Jim ProcterJAL-3837 GPL license on splashscreen (finally !) and... commit | commitdiff | tree | snapshot
2022-02-16 Jim ProcterJAL-3949 report Pymol XMLRPC port via log.info commit | commitdiff | tree | snapshot
2022-02-15 Jim ProcterJAL-1761 backbone type parameter for configuring which... commit | commitdiff | tree | snapshot
2022-02-15 Jim ProcterJAL-1761 need to pass molecule type when generating... commit | commitdiff | tree | snapshot
2022-02-15 Jim ProcterJAL-3551 patch test for altloc handling atom spec in... commit | commitdiff | tree | snapshot
2022-02-15 Jim ProcterJAL-1761 need to pass molecule type when generating... commit | commitdiff | tree | snapshot
2022-02-15 Jim ProcterJAL-3906 use indicate to highlight current mousedOver... commit | commitdiff | tree | snapshot
2022-02-15 Jim ProcterJAL-3746 update release date to later in Feb 2022 commit | commitdiff | tree | snapshot
2022-02-15 Jim ProcterJAL-3551 pymol documentation commit | commitdiff | tree | snapshot
2022-02-14 Jim ProcterMerge branch 'task/r_2_11_2/JAL-3956_alphaFill_authorit... commit | commitdiff | tree | snapshot
2022-02-14 Jim ProcterJAL-3551 commit | commitdiff | tree | snapshot
2022-02-14 Jim ProcterJAL-3956 - PDBEntry objects constructed from 3D-Beacons... commit | commitdiff | tree | snapshot
2022-02-12 Jim ProcterMerge branch 'update/JAL-3949_jalview_bin_Console_to_cu... commit | commitdiff | tree | snapshot
2022-02-12 Ben SoaresJAL-3949 fix testProps path and make line count more... update/JAL-3949_jalview_bin_Console_to_cure_sanity_even_more commit | commitdiff | tree | snapshot
2022-02-11 Jim ProcterJAL-3949 increase command line ops test timeout commit | commitdiff | tree | snapshot
2022-02-11 Jim ProcterJAL-3949 ensure Jalview command line ops setup actually... commit | commitdiff | tree | snapshot
2022-02-11 Jim ProcterMerge branch 'update/JAL-3949_jalview_bin_Console_to_cu... commit | commitdiff | tree | snapshot
2022-02-11 Jim ProcterJAL-3931 fix - escape % symbols after urlencoding commit | commitdiff | tree | snapshot
2022-02-11 Ben SoaresMerge branch 'update/JAL-3949_jalview_bin_Console_to_cu... commit | commitdiff | tree | snapshot
2022-02-11 Ben SoaresJLogger loglevel check on whether to call the actual... commit | commitdiff | tree | snapshot
2022-02-11 Jim ProcterJAL-3949 - refactor logging from jalview.bin.Cache... commit | commitdiff | tree | snapshot
2022-02-11 Ben SoaresJAL-3949 fixed failing commandlinetests due to more... commit | commitdiff | tree | snapshot
2022-02-11 Ben SoaresJAL-3949 added Java Console autoscrolling help paragraph commit | commitdiff | tree | snapshot
2022-02-11 Ben SoaresJAL-3949 read ~/.jalview_properties before initialising... commit | commitdiff | tree | snapshot
2022-02-11 Ben SoaresMerge branch 'develop' into update/JAL-3949_abstracted_... commit | commitdiff | tree | snapshot
2022-02-11 Ben SoaresJAL-3949 Complete new abstracted logging framework... commit | commitdiff | tree | snapshot
2022-02-10 Jim ProcterMerge branch 'bug/JAL-3523_cwd_not_preserved' into... commit | commitdiff | tree | snapshot
2022-02-07 Jim ProcterJAL-3186 remove ‘Variable Colour’ from the sequence... commit | commitdiff | tree | snapshot
2022-02-04 Ben SoaresJAL-3949 An attempt at converting to Log4j 2 -- no... commit | commitdiff | tree | snapshot
2022-02-04 Jim ProcterMerge branch 'bug/JAL-3806_mappingCoversSequence_for211... bug/JAL-3806_without_shared_DS_for_2_11_2 commit | commitdiff | tree | snapshot
2022-02-04 Jim ProcterJAL-3806 JAL-3725 update tests since CDS mappings now... commit | commitdiff | tree | snapshot
2022-02-04 Jim ProcterJAL-3806 require mapping extent covers both sequence... commit | commitdiff | tree | snapshot
2022-02-03 Ben SoaresJAL-3949 upgraded log4j to 2.17.1 (no actual known... commit | commitdiff | tree | snapshot
2022-02-03 Jim ProcterJAL-3806 use the covers() test for each selected sequen... commit | commitdiff | tree | snapshot
2022-02-03 Jim ProcterJAL-3806 use same logic as for mouse over highlighting... commit | commitdiff | tree | snapshot
2022-02-03 Jim ProcterJAL-3806 todo - problem seems to be Protein:Many CDS... commit | commitdiff | tree | snapshot
2022-02-03 Jim ProcterJAL-2305 comments re testFindXrefSequences_withFetch... commit | commitdiff | tree | snapshot
2022-01-29 Ben SoaresJAL-3830 JAL-3420 added new jvl_file to install4j9... commit | commitdiff | tree | snapshot
2022-01-29 Ben SoaresMerge branch 'develop' into improvement/JAL-3830_instal... commit | commitdiff | tree | snapshot
2022-01-28 Ben SoaresMerge branch 'develop' into improvement/JAL-3420_match_... commit | commitdiff | tree | snapshot
2022-01-28 Ben Soaresnew jvl_file svg, png, ico and icns files, and changed... commit | commitdiff | tree | snapshot
2022-01-28 Jim ProcterJAL-3137 tests are for linux only commit | commitdiff | tree | snapshot
2022-01-28 Jim ProcterMerge branch 'merge/develop_JAL-3725' into develop commit | commitdiff | tree | snapshot
2022-01-27 Jim ProcterMerge branch 'bug/JAL-3633_read_proxy_settings_from_jal... commit | commitdiff | tree | snapshot
2022-01-26 Jim ProcterJAL-3763 (for whatever reason) need to increase timeout... commit | commitdiff | tree | snapshot
2022-01-26 Jim ProcterJAL-3746 note about adding JAL-3700,JAL-3751,JAL-3763... commit | commitdiff | tree | snapshot
2022-01-26 Jim ProcterMerge branch 'merge/develop_task/JAL-3763_newDatasetFor... commit | commitdiff | tree | snapshot
2022-01-26 Jim ProcterJAL-3763 (for whatever reason) need to increase timeout... merge/develop_task/JAL-3763_newDatasetForCds commit | commitdiff | tree | snapshot
2022-01-26 Jim ProcterMerge branch 'task/JAL-3763_newDatasetForCds' into... commit | commitdiff | tree | snapshot
2022-01-26 gmungocJAL-3806 (2.11.2 version) more lax allowance (3 positio... commit | commitdiff | tree | snapshot
2022-01-26 Jim ProcterJAL-3806 JAL-3725 propagate relaxed criteria for stop... commit | commitdiff | tree | snapshot
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