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Merge branch 'releases/Release_2_11_4_Branch'
[jalview.git] / src / jalview / util /
7 days ago Ben SoaresJAL-4461 Move SwingUtils to darrylbu.util.SwingUtils... improvement/JAL-4461_select_format_from_extension tree | commitdiff
11 days ago Ben SoaresJAL-4461 Added a dynamic tooltip to give more informati... tree | commitdiff
2024-09-02 Ben SoaresJAL-1054 Add option to always follow redirects and... bug/JAL-1054_broken_test tree | commitdiff
2024-08-28 Jim ProcterMerge branch 'feature/JAL-3631_allow_jalview_to_work_fr... tree | commitdiff
2024-08-22 Ben SoaresJAL-4449 Changed HttpUtils.followConnection(conn0)... tree | commitdiff
2024-08-16 Ben SoaresJAL-3631 Fix EnvConfig.getUserAppdir() in getdown when... tree | commitdiff
2024-08-05 Jim ProcterJAL-1551 apply GPLv3 for source files tree | commitdiff
2024-08-05 Jim ProcterJAL-1551 gradle spotlessApply and doc tweaks tree | commitdiff
2024-07-31 Ben SoaresJAL-3631 Changes to Getdown to call getdown-launcher... tree | commitdiff
2024-07-01 Ben SoaresJAL-3631 Harden defence against looping getdown relaunc... tree | commitdiff
2024-06-27 Ben SoaresJAL-3631 Log4j logging to .jalview.log file when reques... tree | commitdiff
2024-06-25 Ben SoaresJAL-3631 JAL-3384 Install4j launch now redirects STDOUT... tree | commitdiff
2024-06-25 Ben SoaresJAL-3631 Change parity of comparison for convention tree | commitdiff
2024-06-24 Ben SoaresJAL-3631 Check Implementation-Version of getdown-launch... tree | commitdiff
2024-06-21 Ben SoaresJAL-4409 Add two empty args to getdown call from instal... tree | commitdiff
2024-06-18 Ben SoaresJAL-3631 Substantial additions to Getdown (through... tree | commitdiff
2024-06-12 Ben SoaresJAL-3631 Name changes to system properties and a fallba... tree | commitdiff
2024-06-06 Ben SoaresJAL-4420 Added some more filename extensions tree | commitdiff
2024-06-05 Ben SoaresJAL-4420 Allow associated files to be dragged on separa... tree | commitdiff
2024-06-05 Ben SoaresJAL-4409 Small refactoring of ArgParserUtils to allow... tree | commitdiff
2024-05-29 Ben SoaresJAL-4409 Allow more URI schemes (e.g. file) to filter... tree | commitdiff
2024-05-28 Ben SoaresJAL-4409 JAL-4160 Don't let getdown turn jalviewX:... tree | commitdiff
2024-05-28 Ben SoaresJAL-4409 Don't insist on HttpURLConnection, allows... tree | commitdiff
2024-05-27 Ben SoaresMerge branch 'develop' into improvement/JAL-4409_implem... tree | commitdiff
2024-05-21 Ben SoaresJAL-4409 Make HttpUtils.equivalentJalviewUrlString... tree | commitdiff
2024-05-20 Ben SoaresJAL-4409 Also interpret jalviewX:// URIs in Jalview... tree | commitdiff
2024-05-17 Ben SoaresJAL-4420 Allow preprocessing of arguments if they are... tree | commitdiff
2024-05-15 Ben SoaresJAL-4409 Refactoring to allow easier reuse of classes... tree | commitdiff
2024-05-13 Ben SoaresJAL-1054 Fix wrappers for following http->https redirects tree | commitdiff
2024-05-13 Ben SoaresJAL-1054 Add wrappers for URL.openConnection(), URL... tree | commitdiff
2024-05-13 Renia CorreyaJAL-4386 - Implementation of substitution matrix and... tree | commitdiff
2023-12-06 Ben SoaresJAL-4353 re-used random color code tree | commitdiff
2023-12-06 Ben SoaresJAL-4353 Preserve the user given 'linkedId' with ArgVal... tree | commitdiff
2023-12-06 Ben SoaresJAL-4353 Add a 'random' colour to produce a random... tree | commitdiff
2023-11-13 James ProcterJAL-4090 JAL-1551 source license tree | commitdiff
2023-11-03 James ProcterJAL-4090 JAL-1551 spotlessApply tree | commitdiff
2023-09-25 James ProcterJAL-3858 report PAE range with sensible precision tree | commitdiff
2023-09-21 James ProcterJAL-1551 javadoc for mapUtils tree | commitdiff
2023-09-13 Ben SoaresJAL-4274 Use Cache BITMAP_* if no other image restricti... tree | commitdiff
2023-09-13 Ben SoaresJAL-4262 Made deprecation warning properly modal bug/JAL-4277_dirname_substitution_always_absolute tree | commitdiff
2023-09-11 Ben SoaresMerge branch 'improvement/JAL-4262_deprecation_warning_... tree | commitdiff
2023-09-11 Ben SoaresJAL-4277 --mkdirs with cautious refusal for paths with .. tree | commitdiff
2023-09-08 Ben SoaresMerge branch 'bug/JAL-4277_dirname_substitution_always_... tree | commitdiff
2023-09-08 Ben SoaresJAL-4262 Dialog for GUI and WARN for CLI of old style... tree | commitdiff
2023-09-07 Ben SoaresMerge branch 'develop' into bug/JAL-4277_dirname_substi... tree | commitdiff
2023-09-07 Ben SoaresJAL-4277 Corrected choice of all or last opened linkedI... tree | commitdiff
2023-09-07 James ProcterJAL-4090 JAL-4160 JAL-4274 image export dimensions... tree | commitdiff
2023-08-23 Ben SoaresMerge branch 'improvement/JAL-4250_secondary_structure_... tree | commitdiff
2023-08-23 Ben SoaresJAL-4250 Simplification of polygons and adjustments... tree | commitdiff
2023-08-17 Ben SoaresMerge branch 'feature/JAL-629_--output_-_means_output_t... tree | commitdiff
2023-08-16 Ben SoaresMerge branch 'develop' into improvement/JAL-3830_remove... tree | commitdiff
2023-08-16 Ben SoaresJAL-3820 JAL-4189 Move checks for java executable symli... tree | commitdiff
2023-08-10 Ben SoaresJAL-629 Change all stdout and stderr output to use... tree | commitdiff
2023-08-09 Ben SoaresJAL-629 Move more stdout messages to stderr when output... tree | commitdiff
2023-07-20 James ProcterJAL-3855 auto select clusters and fix up colouring... tree | commitdiff
2023-06-22 Ben SoaresMerge branch 'develop' into task/JAL-4001_Plausible_API tree | commitdiff
2023-06-22 Ben SoaresJAL-4019 corrected to '>' to '>=' for percentage compar... bug/JAL-4125_flatlaf_quithandler_external_structureviewers_not_closed tree | commitdiff
2023-06-22 Ben SoaresJAL-4001 Release_2_11_2 branch with Plausible analytics tree | commitdiff
2023-06-21 Ben SoaresJAL-4001 Rationalise user-agent string into HttpUtils tree | commitdiff
2023-05-25 Ben SoaresJAL-4186 Turn JvOptionPane Callable<Void> handlers... tree | commitdiff
2023-05-22 Ben SoaresJAL-629 --structureimage with formatting args. tree | commitdiff
2023-05-19 Ben SoaresJAL-629 Added Arg.Types and additional --help-type... tree | commitdiff
2023-05-14 Ben SoaresJAL-629 add an {extension} substitution tree | commitdiff
2023-05-11 Ben SoaresJAL-629 Fix --tempfac. Hide non-working --notempfac... tree | commitdiff
2023-04-23 Ben SoaresJAL-629 Change --open to --append and --opennew to... tree | commitdiff
2023-04-12 Ben SoaresJAL-629 Add substituteHomeDir to getDirname(). Tighten... tree | commitdiff
2023-04-03 Ben SoaresJAL-629 sort files from java glob for predictability... tree | commitdiff
2023-04-03 Ben SoaresJAL-629 added setprop. More filename based substitution... tree | commitdiff
2023-03-30 Ben SoaresJAL-629 More extensive tests with real files being... tree | commitdiff
2023-03-29 Ben SoaresJAL-629 Added --opennew --nonews --nosplash. Added... tree | commitdiff
2023-03-17 Ben SoaresJAL-629 All applications System.exits going through... tree | commitdiff
2023-03-15 Ben SoaresJAL-629 Commands more objecty, less classy. FileLoader... tree | commitdiff
2023-03-10 Ben SoaresJAL-629 start of tests and more examples tree | commitdiff
2023-03-09 Ben SoaresJAL-629 --argfile=glob implemented. Remove reference... tree | commitdiff
2023-03-08 Ben SoaresJAL-629 improved comment and return speed of StringUtil... tree | commitdiff
2023-02-26 Ben SoaresJAL-629 PAE matrix file guesstimate from filename tree | commitdiff
2023-02-22 Ben SoaresMerge branch 'develop' into features/r2_11_2_alphafold... tree | commitdiff
2023-02-16 James ProcterMerge branch 'features/r2_11_2_alphafold/JAL-629' into... tree | commitdiff
2023-02-03 Ben SoaresJAL-629 Fasta sequence id reading whitespace fix. Flexi... tree | commitdiff
2023-02-03 James ProcterJAL-1551 remove temp file in src tree | commitdiff
2023-02-03 James ProcterMerge branch 'develop' into features/r2_11_2_alphafold... tree | commitdiff
2023-01-25 James ProcterJAL-4116 relegate the failed to promote warning to... tree | commitdiff
2023-01-25 James ProcterJAL-4116 relegate the failed to promote warning to... tree | commitdiff
2023-01-25 James ProcterMerge branch 'new_feature/JAL-4019_ambiguous_base_colou... tree | commitdiff
2023-01-24 James ProcterMerge branch 'merge/JAL-1988_JAL-3772+JAL-3416+JAL... tree | commitdiff
2023-01-24 James ProcterMerge branch 'develop' (JAL-4102 2.11.2.6 patch release... features/r2_11_2_alphafold/JAL-2349_JAL-3855 tree | commitdiff
2023-01-20 Jim ProcterJAL-2353 primary ref candidates that should be promoted... patch/Release_2_11_2_6_Branch tree | commitdiff
2022-11-16 Ben SoaresJAL-4019 finalised a boolean option and tidied some... tree | commitdiff
2022-11-14 Ben SoaresJAL-4019 Make diagnostic message debug level tree | commitdiff
2022-11-13 Ben SoaresJAL-4019 improvement to short sequence nucleotide detec... tree | commitdiff
2022-11-10 Ben SoaresJAL-4019 Nucleotide Ambiguity Colour Scheme added.... tree | commitdiff
2022-11-03 Ben SoaresJAL-1988 JAL-3772 Tidying of unspecified Callable decla... tree | commitdiff
2022-10-24 Ben SoaresJAL-1988 JAL-3772 Non-blocking modal dialogs for unsave... tree | commitdiff
2022-10-14 Jim ProcterMerge branch 'features/JAL-3895_alphafoldcolours' into... tree | commitdiff
2022-08-08 Jim ProcterMerge branch 'task/JAL-3991_check_actual_JAVA_VERSION_a... tree | commitdiff
2022-06-10 Jim ProcterMerge branch 'features/r2_11_2_alphafold/JAL-2349_JAL... tree | commitdiff
2022-04-06 Ben SoaresJAL-3991 JAVA_COMPILE_VERSION put into build_properties... tree | commitdiff
2022-03-18 Ben SoaresJAL-3978 New tasks to build archive 'old' dir with... tree | commitdiff
2022-03-08 Jim ProcterJAL-3746 apply copyright to source tree | commitdiff
2022-03-08 Jim ProcterJAL-3438 spotless for 2.11.2.0 tree | commitdiff
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