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jalview.git
2023-05-17 Ben SoaresMerge branch 'develop' into features/r2_11_2_alphafold... commit | commitdiff | tree | snapshot
2023-05-17 James ProcterJAL-4184 release notes commit | commitdiff | tree | snapshot
2023-05-17 James ProcterMerge branch 'patch/JAL-4184_description_stockholm... commit | commitdiff | tree | snapshot
2023-05-17 James ProcterJAL-4184 export description line in stockholm patch/JAL-4184_description_stockholm commit | commitdiff | tree | snapshot
2023-05-17 James ProcterJAL-4184 failing test for description export and re... commit | commitdiff | tree | snapshot
2023-05-16 Ben SoaresJAL-629 Finished documentation for new command lines. commit | commitdiff | tree | snapshot
2023-05-16 Ben SoaresJAL-629 Ensure precedence of named linked ID values... commit | commitdiff | tree | snapshot
2023-05-15 Ben SoaresJAL-629 More help text commit | commitdiff | tree | snapshot
2023-05-15 Ben SoaresRevert "JAL-629 Add a --threads argument to allow a... commit | commitdiff | tree | snapshot
2023-05-15 Ben SoaresJAL-629 Add a --threads argument to allow a limited... commit | commitdiff | tree | snapshot
2023-05-14 Ben SoaresJAL-629 add an {extension} substitution commit | commitdiff | tree | snapshot
2023-05-13 Ben SoaresJAL-629 launcher shell script uses jalview.bin.Launcher... commit | commitdiff | tree | snapshot
2023-05-12 Ben SoaresJAL-629 More docs commit | commitdiff | tree | snapshot
2023-05-12 Ben SoaresJAL-629 extra test for --output open*.ext when used... commit | commitdiff | tree | snapshot
2023-05-12 Ben SoaresJAL-629 Added --opened arg which is like limiting ... commit | commitdiff | tree | snapshot
2023-05-11 Ben SoaresJAL-629 Add some shortnames to args. Add Opt.OUTPUT... commit | commitdiff | tree | snapshot
2023-05-11 Ben SoaresJAL-629 Move clarguments documentation to default.... commit | commitdiff | tree | snapshot
2023-05-11 Ben SoaresJAL-629 Fix --tempfac. Hide non-working --notempfac... commit | commitdiff | tree | snapshot
2023-05-11 Ben SoaresJAL-629 Added linkedId to ArgValuesMap for reference... commit | commitdiff | tree | snapshot
2023-05-10 Ben SoaresJAL-629 Check Arg options for obtaining boolean or... commit | commitdiff | tree | snapshot
2023-05-10 Ben SoaresJAL-629 Catch a NPE, fix a test commit | commitdiff | tree | snapshot
2023-05-10 Ben SoaresJAL-629 More docs. Usage statement. Adjust some logging... commit | commitdiff | tree | snapshot
2023-05-09 Ben SoaresJAL-629 Add --seqid for non-subval use, make arg value... commit | commitdiff | tree | snapshot
2023-05-09 Ben SoaresJAL-629 update a subval for structureviewer in the... commit | commitdiff | tree | snapshot
2023-05-09 Ben SoaresJAL-629 more docs commit | commitdiff | tree | snapshot
2023-05-09 Ben SoaresJAL-629 change --renderer to --textrenderer to be more... commit | commitdiff | tree | snapshot
2023-05-05 Ben SoaresJAL-629 test fixes commit | commitdiff | tree | snapshot
2023-05-04 Ben SoaresJAL-629 Moved additional CommandLineOperationsNG tests... commit | commitdiff | tree | snapshot
2023-05-04 Ben SoaresJAL-629 More NG arguments: --features, --annotations... commit | commitdiff | tree | snapshot
2023-05-03 Ben SoaresJAL-629 a bit more documentation commit | commitdiff | tree | snapshot
2023-05-03 Ben SoaresJAL-629 added eps and imagemap. Added --output and... commit | commitdiff | tree | snapshot
2023-05-02 Ben SoaresJAL-629 Changed --newframe and --allframes to --new... commit | commitdiff | tree | snapshot
2023-05-02 Ben SoaresJAL-629 Add --renderer arg/subval for vector output... commit | commitdiff | tree | snapshot
2023-05-01 Ben SoaresJAL-629 fix lang label names after adjusting colour... commit | commitdiff | tree | snapshot
2023-05-01 Ben SoaresJAL-629 real life test for --allframes commit | commitdiff | tree | snapshot
2023-04-30 Ben SoaresJAL-629 Change behaviour of --open GLOB to increment... commit | commitdiff | tree | snapshot
2023-04-29 Ben SoaresJAL-629 Only log to console FAILED tests commit | commitdiff | tree | snapshot
2023-04-29 Ben SoaresJAL-629 Added --all arg, [*] linkedId and functionality... commit | commitdiff | tree | snapshot
2023-04-28 Ben SoaresJAL-629 Fixed the argfile1 after subval separator change commit | commitdiff | tree | snapshot
2023-04-28 Ben SoaresJAL-629 Fixed the argfiletests after subval separator... commit | commitdiff | tree | snapshot
2023-04-28 Ben SoaresJAL-629 Fixed the argfile after subval separator change commit | commitdiff | tree | snapshot
2023-04-28 Ben SoaresJAL-629 Change colour scheme shortnames to something... commit | commitdiff | tree | snapshot
2023-04-28 Ben SoaresJAL-4167 Now we don't fail testTasks on No Matching... commit | commitdiff | tree | snapshot
2023-04-27 Ben SoaresJAL-629 Part-way to honouring --tests argument commit | commitdiff | tree | snapshot
2023-04-27 Ben SoaresJAL-629 start of help text commit | commitdiff | tree | snapshot
2023-04-27 Ben SoaresJAL-629 changed args in tests commit | commitdiff | tree | snapshot
2023-04-27 Ben SoaresJAL-629 Fixed appending URLs commit | commitdiff | tree | snapshot
2023-04-27 Ben SoaresJAL-629 Changed --increment to --newframe to make sense... commit | commitdiff | tree | snapshot
2023-04-27 Ben SoaresJAL-629 allow opening URL as only argument(s) commit | commitdiff | tree | snapshot
2023-04-27 Ben SoaresJAL-4167 Added OVERALL summary to bash output commit | commitdiff | tree | snapshot
2023-04-26 Ben SoaresJAL-4167 Added colours to bash output commit | commitdiff | tree | snapshot
2023-04-26 Ben SoaresJAL-4167 Allow a test to run in multiple testTasks commit | commitdiff | tree | snapshot
2023-04-26 Ben SoaresJAL-629 shorter wait times for this test commit | commitdiff | tree | snapshot
2023-04-26 Ben SoaresJAL-4167 Adjustments to get clover to work with normal... commit | commitdiff | tree | snapshot
2023-04-26 Ben SoaresJAL-4167 Adjustments to get clover to work with normal... commit | commitdiff | tree | snapshot
2023-04-26 Ben SoaresJAL-4167 Adjustments to get clover to work commit | commitdiff | tree | snapshot
2023-04-26 Ben SoaresJAL-629 JAL-4167 Added args to tests. Fixed potential... commit | commitdiff | tree | snapshot
2023-04-24 Ben SoaresJAL-629 Add --nowebdiscovery. Distinguish arg=="open... commit | commitdiff | tree | snapshot
2023-04-24 Ben SoaresJAL-629 Put commandsTest.jvprops in the right place commit | commitdiff | tree | snapshot
2023-04-24 Ben SoaresJAL-629 loaded props from arg in failing build server... commit | commitdiff | tree | snapshot
2023-04-24 Ben SoaresJAL-629 Dynamic sleep in test, more diagnostics commit | commitdiff | tree | snapshot
2023-04-24 Ben SoaresJAL-629 Dynamic sleep in test commit | commitdiff | tree | snapshot
2023-04-24 Ben SoaresJAL-629 Move diagnostics to the right place commit | commitdiff | tree | snapshot
2023-04-24 Ben SoaresJAL-629 Diagnosis output for failing test commit | commitdiff | tree | snapshot
2023-04-24 Ben SoaresJAL-629 Count VISIBLE annotations for tests commit | commitdiff | tree | snapshot
2023-04-24 Ben SoaresJAL-629 attempt to fix tests on build server (more... commit | commitdiff | tree | snapshot
2023-04-23 Ben SoaresJAL-629 single threaded test for viewer window for... commit | commitdiff | tree | snapshot
2023-04-23 Ben SoaresJAL-629 even longer wait for viewer window for build... commit | commitdiff | tree | snapshot
2023-04-23 Ben SoaresJAL-629 longer wait for viewer window for build server commit | commitdiff | tree | snapshot
2023-04-23 Ben SoaresJAL-629 Change --open to --append and --opennew to... commit | commitdiff | tree | snapshot
2023-04-22 Ben SoaresJAL-629 Test and fix --annotation --ssannotation args... commit | commitdiff | tree | snapshot
2023-04-19 Ben SoaresJAL-629 Now showing temp fac and secondary structure... commit | commitdiff | tree | snapshot
2023-04-14 Ben SoaresJAL-629 Adding PAE and TFType at structure loading... commit | commitdiff | tree | snapshot
2023-04-12 Ben SoaresMerge branch 'develop' into features/r2_11_2_alphafold... commit | commitdiff | tree | snapshot
2023-04-12 Ben SoaresJAL-629 deleted test output file from repo commit | commitdiff | tree | snapshot
2023-04-12 Ben SoaresJAL-629 mild improvement to test commit | commitdiff | tree | snapshot
2023-04-12 Ben SoaresJAL-629 Fixed ~ based test for build server commit | commitdiff | tree | snapshot
2023-04-12 Ben SoaresJAL-629 Add substituteHomeDir to getDirname(). Tighten... commit | commitdiff | tree | snapshot
2023-04-12 Ben SoaresJAL-629 Put old -props back as will now use old parser commit | commitdiff | tree | snapshot
2023-04-12 Ben SoaresJAL-629 Fix non-multi string bootstrap arg bug. commit | commitdiff | tree | snapshot
2023-04-12 Ben SoaresJAL-629 setprop test disabled as feature is disabled commit | commitdiff | tree | snapshot
2023-04-12 Ben SoaresJAL-629 parse SubVals once with ArgValue. Ensure SubVal... commit | commitdiff | tree | snapshot
2023-04-12 Ben SoaresJAL-629 allow argfiles in argfiles, but avoid looping... commit | commitdiff | tree | snapshot
2023-04-12 Ben SoaresJAL-629 allow comments in argfiles '#' commit | commitdiff | tree | snapshot
2023-04-12 Ben SoaresJAL-629 DON'T use quotation marks in argfiles as they... commit | commitdiff | tree | snapshot
2023-04-05 Ben SoaresJAL-629 Tests for FileUtils. Tidying counter substituti... commit | commitdiff | tree | snapshot
2023-04-04 Ben SoaresJAL-629 more info in usage statement commit | commitdiff | tree | snapshot
2023-04-04 Ben SoaresJAL-629 Start of Usage statement commit | commitdiff | tree | snapshot
2023-04-04 Ben SoaresJAL-629 More consistent printing of --arguments. Exampl... commit | commitdiff | tree | snapshot
2023-04-04 Ben SoaresJAL-629 Remove debugging comment commit | commitdiff | tree | snapshot
2023-04-04 Ben SoaresJAL-629 --initsubstitutions as a bootstrap arg, new... commit | commitdiff | tree | snapshot
2023-04-03 Ben SoaresJAL-629 sort files from java glob for predictability... commit | commitdiff | tree | snapshot
2023-04-03 Ben SoaresJAL-629 Removed --headless to fix CommandsTest commit | commitdiff | tree | snapshot
2023-04-03 Ben SoaresJAL-629 added setprop. More filename based substitution... commit | commitdiff | tree | snapshot
2023-03-31 James ProcterMerge branch 'features/JAL-4134_treeviewerforcolumns... feature/JAL-4162_Read_and_write_Relaxed_PHYLIP_format new_feature/JAL-4019_ambiguous_base_colourscheme commit | commitdiff | tree | snapshot
2023-03-30 Ben SoaresJAL-629 More extensive tests with real files being... commit | commitdiff | tree | snapshot
2023-03-30 Ben SoaresJAL-629 fix bug for opening single named file with... commit | commitdiff | tree | snapshot
2023-03-30 Ben SoaresJAL-629 Don't use new ArgParser if there are no --args... commit | commitdiff | tree | snapshot
2023-03-30 Ben SoaresJAL-629 fix SubVals npe commit | commitdiff | tree | snapshot
2023-03-29 Ben SoaresJAL-629 extensive tests for ArgParser features commit | commitdiff | tree | snapshot
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