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JAL-629 fixes to help docs
2023-05-18 Ben SoaresJAL-629 fixes to help docs
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2023-05-17 Ben SoaresJAL-629 Tidy up tests and replaced methods before merge...
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2023-05-17 Ben SoaresJAL-629 Changed some old -arg to --arg in help docs...
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2023-05-17 Ben SoaresJAL-629 tidying the help docs
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2023-05-17 Ben SoaresJAL-629 delete stray files
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2023-05-17 Ben SoaresMerge branch 'develop' into features/r2_11_2_alphafold...
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2023-05-16 Ben SoaresJAL-629 Finished documentation for new command lines.
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2023-05-16 Ben SoaresJAL-629 Ensure precedence of named linked ID values...
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2023-05-15 Ben SoaresJAL-629 More help text
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2023-05-15 Ben SoaresRevert "JAL-629 Add a --threads argument to allow a...
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2023-05-15 Ben SoaresJAL-629 Add a --threads argument to allow a limited...
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2023-05-14 Ben SoaresJAL-629 add an {extension} substitution
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2023-05-13 Ben SoaresJAL-629 launcher shell script uses jalview.bin.Launcher...
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2023-05-12 Ben SoaresJAL-629 More docs
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2023-05-12 Ben SoaresJAL-629 extra test for --output open*.ext when used...
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2023-05-12 Ben SoaresJAL-629 Added --opened arg which is like limiting ...
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2023-05-11 Ben SoaresJAL-629 Add some shortnames to args. Add Opt.OUTPUT...
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2023-05-11 Ben SoaresJAL-629 Move clarguments documentation to default....
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2023-05-11 Ben SoaresJAL-629 Fix --tempfac. Hide non-working --notempfac...
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2023-05-11 Ben SoaresJAL-629 Added linkedId to ArgValuesMap for reference...
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2023-05-10 Ben SoaresJAL-629 Check Arg options for obtaining boolean or...
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2023-05-10 Ben SoaresJAL-629 Catch a NPE, fix a test
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2023-05-10 Ben SoaresJAL-629 More docs. Usage statement. Adjust some logging...
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2023-05-09 Ben SoaresJAL-629 Add --seqid for non-subval use, make arg value...
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2023-05-09 Ben SoaresJAL-629 update a subval for structureviewer in the...
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2023-05-09 Ben SoaresJAL-629 more docs
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2023-05-09 Ben SoaresJAL-629 change --renderer to --textrenderer to be more...
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2023-05-05 Ben SoaresJAL-629 test fixes
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2023-05-04 Ben SoaresJAL-629 Moved additional CommandLineOperationsNG tests...
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2023-05-04 Ben SoaresJAL-629 More NG arguments: --features, --annotations...
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2023-05-03 Ben SoaresJAL-629 a bit more documentation
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2023-05-03 Ben SoaresJAL-629 added eps and imagemap. Added --output and...
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2023-05-02 Ben SoaresJAL-629 Changed --newframe and --allframes to --new...
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2023-05-02 Ben SoaresJAL-629 Add --renderer arg/subval for vector output...
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2023-05-01 Ben SoaresJAL-629 fix lang label names after adjusting colour...
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2023-05-01 Ben SoaresJAL-629 real life test for --allframes
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2023-04-30 Ben SoaresJAL-629 Change behaviour of --open GLOB to increment...
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2023-04-29 Ben SoaresJAL-629 Only log to console FAILED tests
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2023-04-29 Ben SoaresJAL-629 Added --all arg, [*] linkedId and functionality...
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2023-04-28 Ben SoaresJAL-629 Fixed the argfile1 after subval separator change
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2023-04-28 Ben SoaresJAL-629 Fixed the argfiletests after subval separator...
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2023-04-28 Ben SoaresJAL-629 Fixed the argfile after subval separator change
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2023-04-28 Ben SoaresJAL-629 Change colour scheme shortnames to something...
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2023-04-28 Ben SoaresJAL-4167 Now we don't fail testTasks on No Matching...
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2023-04-27 Ben SoaresJAL-629 Part-way to honouring --tests argument
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2023-04-27 Ben SoaresJAL-629 start of help text
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2023-04-27 Ben SoaresJAL-629 changed args in tests
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2023-04-27 Ben SoaresJAL-629 Fixed appending URLs
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2023-04-27 Ben SoaresJAL-629 Changed --increment to --newframe to make sense...
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2023-04-27 Ben SoaresJAL-629 allow opening URL as only argument(s)
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2023-04-27 Ben SoaresJAL-4167 Added OVERALL summary to bash output
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2023-04-26 Ben SoaresJAL-4167 Added colours to bash output
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2023-04-26 Ben SoaresJAL-4167 Allow a test to run in multiple testTasks
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2023-04-26 Ben SoaresJAL-629 shorter wait times for this test
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2023-04-26 Ben SoaresJAL-4167 Adjustments to get clover to work with normal...
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2023-04-26 Ben SoaresJAL-4167 Adjustments to get clover to work with normal...
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2023-04-26 Ben SoaresJAL-4167 Adjustments to get clover to work
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2023-04-26 Ben SoaresJAL-629 JAL-4167 Added args to tests. Fixed potential...
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2023-04-24 Ben SoaresJAL-629 Add --nowebdiscovery. Distinguish arg=="open...
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2023-04-24 Ben SoaresJAL-629 Put commandsTest.jvprops in the right place
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2023-04-24 Ben SoaresJAL-629 loaded props from arg in failing build server...
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2023-04-24 Ben SoaresJAL-629 Dynamic sleep in test, more diagnostics
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2023-04-24 Ben SoaresJAL-629 Dynamic sleep in test
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2023-04-24 Ben SoaresJAL-629 Move diagnostics to the right place
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2023-04-24 Ben SoaresJAL-629 Diagnosis output for failing test
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2023-04-24 Ben SoaresJAL-629 Count VISIBLE annotations for tests
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2023-04-24 Ben SoaresJAL-629 attempt to fix tests on build server (more...
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2023-04-23 Ben SoaresJAL-629 single threaded test for viewer window for...
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2023-04-23 Ben SoaresJAL-629 even longer wait for viewer window for build...
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2023-04-23 Ben SoaresJAL-629 longer wait for viewer window for build server
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2023-04-23 Ben SoaresJAL-629 Change --open to --append and --opennew to...
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2023-04-22 Ben SoaresJAL-629 Test and fix --annotation --ssannotation args...
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2023-04-19 Ben SoaresJAL-629 Now showing temp fac and secondary structure...
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2023-04-14 Ben SoaresJAL-629 Adding PAE and TFType at structure loading...
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2023-04-12 Ben SoaresMerge branch 'develop' into features/r2_11_2_alphafold...
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2023-04-12 Ben SoaresJAL-629 deleted test output file from repo
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2023-04-12 Ben SoaresJAL-629 mild improvement to test
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2023-04-12 Ben SoaresJAL-629 Fixed ~ based test for build server
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2023-04-12 Ben SoaresJAL-629 Add substituteHomeDir to getDirname(). Tighten...
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2023-04-12 Ben SoaresJAL-629 Put old -props back as will now use old parser
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2023-04-12 Ben SoaresJAL-629 Fix non-multi string bootstrap arg bug.
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2023-04-12 Ben SoaresJAL-629 setprop test disabled as feature is disabled
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2023-04-12 Ben SoaresJAL-629 parse SubVals once with ArgValue. Ensure SubVals...
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2023-04-12 Ben SoaresJAL-629 allow argfiles in argfiles, but avoid looping...
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2023-04-12 Ben SoaresJAL-629 allow comments in argfiles '#'
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2023-04-12 Ben SoaresJAL-629 DON'T use quotation marks in argfiles as they...
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2023-04-05 Ben SoaresJAL-629 Tests for FileUtils. Tidying counter substitutions...
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2023-04-04 Ben SoaresJAL-629 more info in usage statement
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2023-04-04 Ben SoaresJAL-629 Start of Usage statement
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2023-04-04 Ben SoaresJAL-629 More consistent printing of --arguments. Example...
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2023-04-04 Ben SoaresJAL-629 Remove debugging comment
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2023-04-04 Ben SoaresJAL-629 --initsubstitutions as a bootstrap arg, new...
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2023-04-03 Ben SoaresJAL-629 sort files from java glob for predictability...
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2023-04-03 Ben SoaresJAL-629 Removed --headless to fix CommandsTest
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2023-04-03 Ben SoaresJAL-629 added setprop. More filename based substitutions...
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2023-03-30 Ben SoaresJAL-629 More extensive tests with real files being...
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2023-03-30 Ben SoaresJAL-629 fix bug for opening single named file with...
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2023-03-30 Ben SoaresJAL-629 Don't use new ArgParser if there are no --args...
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2023-03-30 Ben SoaresJAL-629 fix SubVals npe
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2023-03-29 Ben SoaresJAL-629 extensive tests for ArgParser features
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