jalview.git
2024-05-23 Jim ProcterJAL-4159 fix sense of console/alignment output suppress...
2024-05-23 Jim ProcterJAL-4159 disable the score model combo box when pasimap...
2024-05-23 MorellThomasFix PaSiMap not having the eigenvalues saved
2024-05-22 MorellThomasrevert build.gradle changes
2024-05-22 MorellThomasSave PaSiMap with Jalview Session
2024-05-22 MorellThomasRectanuglar selection changed to Mouse Button 3 drag
2024-05-21 Jim ProcterJAL-4259 set title using original alignment window... spike/JAL-4159_pasimap_2114_series
2024-05-21 Jim ProcterJAL-4159 implement bounds for PASIMAP calculation ...
2024-05-21 Jim ProcterJAL-4159 connectivity should be computed for the sequen...
2024-05-21 Jim ProcterJAL-4159 PASiMap currently doesn't support different...
2024-05-21 Jim ProcterJAL-4159 sometimes the progress bar may not be availabl...
2024-05-21 Jim ProcterMerge branch 'feature/JAL-4159_pasimap' into spike...
2024-05-16 Jim ProcterMerge branch 'develop' into feature/JAL-4159_pasimap
2024-05-16 Jim ProcterMerge branch 'feature/JAL-4386_calculate_tree_using_sec...
2024-05-16 Jim ProcterMerge branch 'develop' into feature/JAL-4386_calculate_...
2024-05-16 Jim ProcterJAL-4356 bump release date to today, release notes...
2024-05-15 Renia CorreyaJAL-4386 Fixed failed test case
2024-05-15 Jim ProcterMerge branch 'bug/JAL-4416_sview_not_shown_for_local_st...
2024-05-15 Renia CorreyaJAL-4386 Fixed failed test cases
2024-05-15 Jim ProcterJAL-4416 TODO for fixing JAL-4415 JAL-3124 - need a... bug/JAL-4416_sview_not_shown_for_local_strucfile
2024-05-15 Jim ProcterJAL-4416 ensure the structure view is shown and any...
2024-05-15 Jim ProcterJAL-4416 make sure the structure viewer is actually...
2024-05-15 Renia CorreyaJAL-4386 Added preferences for secondary structure...
2024-05-15 Jim ProcterMerge branch 'bug/JAL-4407_no_sec_str_from_draganddrop_...
2024-05-15 Renia CorreyaJAL-4386 - Implementation of retrieving secondary structure
2024-05-14 Ben SoaresJAL-4217 Upped the main testTask0 timeout to 15 minutes... improvement/JAL-4217_added_a_timeout_to_tests
2024-05-14 Jim ProcterJAL-4356 fix release note
2024-05-14 Jim ProcterJAL-4356 set release date to Weds 15th May and update...
2024-05-13 Jim ProcterJAL-4356 JAL-518 JAL-4413 release notes
2024-05-13 Jim ProcterMerge branch 'features/JAL-518_justify_seqs_in_region...
2024-05-13 Jim ProcterJAL-518 better test coverage and support for case prese... features/JAL-518_justify_seqs_in_region
2024-05-13 Jim ProcterJAL-518 failing test for case preservation on justify
2024-05-13 Renia CorreyaMerge remote-tracking branch 'origin/develop' into...
2024-05-13 Jim ProcterMerge branch 'develop' into features/JAL-518_justify_se...
2024-05-13 Jim ProcterJAL-4413 timeouts Merge branch 'improvement/JAL-4217_ad...
2024-05-13 Jim ProcterMerge branch 'develop' into features/JAL-518_justify_se...
2024-05-13 Renia CorreyaMerge branch 'feature/JAL-4386_calculate_tree_using_sec...
2024-05-13 Renia CorreyaJAL-4386 - Implementation of substitution matrix and...
2024-05-10 Jim ProcterJAL-4411 fix typo :(
2024-05-10 Jim ProcterJAL-4411 store class of provider in PDBEntry
2024-05-02 Ben SoaresJAL-4217 Sensible timeout for testTask0
2024-05-02 Ben SoaresJAL-4217 Added a timeout for testTasks. If timeout...
2024-05-01 Renia CorreyaMerge remote-tracking branch 'origin/bug/JAL-4407_no_se...
2024-05-01 Jim ProcterJAL-4407 don't transfer 'local' settings - leave as... bug/JAL-4407_no_sec_str_from_draganddrop_to_msa
2024-05-01 Jim ProcterJAL-4407 failing test checking for secondary structure...
2024-04-30 Renia CorreyaJAL-4392 Merging consensus secondary structure
2024-04-30 Renia CorreyaJAL-4386 Comparing secondary structure similarity direc...
2024-04-26 Renia CorreyaJAL-4386 Drop down for secondary structure sources...
2024-04-24 Renia CorreyaJAL-4386 PCA/Tree Calculation for Secondary Structures...
2024-04-18 MorellThomasMerge branch 'test/progressBar' into feature/JAL-4159_p...
2024-04-18 MorellThomasImplemented ProgressBar for PaSiMap
2024-04-16 Renia CorreyaJAL-4386 Calculate tree using secondary structure annot...
2024-04-12 MorellThomasinlcude progress
2024-04-09 James ProcterJAL-4159 recover 2.11.3 series gradle/build.properties... spike/JAL-4159_pasimap_2113_series
2024-04-09 James ProcterJAL-4390 don't output alignment to text panel and stdou...
2024-03-15 MorellThomasFix output of all dimensions
2024-03-15 MorellThomasAlogirthm working, but still giving slightly off results
2024-03-13 Renia CorreyaJAL-4386_Added changes in similarity score calculation...
2024-03-08 Renia CorreyaJAL-4386 Corrected failed test case.
2024-03-08 Renia CorreyaJAL-4386 Added further checks for sequences that have...
2024-03-08 Renia CorreyaJAL-4386 Calculate tree using secondary structure annot...
2024-03-07 MorellThomasInlcude 8 dimensions
2024-03-06 MorellThomasFix PaSiMap on selected sequences
2024-03-06 MorellThomasTest version to switch branches
2024-01-31 MorellThomasFix output points column labels
2024-01-23 James ProcterJAL-4356 release notes
2024-01-23 James ProcterJAL-4356 update release notes for 2.11.3.3
2024-01-23 James ProcterMerge branch 'bug/JAL-4290_headless_alignment_export_wi...
2024-01-23 James ProcterMerge branch 'develop' into bug/JAL-4290_headless_align...
2024-01-23 Ben SoaresJAL-4367 Limit right and top adjustments
2024-01-23 Ben SoaresJAL-4290 Fix image comparison between gui and headless...
2024-01-23 Ben SoaresJAL-4290 fixed tests
2024-01-23 Ben SoaresMerge branch 'bug/JAL-4353_cannot_output_multiple_diffe...
2024-01-23 Ben SoaresMerge branch 'develop' into bug/JAL-4353_cannot_output_...
2024-01-23 James ProcterMerge branch 'bug/JAL-4353_cannot_output_multiple_diffe...
2024-01-23 James ProcterJAL-4353 wait for files to be written fully before...
2024-01-23 James ProcterJAL-4353 singleThread all tests
2024-01-23 James ProcterJAL-4369 invokeAndWait to avoid hang whilst calling...
2024-01-23 James ProcterJAL-4369 uniprotkb - try to avoid another redirect...
2024-01-23 James ProcterJAL-4369 use rest.uniprot.org as fetch domain
2024-01-23 James ProcterMerge branch 'bug/JAL-4373_jvmmemmax_and_jvmmempc_ignor...
2024-01-23 James ProcterMerge branch 'bug/JAL-4368_default_colourscheme_applied...
2024-01-19 Ben SoaresJAL-4373 Setting the jvmmempc and jvmmemmax strings... bug/JAL-4373_jvmmemmax_and_jvmmempc_ignored_on_command_line_for_executable_jar_launch
2024-01-19 Ben SoaresJAL-4373 Fix Main-Class and other attribute settings...
2024-01-10 MorellThomasFixed PaSiMap output columns
2024-01-05 Ben SoaresJAL-4368 Only set a colour scheme if --colour is given... bug/JAL-4368_default_colourscheme_applied_to_JVP_inappropriately
2023-12-19 Ben SoaresJAL-4290 Fixed one test
2023-12-18 Ben SoaresJAL-4290 not quite working tests
2023-12-18 Ben SoaresJAL-4290 incorrect usage of main()
2023-12-15 Ben SoaresMerge branch 'bug/JAL-4290_headless_alignment_export_wi...
2023-12-15 Ben SoaresJAL-4290 Add method to allow for specific settings...
2023-12-15 Ben SoaresJAL-4290 Set structureSelectionManager settings more...
2023-12-15 James ProcterMerge branch 'bug/JAL-4290_headless_alignment_figure_wi...
2023-12-15 James ProcterJAL-4290 new CommandsTest.headlessOrGuiImageOutputTest... bug/JAL-4290_headless_alignment_figure_with_sse
2023-12-15 Ben SoaresJAL-4290 Move some annotation visibility settings to...
2023-12-14 James ProcterJAL-4356 update release notes
2023-12-14 James ProcterMerge branch 'bug/JAL-4353_cannot_output_multiple_diffe...
2023-12-14 James ProcterMerge branch 'bug/JAL-4353_cannot_output_multiple_diffe...
2023-12-14 James ProcterJAL-4353 wait for files to be written fully before...
2023-12-14 James ProcterJAL-4217 singleThread all tests
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