jalview.git
2024-05-31 Ben SoaresJAL-4421 Python script for customising DS_Store. Separ...
2024-05-29 Ben SoaresJAL-4409 Allow more URI schemes (e.g. file) to be opene...
2024-05-29 Ben SoaresJAL-4409 Allow more URI schemes (e.g. file) to filter...
2024-05-29 Ben SoaresJAL-4414 Add SocketTimeoutException to exceptions that...
2024-05-29 Ben SoaresJAL-3196 Need more memory for the install4j process...
2024-05-28 Ben SoaresJAL-4409 JAL-4160 Don't let getdown turn jalviewX:...
2024-05-28 Ben SoaresJAL-4417 Use a specified props file for consistent...
2024-05-28 Ben SoaresJAL-4409 TEMPORARY don't clean up image files from...
2024-05-28 Ben SoaresJAL-4409 Ensure the specific scheme jalviewx is only...
2024-05-28 Ben SoaresJAL-4409 Don't insist on HttpURLConnection, allows...
2024-05-27 Ben SoaresMerge branch 'develop' into improvement/JAL-4409_implem...
2024-05-21 Ben SoaresJAL-1054 Change one more (unused) url.openStream to...
2024-05-21 Ben SoaresJAL-1054 Change the rest of the url.openConnection...
2024-05-21 Ben SoaresJAL-4409 Adjust usage of HttpUtils.equivalentJalviewURL...
2024-05-21 Ben SoaresJAL-4409 Make HttpUtils.equivalentJalviewUrlString...
2024-05-21 Jim ProcterJAL-4356 release date for 2.11.3.3 is 22nd May 2025
2024-05-20 Ben SoaresJAL-4409 Also interpret jalviewX:// URIs in Jalview...
2024-05-20 Ben SoaresJAL-4397 Another fix on linux
2024-05-17 Ben SoaresJAL-4420 Add some debugging statements
2024-05-17 Ben SoaresJAL-4420 Tests for new FileUtils methods
2024-05-17 Ben SoaresJAL-4420 Allow preprocessing of arguments if they are...
2024-05-17 Ben SoaresJAL-4409 Checking getdown jars up to date
2024-05-17 Ben SoaresJAL-3409 Add newline back into Buffered Reader in getdo...
2024-05-17 Ben SoaresJAL-4409 corrected the umount of dmg to hdiutil detach...
2024-05-16 Ben SoaresJAL-4409 Added remote JVL files for Linux/Windows
2024-05-16 Ben SoaresJAL-4409 Added multiple file open to getdown. Added...
2024-05-16 Jim ProcterJAL-4356 release notes for JAL-3978 patch
2024-05-16 Jim ProcterMerge branch 'bug/JAL-3978_copy_bin_dir_to_getdownArchi...
2024-05-16 Ben SoaresJAL-3978 Add the bin dir to be copied from website... bug/JAL-3978_copy_bin_dir_to_getdownArchiveBuild_task
2024-05-16 Ben SoaresJAL-4409 Easier full install from source for macOS
2024-05-16 Ben SoaresJAL-4409 more places to check for jalviewd://
2024-05-16 Jim ProcterJAL-4418 bump release to 2.11.4.0
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 Ben SoaresJAL-4397 IdWidth tests slightly less restrictive for...
2024-05-15 Ben SoaresJAL-4409 extra schemes now opening correctly in macos
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 Ben SoaresJAL-4409 minor change for mac testing
2024-05-15 Ben SoaresJAL-4409 Updated getdown classes
2024-05-15 Ben SoaresJAL-4409 Refactoring to allow easier reuse of classes...
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-1054 JAL-4414 Tests for the HttpUtils redirect...
2024-05-14 Ben SoaresJAL-1054 Also recognise UnknownHostException as a file...
2024-05-14 Ben SoaresMerge branch 'develop' into improvement/JAL-4409_implem...
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 Ben SoaresJAL-1054 Tests for the HttpUtils redirection wrappers
2024-05-14 Ben SoaresMerge branch 'bug/JAL-4397_failing_idWidth_tests' into...
2024-05-14 Ben SoaresMerge branch 'develop' into bug/JAL-4397_failing_idWidt... bug/JAL-4397_failing_idWidth_tests
2024-05-14 Ben SoaresJAL-4414 Add a FileNotFoundException when identifying...
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 Ben SoaresJAL-1054 Fix wrappers for following http->https redirects
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 Ben SoaresMerge branch 'develop' into improvement/JAL-4409_implem...
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 Ben SoaresJAL-4409 Fix some file extensions (including remove...
2024-05-13 Ben SoaresJAL-1054 Add wrappers for URL.openConnection(), URL...
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
2024-05-10 Ben SoaresJAL-4409 Add jalviewhttp and jalviewhttps schemes to...
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...
2024-04-27 Ben SoaresJAL-4397 Removed debugging statement
2024-04-26 Ben SoaresJAL-4397 Adjustments for macOS HiDPI
2024-04-26 Ben SoaresJAL-4397 Test all fixed on linux. Given leeway to...
2024-04-26 Renia CorreyaJAL-4386 Drop down for secondary structure sources...
2024-04-24 Renia CorreyaJAL-4386 PCA/Tree Calculation for Secondary Structures...
2024-04-22 Ben SoaresJAL-4397 Allow some leeway in automatically calculated...
2024-04-18 Ben SoaresJAL-4397 fixed testresetIdWidth() test on macos
2024-04-16 Renia CorreyaJAL-4386 Calculate tree using secondary structure annot...
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...
2024-01-23 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
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