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jalview.git
2024-06-06 Jim ProcterJAL-4428 added the signing and stapling scripts - not... commit | commitdiff | tree | snapshot
2024-06-05 Ben SoaresMerge branch 'develop' into bug/JAL-4421_customise_volu... commit | commitdiff | tree | snapshot
2024-06-05 Ben SoaresJAL-4421 Downgrading ds_store to 1.3.0 for build server... commit | commitdiff | tree | snapshot
2024-06-05 Ben SoaresJAL-4421 Configuration for positioning icons in DMG commit | commitdiff | tree | snapshot
2024-06-05 Ben SoaresJAL-4421 Add --appname --appxpos --appypos to position... commit | commitdiff | tree | snapshot
2024-06-04 Ben SoaresJAL-4421 Remove the disk_image_alias from the backgroun... commit | commitdiff | tree | snapshot
2024-06-04 Ben SoaresJAL-4421 Allow JSON config file to be options (no icon... commit | commitdiff | tree | snapshot
2024-06-04 Jim ProcterJAL-4418 first development release for 2.11.4.0 - relea... commit | commitdiff | tree | snapshot
2024-06-04 Jim ProcterMerge branch 'feature/JAL-4159_pasimap' into develop commit | commitdiff | tree | snapshot
2024-06-04 Jim ProcterMerge branch 'releases/Release_2_11_3_Branch' into... commit | commitdiff | tree | snapshot
2024-06-04 Ben SoaresJAL-4421 Put correct VolumeIcon.icns file onto DMG... commit | commitdiff | tree | snapshot
2024-06-03 Ben SoaresJAL-4421 Icns to use as .VolumeIcon.icns in DMG volumes... commit | commitdiff | tree | snapshot
2024-06-03 Ben SoaresJAL-4421 Also add DMG filename to python script. Necess... commit | commitdiff | tree | snapshot
2024-05-31 Ben SoaresJAL-4421 Add DS_Store customisation to gradle. Add... commit | commitdiff | tree | snapshot
2024-05-31 Ben SoaresJAL-4421 Python script for customising DS_Store. Separ... commit | commitdiff | tree | snapshot
2024-05-29 Ben SoaresJAL-4409 Allow more URI schemes (e.g. file) to be opene... commit | commitdiff | tree | snapshot
2024-05-29 Ben SoaresJAL-4409 Allow more URI schemes (e.g. file) to filter... commit | commitdiff | tree | snapshot
2024-05-29 Ben SoaresJAL-4414 Add SocketTimeoutException to exceptions that... commit | commitdiff | tree | snapshot
2024-05-29 Ben SoaresJAL-3196 Need more memory for the install4j process... commit | commitdiff | tree | snapshot
2024-05-28 Ben SoaresJAL-4409 JAL-4160 Don't let getdown turn jalviewX:... commit | commitdiff | tree | snapshot
2024-05-28 Ben SoaresJAL-4417 Use a specified props file for consistent... commit | commitdiff | tree | snapshot
2024-05-28 Ben SoaresJAL-4409 TEMPORARY don't clean up image files from... commit | commitdiff | tree | snapshot
2024-05-28 Ben SoaresJAL-4409 Ensure the specific scheme jalviewx is only... commit | commitdiff | tree | snapshot
2024-05-28 Ben SoaresJAL-4409 Don't insist on HttpURLConnection, allows... commit | commitdiff | tree | snapshot
2024-05-27 Ben SoaresMerge branch 'develop' into improvement/JAL-4409_implem... commit | commitdiff | tree | snapshot
2024-05-24 Jim ProcterJAL-4159 fix up test for applicable filters for pasimap feature/JAL-4159_pasimap commit | commitdiff | tree | snapshot
2024-05-24 Jim ProcterJAL-4159 fix PairwiseAlignmentPanelTest - reinstate... commit | commitdiff | tree | snapshot
2024-05-24 Jim ProcterJAL-4159 peek in a Jalview project's PCA viewer's title... commit | commitdiff | tree | snapshot
2024-05-24 Jim ProcterJAL-4257 JAL-4159 JAL-789 tidy up passing of score... commit | commitdiff | tree | snapshot
2024-05-24 James ProcterJAL-789 pairwise alignment via calculations dialog... commit | commitdiff | tree | snapshot
2024-05-24 James ProcterJAL-4366 compute coverage on each side of the pairwise... commit | commitdiff | tree | snapshot
2024-05-24 Jim ProcterMerge branch 'jims/feature/JAL-4159_pasimap' into featu... commit | commitdiff | tree | snapshot
2024-05-24 Jim ProcterMerge branch 'features/JAL-4257_adjustablegapparams_nw... commit | commitdiff | tree | snapshot
2024-05-23 Jim ProcterJAL-4159 fix sense of console/alignment output suppress... commit | commitdiff | tree | snapshot
2024-05-23 Jim ProcterJAL-4159 disable the score model combo box when pasimap... commit | commitdiff | tree | snapshot
2024-05-23 MorellThomasmend commit | commitdiff | tree | snapshot
2024-05-23 MorellThomasFix PaSiMap taking scoreModels input and allow AlignSeq... commit | commitdiff | tree | snapshot
2024-05-23 MorellThomasFix PaSiMap not having the eigenvalues saved commit | commitdiff | tree | snapshot
2024-05-22 MorellThomasrevert build.gradle changes commit | commitdiff | tree | snapshot
2024-05-22 MorellThomasSave PaSiMap with Jalview Session commit | commitdiff | tree | snapshot
2024-05-22 MorellThomasRectanuglar selection changed to Mouse Button 3 drag commit | commitdiff | tree | snapshot
2024-05-21 Jim ProcterJAL-4259 set title using original alignment window... spike/JAL-4159_pasimap_2114_series commit | commitdiff | tree | snapshot
2024-05-21 Jim ProcterJAL-4159 implement bounds for PASIMAP calculation ... commit | commitdiff | tree | snapshot
2024-05-21 Jim ProcterJAL-4159 connectivity should be computed for the sequen... commit | commitdiff | tree | snapshot
2024-05-21 Jim ProcterJAL-4159 PASiMap currently doesn't support different... commit | commitdiff | tree | snapshot
2024-05-21 Jim ProcterJAL-4159 sometimes the progress bar may not be availabl... commit | commitdiff | tree | snapshot
2024-05-21 Ben SoaresJAL-1054 Change one more (unused) url.openStream to... commit | commitdiff | tree | snapshot
2024-05-21 Ben SoaresJAL-1054 Change the rest of the url.openConnection... commit | commitdiff | tree | snapshot
2024-05-21 Ben SoaresJAL-4409 Adjust usage of HttpUtils.equivalentJalviewURL... commit | commitdiff | tree | snapshot
2024-05-21 Ben SoaresJAL-4409 Make HttpUtils.equivalentJalviewUrlString... commit | commitdiff | tree | snapshot
2024-05-21 Jim ProcterMerge branch 'feature/JAL-4159_pasimap' into spike... commit | commitdiff | tree | snapshot
2024-05-21 Jim ProcterJAL-4356 release date for 2.11.3.3 is 22nd May 2025 commit | commitdiff | tree | snapshot
2024-05-21 Jim ProcterJAL-4356 release date for 2.11.3.3 is 22nd May 2025 releases/Release_2_11_3_Branch Release_2_11_3_3 commit | commitdiff | tree | snapshot
2024-05-20 Ben SoaresJAL-4409 Also interpret jalviewX:// URIs in Jalview... commit | commitdiff | tree | snapshot
2024-05-20 Ben SoaresJAL-4397 Another fix on linux commit | commitdiff | tree | snapshot
2024-05-17 Ben SoaresJAL-4420 Add some debugging statements commit | commitdiff | tree | snapshot
2024-05-17 Ben SoaresJAL-4420 Tests for new FileUtils methods commit | commitdiff | tree | snapshot
2024-05-17 Ben SoaresJAL-4420 Allow preprocessing of arguments if they are... commit | commitdiff | tree | snapshot
2024-05-17 Ben SoaresJAL-4409 Checking getdown jars up to date commit | commitdiff | tree | snapshot
2024-05-17 Ben SoaresJAL-3409 Add newline back into Buffered Reader in getdo... commit | commitdiff | tree | snapshot
2024-05-17 Ben SoaresJAL-4409 corrected the umount of dmg to hdiutil detach... commit | commitdiff | tree | snapshot
2024-05-16 Ben SoaresJAL-4409 Added remote JVL files for Linux/Windows commit | commitdiff | tree | snapshot
2024-05-16 Ben SoaresJAL-4409 Added multiple file open to getdown. Added... commit | commitdiff | tree | snapshot
2024-05-16 Jim ProcterJAL-4356 release notes for JAL-3978 patch commit | commitdiff | tree | snapshot
2024-05-16 Jim ProcterJAL-4356 release notes for JAL-3978 patch commit | commitdiff | tree | snapshot
2024-05-16 Ben SoaresJAL-3978 Add the bin dir to be copied from website... commit | commitdiff | tree | snapshot
2024-05-16 Jim ProcterMerge branch 'bug/JAL-3978_copy_bin_dir_to_getdownArchi... commit | commitdiff | tree | snapshot
2024-05-16 Ben SoaresJAL-3978 Add the bin dir to be copied from website... bug/JAL-3978_copy_bin_dir_to_getdownArchiveBuild_task commit | commitdiff | tree | snapshot
2024-05-16 Ben SoaresJAL-4409 Easier full install from source for macOS commit | commitdiff | tree | snapshot
2024-05-16 Ben SoaresJAL-4409 more places to check for jalviewd:// commit | commitdiff | tree | snapshot
2024-05-16 Jim ProcterJAL-4418 bump release to 2.11.4.0 commit | commitdiff | tree | snapshot
2024-05-16 Jim ProcterMerge branch 'develop' into feature/JAL-4159_pasimap commit | commitdiff | tree | snapshot
2024-05-16 Jim ProcterMerge branch 'feature/JAL-4386_calculate_tree_using_sec... commit | commitdiff | tree | snapshot
2024-05-16 Jim ProcterMerge branch 'develop' into feature/JAL-4386_calculate_... commit | commitdiff | tree | snapshot
2024-05-16 Jim ProcterMerge branch 'develop' into releases/Release_2_11_3_Branch commit | commitdiff | tree | snapshot
2024-05-16 Jim ProcterJAL-4356 bump release date to today, release notes... commit | commitdiff | tree | snapshot
2024-05-15 Ben SoaresJAL-4397 IdWidth tests slightly less restrictive for... commit | commitdiff | tree | snapshot
2024-05-15 Ben SoaresJAL-4409 extra schemes now opening correctly in macos commit | commitdiff | tree | snapshot
2024-05-15 Renia CorreyaJAL-4386 Fixed failed test case commit | commitdiff | tree | snapshot
2024-05-15 Jim ProcterMerge branch 'bug/JAL-4416_sview_not_shown_for_local_st... commit | commitdiff | tree | snapshot
2024-05-15 Renia CorreyaJAL-4386 Fixed failed test cases commit | commitdiff | tree | snapshot
2024-05-15 Jim ProcterJAL-4416 TODO for fixing JAL-4415 JAL-3124 - need a... bug/JAL-4416_sview_not_shown_for_local_strucfile commit | commitdiff | tree | snapshot
2024-05-15 Jim ProcterJAL-4416 ensure the structure view is shown and any... commit | commitdiff | tree | snapshot
2024-05-15 Jim ProcterJAL-4416 make sure the structure viewer is actually... commit | commitdiff | tree | snapshot
2024-05-15 Renia CorreyaJAL-4386 Added preferences for secondary structure... commit | commitdiff | tree | snapshot
2024-05-15 Ben SoaresJAL-4409 minor change for mac testing commit | commitdiff | tree | snapshot
2024-05-15 Ben SoaresJAL-4409 Updated getdown classes commit | commitdiff | tree | snapshot
2024-05-15 Ben SoaresJAL-4409 Refactoring to allow easier reuse of classes... commit | commitdiff | tree | snapshot
2024-05-15 Jim ProcterMerge branch 'bug/JAL-4407_no_sec_str_from_draganddrop_... commit | commitdiff | tree | snapshot
2024-05-15 Renia CorreyaJAL-4386 - Implementation of retrieving secondary structure commit | commitdiff | tree | snapshot
2024-05-14 Ben SoaresJAL-1054 JAL-4414 Tests for the HttpUtils redirect... commit | commitdiff | tree | snapshot
2024-05-14 Ben SoaresJAL-1054 Also recognise UnknownHostException as a file... commit | commitdiff | tree | snapshot
2024-05-14 Ben SoaresMerge branch 'develop' into improvement/JAL-4409_implem... commit | commitdiff | tree | snapshot
2024-05-14 Ben SoaresJAL-4217 Upped the main testTask0 timeout to 15 minutes... improvement/JAL-4217_added_a_timeout_to_tests commit | commitdiff | tree | snapshot
2024-05-14 Ben SoaresJAL-1054 Tests for the HttpUtils redirection wrappers commit | commitdiff | tree | snapshot
2024-05-14 Ben SoaresMerge branch 'bug/JAL-4397_failing_idWidth_tests' into... commit | commitdiff | tree | snapshot
2024-05-14 Ben SoaresMerge branch 'develop' into bug/JAL-4397_failing_idWidt... bug/JAL-4397_failing_idWidth_tests commit | commitdiff | tree | snapshot
2024-05-14 Ben SoaresJAL-4414 Add a FileNotFoundException when identifying... commit | commitdiff | tree | snapshot
2024-05-14 Jim ProcterMerge branch 'develop' into releases/Release_2_11_3_Branch commit | commitdiff | tree | snapshot
2024-05-14 Jim ProcterJAL-4356 fix release note commit | commitdiff | tree | snapshot
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