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jalview.git
2023-03-24
Mateusz Warowny
JAL-4154 Add Platform.forArch method.
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2023-03-23
James Procter
Merge branch 'patch/JAL-4153_flakyJvCacheableInputBoxTe...
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2023-03-20
James Procter
JAL-4153 longer Thread.sleep() calls in the hope that...
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2023-03-20
James Procter
JAL-4150 test and quick patch copying code from AlignFr...
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2023-02-24
James Procter
JAL-629 JAL-4124 JAL-3855 test to check we can import...
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2023-02-24
James Procter
JAL-629 JAL-4124 JAL-3855 test to check we can import...
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2023-02-24
James Procter
Merge branch 'features/JAL-3858_PAEsInProjects' into...
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2023-02-24
James Procter
Merge branch 'features/r2_11_2_alphafold/JAL-629' into...
features/JAL-3858_PAEsInProjects
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2023-02-24
Ben Soares
JAL-629 better test fixes. --props=... instead of ...
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2023-02-24
Ben Soares
JAL-629 Made ArgValuesMap helper class, simplifies...
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2023-02-23
Ben Soares
JAL-629 test fixing
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2023-02-23
Ben Soares
JAL-629 Add debug messages for more failing tests
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2023-02-23
Ben Soares
JAL-629 fixed a Log4j test by adding --debug arg
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2023-02-23
Ben Soares
JAL-629 bootstrap args and properties. Remember index...
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2023-02-23
Ben Soares
JAL-629 nf-core sample alignment files and a2m versions
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2023-02-23
Ben Soares
JAL-629 fix a PAEMatrix casting error
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2023-02-23
James Procter
JAL-3858 new MatrixType JAX-RI POJO
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2023-02-23
James Procter
JAL-4133 update validChar width when font is changed...
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2023-02-22
James Procter
JAL-4133 store/restore alignment view’s charWidth and...
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2023-02-22
James Procter
JAL-3858 persist PAE matrix (only so far) as serialised...
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2023-02-22
James Procter
JAL-1551 source formatting
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2023-02-22
James Procter
JAL-3858 simple test for PAE matrix recovery
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2023-02-22
James Procter
JAL-3858 construct a PAE direct from float array
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2023-02-22
Ben Soares
Merge branch 'develop' into features/r2_11_2_alphafold...
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2023-02-22
Ben Soares
JAL-4064 JAL-4054 Corrected the tgz top-level dir from...
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2023-02-22
James Procter
JAL-629 make sure we show GUI when not driven programma...
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2023-02-22
James Procter
JAL-4095 slightly better threshold setting and todos...
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2023-02-22
James Procter
JAL-4095 magic fill behaviour is PAE specific
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2023-02-22
Ben Soares
Merge branch 'develop' into features/r2_11_2_alphafold...
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2023-02-22
James Procter
JAL-3858 JAL-2381 allow different linear shading scheme...
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2023-02-22
James Procter
JAL-4027 JAL-3858 rename CUSTOM_RENDERER to CONTACT_MAT...
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2023-02-21
Ben Soares
JAL-4088 Updated j8libs/*.jar in THIRDPARTYLIBS
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2023-02-20
Ben Soares
JAL-3416 Turn off (partial) flatlaf scaling for HiDPI...
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2023-02-20
Ben Soares
JAL-4064 JAL-4054 Correct names of mac arch installer...
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2023-02-20
Ben Soares
Merge branch 'develop' into improvement/JAL-4111_suffix...
improvement/JAL-4111_suffixed_DEVELOP_channels
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2023-02-20
Ben Soares
JAL-4128 Catch RasterFormatException caused whilst...
bug/JAL-4128_resizing_overview_with_solid_drags_causes_exception
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2023-02-20
Ben Soares
Merge branch 'develop' into bug/JAL-4125_flatlaf_quitha...
bug/JAL-4125_flatlaf_quithandler_warning_doesnt_display_properly
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2023-02-16
James Procter
Merge branch 'features/r2_11_2_alphafold/JAL-629' into...
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2023-02-16
James Procter
JAL-1713 don’t close an automatically created overview...
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2023-02-15
James Procter
Merge branch 'develop' into feature/JAL-1713_overviewIn...
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2023-02-15
James Procter
Passing test for JAL-4127 failing on the JAL-1713 branch
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2023-02-15
James Procter
JAL-4090 move 2.11.3 series release notes to 2.11.3...
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2023-02-13
Ben Soares
Merge branch 'develop' into bug/JAL-4125_flatlaf_quitha...
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2023-02-13
Ben Soares
JAL-4125 Spanish translations
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2023-02-13
Ben Soares
Merge branch 'merge/JAL-1988_JAL-3772+JAL-3416+JAL...
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2023-02-13
Ben Soares
JAL-4125 Move confirmation of closing external viewer...
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2023-02-13
James Procter
Merge branch 'develop' into feature/JAL-1713_overviewIn...
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2023-02-10
James Procter
JAL-3077 broken conflict resolve resulted in failing...
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2023-02-10
James Procter
Fix for JAL-4126 - don’t automatically create a thresho...
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2023-02-10
James Procter
JAL-4126 comment out closeAll - so we can visually...
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2023-02-10
James Procter
JAL-4126 failing test - colour scheme appears to be...
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2023-02-09
Ben Soares
JAL-4125 Additions to JvOptionPane and QuitHandler...
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2023-02-03
Ben Soares
JAL-629 Fasta sequence id reading whitespace fix. Flexi...
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2023-02-03
Ben Soares
JAL-629 "updated" json-simple
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2023-02-03
James Procter
JAL-1551 remove temp file in src
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2023-02-03
James Procter
Merge branch 'develop' into features/r2_11_2_alphafold...
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2023-01-31
James Procter
JAL-1713 update from Jalview 2.11.3 develop
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2023-01-30
Ben Soares
JAL-1988 Make sensible choices if only the opening...
merge/JAL-1988_JAL-3772+JAL-3416+JAL-4054+JAL-4064
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2023-01-26
Ben Soares
JAL-4118 remove unnecessary sleep from QuitHandlerTest
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2023-01-26
Ben Soares
JAL-4118 fix a small buglet in BackupFiles exhibited...
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2023-01-26
Ben Soares
JAL-1988 Add a sleep to file save test to give time...
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2023-01-26
Ben Soares
JAL-629 example files from nf-core
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2023-01-26
Ben Soares
JAL-629 helper eclipse CLI run
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2023-01-26
Ben Soares
JAL-629 adjust arg type for tempfac-shading -- was...
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2023-01-25
James Procter
JAL-4116 relegate the failed to promote warning to...
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2023-01-25
James Procter
Merge branch 'new_feature/JAL-4019_ambiguous_base_colou...
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2023-01-24
James Procter
JAL-4090 Release 2.11.3.0 release notes and version...
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2023-01-24
James Procter
Merge branch 'merge/JAL-1988_JAL-3772+JAL-3416+JAL...
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2023-01-24
James Procter
JAL-629 hacked in --tempfac-shading - hardcoded to...
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2023-01-24
James Procter
JAL-629 suggest not breaking out of the structure proce...
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2023-01-24
James Procter
JAL-629 need to delay call to AlignFile.parse() if...
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2023-01-24
James Procter
JAL-629 don’t carry on Jalview.main if we’ve already...
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2023-01-24
James Procter
JAL-629 don’t trash user’s system property file when...
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2023-01-24
James Procter
JAL-629 don’t complain for Unary args
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2023-01-24
James Procter
JAL-629 labelled breaks are frowned upon by everyone
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2023-01-24
James Procter
Merge branch 'features/r2_11_2_alphafold/JAL-2349_JAL...
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2023-01-24
James Procter
Merge branch 'develop' (JAL-4102 2.11.2.6 patch release...
features/r2_11_2_alphafold/JAL-2349_JAL-3855
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2023-01-23
Ben Soares
JAL-629 Attempts to add PAE to structure. --headless...
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2023-01-23
James Procter
JAL-4104 JAL-4102 update help docs with script to add...
Release_2_11_2_6
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2023-01-23
Jim Procter
JAL-4102 whatsNew for 2.11.2.6
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2023-01-20
Jim Procter
Merge branch 'patch/JAL-4114_updated_3dbeacons_api...
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2023-01-20
Jim Procter
JAL-4114 model_page_url not required in v2.0 response
patch/JAL-4114_updated_3dbeacons_api
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2023-01-20
Jim Procter
JAL-4102 update date and release notes for 2.11.2.6
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2023-01-20
Jim Procter
Merge branch 'patch/JAL-4114_updated_3dbeacons_api...
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2023-01-20
Jim Procter
Merge branch 'patch/Release_2_11_2_6_Branch' into develop
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2023-01-20
Jim Procter
JAL-2353 primary ref candidates that should be promoted...
patch/Release_2_11_2_6_Branch
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2023-01-20
Jim Procter
JAL-4114 missing mock server response
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2023-01-20
Jim Procter
JAL-4114 only rank model qualities that are computed...
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2023-01-20
Jim Procter
JAL-4114 alphafold now marked as AB-INITIO so adjust...
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2023-01-20
Jim Procter
JAL-4114 additional warnings when PDBe doesn’t return...
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2023-01-20
Jim Procter
JAL-4114 patch REST client for changed JSON schema...
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2023-01-20
Jim Procter
JAL-4114 formatting
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2023-01-20
Jim Procter
JAL-4114 updated mock tests and responses for v2.0 api
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2023-01-18
Ben Soares
JAL-629 make sequence id key 'seqid'
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2023-01-17
Ben Soares
JAL-3416 No longer needed
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2023-01-17
Ben Soares
Merge branch 'develop' into merge/JAL-1988_JAL-3772...
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2023-01-16
Ben Soares
JAL-3416 More tweaking of FlatLaf. Problem with macOS...
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2023-01-11
Ben Soares
JAL-1988 JAL-3772 Mark the _default_ STARTUP_FILE as...
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2023-01-11
Ben Soares
JAL-629 added Alphafold cif, pdb and PAE json files...
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2023-01-11
Ben Soares
JAL-629 refactoring TFType. Remove i18n identification...
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