Jim Procter <j.procter@dundee.ac.uk>: Author Summary

Builds triggered by Jim Procter <j.procter@dundee.ac.uk>

Builds triggered by an author are those builds which contains changes committed by the author.
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Breakages and fixes

Broken means the build has failed but the previous build was successful.
Fixed means that the build was successful but the previous build has failed.
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Build Completed Code commits Tests
JB › GPC › #160 1 week ago
JAL-4046 release on 9th August 2022
Testless build
JB › GDB › #432 1 week ago
JAL-4046 release on 9th August 2022
1446 passed
JB › GJB › #226 1 week ago
JAL-4046 release on 9th August 2022
Testless build
JB › GPC › #159 1 week ago
JAL-4046 JAL-3993 imports reformatting
JAL-4046 JAL-3993 patch for 2.11.2.4 release
Testless build
JB › GJB › #225 1 week ago
JAL-4046 JAL-3993 patch for 2.11.2.4 release
JAL-4046 JAL-3993 imports reformatting
Testless build
JB › GDB › #431 1 week ago
JAL-4046 JAL-3993 imports reformatting
JAL-4046 JAL-3993 patch for 2.11.2.4 release
1446 passed
JB › GJ2B › #5 2 months ago
JAL-4026 always wait 50ms before checking if the calculation worker is still running so it has time to start.
Testless build
JB › GJ2B › #4 2 months ago
JAL-4026 update the viewport’s wrapped width after calculating it
Testless build
JB › GDI › #9 2 months ago
Merge branch 'develop' into releases/Release_2_11_2_Branch
JAL-3085 update tests and mock responses, new P0dtd1 testcase
JAL-3746 release note for JAL-3618 Vaqua config so app directories can be opened
Merge branch 'task/JAL-3992_update_docs' into bug/JAL-3365_extendedDSSP_via_stockholm
JAL-3983 known issue note for JAL-3984
Merge branch 'develop' into releases/Release_2_11_2_Branch
JAL-3976 fix mock PDBFTS query & responses
Merge branch 'bug/JAL-360+JAL-3975_keyboard_input_lost_after_dialog' into develop
JAL-3985 formatting
JAL-3108 updated Ensembl client and model species names
JAL-3980 defensive copy - inefficient but fixes bug
JAL-3438 spotless for 2.11.2.0
Merge branch 'develop' into releases/Release_2_11_2_Branch
JAL-3976 update tests
Merge branch 'benreview/JAL-3691_for_2_11_2_getdownrebuilds' into develop
Merge branch 'bug/JAL-3997_NPE_in_wrapped_mode' into develop
JAL-3990 release notes for 2.11.2.1 patch release
Merge branch 'develop' into releases/Release_2_11_2_Branch
JAL-3746 apply copyright to tests
Merge branch 'develop' into releases/Release_2_11_2_Branch
JAL-3992 fix path
Merge branch 'spike/try_spotless_JAL-3438' into develop
Merge branch 'develop' into releases/Release_2_11_2_Branch
JAL-3990 release notes and what’s new
Release notes for JAL—3728 - waiting for ben to sign off or leave issue open
Merge branch 'develop' into releases/Release_2_11_2_Branch
Merge branch 'develop' into releases/Release_2_11_2_Branch
JAL-3208 release notes and docs for setprop
JAL-3981 strategic newlines to help speed up Java's html parser
JAL-4012 JAL-4008 release notes for Jalview 2.11.2.3
JAL-3997 check for tooltip being null before checking equivalence to last tooltip string
JAL-3746 apply copyright to source
JAL-3608 JAL-3830  simplified command line docs a bit
JAL-3746 JAL-3841 new README and finalising 2.11.2.0 release notes
JAL-3990 gradle spotlessApply
JAL-3746 release note for JAL-3907 building Jalview with j17
Merge branch 'bug/JAL-3962_awt_dll_problem' into develop
JAL-3365 expand range of allowed DSSP secondary structure symbols in Stockholm files
JAL-3746 JAL-3841 fix README typo
JAL-3746 new release date for 2.11.2
JAL-3746 structure mapping preference docs for JAL-3817
Merge branch 'develop' into releases/Release_2_11_2_Branch
Merge branch 'develop' into releases/Release_2_11_2_Branch
Merge branch 'bug/JAL-3980_JAL-3981_tooltips_sequence_details' into develop
Merge branch 'develop' into releases/Release_2_11_2_Branch
JAL-3973 exclude the original RELEASE file so gradle doesn't complain of duplicate entries in the tarball
Merge branch 'develop' into releases/Release_2_11_2_Branch
Merge branch 'bug/JAL-3103_browser_launcher_problems_macos_and_linux' into develop
JAL-3983 release note for JAL-3985
JAL-360 JAL-3975 update parent for text colour dialog - doesn't seem to help but we live in hope..
JAL-3976 skip entries with null values when analyzing
JAL-3608 JAL-3830 tweaked the what’s new text and updated helpTOC
JAL-3981 patch tests and remove errant imports
JAL-3746 JAL-3103 java.awt.Desktop.showURL method mechanism release notes
JAL-3685 - two single quotes when replacements are present in i18n message
JAL-3647 release notes for hdpi/laf scaling JAL-3608 JAL-3609 JAL-3552
JAL-3992 bump version and report updates in 2.11.2.2 release notes
Merge branch 'develop' into releases/Release_2_11_2_Branch
Merge branch 'doc/JAL-3608+JAL-3830_added_to_help_docs' into develop
JAL-3983 release notes for JAL-3975 and known issue note for JAL-3984
Merge branch 'bug/JAL-3973_source_tarball_not_building' into develop
Merge branch 'bug/JAL-3085_avoid_414_error_for_PDBFTS' into develop
Merge branch 'patch/JAL-3976_3dbeaconsnull' into develop
JAL-3983 update release notes for JAL-3973
JAL-3981 Additional line breaks - sort of helps
JAL-3647 release notes for JAL-1842 JAL-3509 JAL-3881, JAL-3884 JAL-3632 JAL-3633 and report JAL-3764 as a known issue
JAL-3746 more docs tweaking and release notes
Merge branch 'patch/JAL-4008_jabaws_2_2_1_patch' into doc/release_2_11_2_3
JAL-3594 release notes and mention jalview develop app in release notes
JAL-3746 release notes for JAL-3867
Merge branch 'develop' into releases/Release_2_11_2_Branch
JAL-4008 update jabaws client to 2.2.1 - definitely no log4j references !
JAL-3992 shift+arrow to jump to next gap/residue in cursor/keyboard editing mode
JAL-3985 split PDB id queries into multiple queries so server doesn’t 414
Merge branch 'bug/JAL-3365_extendedDSSP_via_stockholm' into develop
JAL-3983 release 2.11.2.1 date and release notes
Testless build
JB › GDI › #8 9 months ago
JAL-3821 ported to refactored FlatFile parser
JAL-3829 - callback finessing - leave DBRefFetcher to do progress updates itself
JAL-3616 show name of structure viewer in ‘new view’ button
JAL-3881 split on any nonalphanumeric symbol (plus _) to generate putative sequence identifiers with which to query databases
JAL-3829 fetch 3D beacons now started by clicking button shown above the drop-down filter/manual input combo box.
Merge branch 'develop' into features/r2_11_2/JAL-3829_3dbeacons
Merge branch 'features/r2_11_2/JAL-3829_3dbeacons' into develop
JAL-3829 prefix PDBe filters with PDBe to make clear what they search
Merge branch 'develop' into releases/Release_2_11_2_Branch
JAL-3829 TDBeacons fetcher needs a sequence with at least one canonical uniprot accession
JAL-3829 updated response for P01308
Merge branch 'features/r2_11_2/JAL-3821_reinstate_patch' into develop
JAL-3829 3d beacons logo - misi varadi gave permission to re-use but most likely it is CC-0
Merge branch 'develop' into features/r2_11_2/JAL-3829_3dbeacons
Merge branch 'develop' into releases/Release_2_11_2_Branch
Merge branch 'develop' into releases/Release_2_11_2_Branch
JAL-3829 alternative UX: need to select 3d-beacons from dropdown if db-refs need to be fetched
JAL-3829 do better at detecting structure type, prompt to retrieve Uniprot ids for proteins without canonical Ids and show provider in the Structure Chooser’s cache view
JAL-3821 less ambiguous base class name for EMBL and GenBank flat file parsers
Merge branch 'develop' into doc/JAL-3746_Release_2_11_2
JAL-3692 JAL-3861 remove extra call to .parse() so we don’t process the file again
JAL-3079 JAL-3055 remember to reset font transform after rendering logo
Merge branch 'features/r2_11_2/JAL-3829_3dbeacons' into develop
JAL-3904 override buildActionMenu to add in additional menu actions after rebuild
JAL-3829 abstract essential TDB metadata from the user configurable data array displayed in the JTable
Merge branch 'features/r2_11_2/JAL-3829_3dbeacons' into develop
JAL-3829 ensure nulls are not wildcards when retrieving annotation by calcId/label/description
JAL-3746 update the example corefile for jalviewjs
JAL-3829 throw the exception even if it has no message
JAL-3829 tests need to wait for dialog to be closed and background processes to finish before they can check functionality
JAL-3829 store 3db metadata on PDBEntry so it can be shown in Cache/etc
JAL-3829 ignore the fake ID generated when a PDB format file without embedded ID is imported for an existing PDBEntry
JAL-3616 explicit configure external viewer config
JAL-3829 right click to view popup menu to show link - maybe better to have a link button in the table instead ?
Merge branch 'patch/JAL-3874_newJmolAndGradleDedup' into develop
Merge branch 'develop' into releases/Release_2_11_2_Branch
JAL-3829 report when 3d-beacons doesn’t provide any models
Merge branch 'develop' into releases/Release_2_11_2_Branch
JAL-3829 open web page for 3d beacons structure by right-clicking and selecting pop up menu item
Merge branch 'develop' into releases/Release_2_11_2_Branch
JAL-3874 - replace Jmol with custom build of 14.31.53 from Jmol-SwingJS GitHub repo
JAL-3904 failing test
JAL-3821 failing test
JAL-3829 allow PDBEntry with file and ID with mismatching case to override one without a file
Merge branch 'doc/JAL-3746_Release_2_11_2' into develop
JAL-3884 squish alarming but harmless errors when uniprot doesn’t have a record
JAL-3829 make sure structure data type reflects actual format identified
JAL-3905 Fix: wait for response when sending mouseovers. Combined remove old label and add new label and also added warning in javadoc about out-of-order execution
JAL-3829 belt and braces check to make sure there is a pdbe response available to join records from
Merge branch 'bug/JAL-3885_sequence_fetched_not_displaying_PFAM_Seed' into develop
Merge branch 'develop' into features/r2_11_2/JAL-3829_3dbeacons
JAL-2226 transfer chain annotation when calcId, label and description are distinct - so annotations from multiple chains and structures are all shown.
Merge branch 'bug/r2_11_2/JAL-3904_structureviewermenu' into develop
JAL-2226 new method to search for annotation matching particular description as well as calcId and label
JAL-3746 release notes and what’s new for 2.11.2 - in progress
JAL-3821 data file for failing test
Testless build
Build Completed Code commits Tests
Build Completed Code commits Tests