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JAL-2629 another file that should have been in previous commit
[jalview.git]
/
src
/
jalview
/
2018-06-05
Jim Procter
JAL-3009 Identifiers.Org retrieval on background thread.
tree
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commitdiff
2018-06-05
gmungoc
JAL-3011 include annotation scores in sequence id toolt...
tree
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commitdiff
2018-06-05
gmungoc
Merge branch 'develop' into features/mchmmer
tree
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commitdiff
2018-06-04
gmungoc
JAL-3019 correctly form toRange of 'traversed' MapList
tree
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commitdiff
2018-06-04
gmungoc
JAL-3018 updated REST versions to 6.3
tree
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commitdiff
2018-06-04
Jim Procter
JAL-3017 parse multiple variant elements for uniprot...
tree
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commitdiff
2018-06-02
Jim Procter
JAL-3017 parse multiple variant elements for uniprot...
tree
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commitdiff
2018-06-01
Jim Procter
JAL-3012 JAL-2937 TODO avoid creating data copies by...
tree
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commitdiff
2018-06-01
Jim Procter
JAL-2937 hmmbuild input data generated via AlignmentVie...
tree
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commitdiff
2018-06-01
Jim Procter
JAL-1950 JAL-2937 allow individual groups to be remater...
tree
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commitdiff
2018-06-01
Jim Procter
JAL-1551 formatting
tree
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commitdiff
2018-06-01
Jim Procter
JAL-1950 JAL-2937 allow copy of group without sequences...
tree
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commitdiff
2018-06-01
Jim Procter
JAL-1950 JAL-2937 allow copy of sequences from group...
tree
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commitdiff
2018-05-31
Jim Procter
JAL-1950 JAL-2629 insert gaps into HMM used to search...
tree
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commitdiff
2018-05-31
Jim Procter
JAL-2629 (probably not right issue) JAL-1950 - make...
tree
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commitdiff
2018-05-31
Jim Procter
JAL-3011 JAL-2719 JAL-1958 add posterior probability...
tree
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commitdiff
2018-05-31
Jim Procter
JAL-3011 - show score in annotation row - looks like...
tree
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commitdiff
2018-05-31
Jim Procter
JAL-1958 use the annotation score for the sequence...
tree
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commitdiff
2018-05-31
Jim Procter
JAL-1950 JAL-1958 disable per-row score modulation...
tree
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commitdiff
2018-05-31
gmungoc
JAL-2808 don't capture or report min-max for mixed...
tree
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commitdiff
2018-05-31
Jim Procter
Merge branch 'spike/JAL-1950_hmmer3client' into feature...
tree
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commitdiff
2018-05-31
Jim Procter
Merge branch 'develop' into spike/JAL-1950_hmmer3client
tree
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commitdiff
2018-05-31
gmungoc
JAL-2808 pre-fill numeric inequality filter with min...
tree
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commitdiff
2018-05-30
gmungoc
JAL-2629 suppress 'Add Database' menu option in favour...
tree
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commitdiff
2018-05-30
gmungoc
JAL-3005 JAL-2629 file chooser argument for HMM search...
tree
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commitdiff
2018-05-30
gmungoc
JAL-3005 JAL-3008 render file chooser and radio button...
tree
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commitdiff
2018-05-30
gmungoc
JAL-3008 new parameter type RadioChoiceParameter
tree
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commitdiff
2018-05-30
gmungoc
JAL-3005 new argument type FileParameter for file chooser
tree
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commitdiff
2018-05-29
gmungoc
JAL-3005 refactor updateRecentlyOpened to enable reuse
tree
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commitdiff
2018-05-29
Mungo Carstairs
JAL-2994 utility method to match a list of folder/file...
tree
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commitdiff
2018-05-28
gmungoc
JAL-2994 use pattern matches to search for chimera.exe
tree
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commitdiff
2018-05-28
gmungoc
Merge branch 'develop' into features/mchmmer
tree
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commitdiff
2018-05-28
gmungoc
Merge branch 'bug/JAL-797' into develop
tree
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commitdiff
2018-05-28
gmungoc
Merge remote-tracking branch 'origin/releases/Release_2...
tree
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commitdiff
2018-05-25
gmungoc
JAL-3002 don't use fastPaint for page up/down
bug/JAL-3002fastPaintWrapped
tree
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commitdiff
2018-05-25
Jim Procter
Merge branch 'bug/JAL-2992panelHeight' into releases...
tree
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commitdiff
2018-05-25
Jim Procter
Merge branch 'bug/JAL-1460_dragndropWindows' into relea...
tree
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commitdiff
2018-05-25
gmungoc
JAL-2992 simpler heuristic for available height
bug/JAL-2992panelHeight
tree
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commitdiff
2018-05-25
Jim Procter
Merge branch 'bug/JAL-2991_exporttosvgwrapview' into...
tree
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commitdiff
2018-05-25
Jim Procter
JAL-1460 temp variable for clearer conditional and...
bug/JAL-1460_dragndropWindows
tree
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commitdiff
2018-05-25
Jim Procter
JAL-1460 javadoc
tree
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commitdiff
2018-05-25
gmungoc
JAL-2995 tooltip on fields with double-click to browse...
tree
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commitdiff
2018-05-24
gmungoc
JAL-2997 additional tests
tree
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commitdiff
2018-05-24
Jim Procter
JAL-1460 tidied up the use of windows link file parser
tree
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commitdiff
2018-05-24
Jim Procter
JAL-1460 more complete drag'n'drop debugging info and...
tree
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commitdiff
2018-05-24
Jim Procter
JAL-1460 process .lnk files dragged to Jalview when...
tree
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commitdiff
2018-05-24
Jim Procter
JAL-1460 new data flavor for URLs added belt-and-braces...
tree
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commitdiff
2018-05-23
gmungoc
JAL-2993 AlignFrame listen for keystrokes in OverviewPanel
tree
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commitdiff
2018-05-23
Jim Procter
fix for JAL-2991 - we could do better :/
bug/JAL-2991_exporttosvgwrapview
tree
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commitdiff
2018-05-23
gmungoc
JAL-2997 handle tab-delimited trailing column number...
tree
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commitdiff
2018-05-22
gmungoc
JAL-2716 fix to reset choice parameter on Revert
tree
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commitdiff
2018-05-22
gmungoc
JAL-2716 fix broken checkIfModified behaviour
tree
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commitdiff
2018-05-22
gmungoc
JAL-2629 method refactor and menu tidying
tree
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commitdiff
2018-05-21
gmungoc
JAL-797 Cmd-W act WHEN_IN_FOCUSED_WINDOW
bug/JAL-797
tree
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commitdiff
2018-05-21
gmungoc
JAL-2920 use HGVS notation for protein variant feature
tree
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commitdiff
2018-05-21
gmungoc
JAL-437 remove code duplicated by merge
features/JAL-2814ftsHelp
tree
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commitdiff
2018-05-21
gmungoc
JAL-2814 help links from PDB and Uniprot FTS panels
tree
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commitdiff
2018-05-15
gmungoc
JAL-2719 parse bit score annotation from search results
tree
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commitdiff
2018-05-15
gmungoc
JAL-1264 exclude score-only from 'Add Reference Annotat...
tree
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commitdiff
2018-05-15
gmungoc
JAL-2629 JAL-2937 respect 'align automatically' option...
tree
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commitdiff
2018-05-14
gmungoc
JAL-2989 refactoring to reduce code duplication
tree
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commitdiff
2018-05-14
gmungoc
JAL-2711 show short file names in search database combo box
tree
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commitdiff
2018-05-14
gmungoc
JAL-2989 support value display names for Option or...
tree
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commitdiff
2018-05-14
gmungoc
JAL-2711 removed unused and flaky utility method
tree
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commitdiff
2018-05-14
gmungoc
JAL-2939 check for hmm present when processing groups
tree
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commitdiff
2018-05-11
gmungoc
JAL-2985 show label instead of checkbox for a required...
tree
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commitdiff
2018-05-11
gmungoc
Merge branch 'develop' into features/mchmmer
tree
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commitdiff
2018-05-11
gmungoc
JAL-2986 corrected findIndex for out of range residue...
tree
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commitdiff
2018-05-10
gmungoc
JAL-2629 revert to showing Profile parameter even if...
tree
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commitdiff
2018-05-10
gmungoc
JAL-2629 default HMMBuild to alignment if not specified...
tree
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commitdiff
2018-05-10
gmungoc
JAL-591 reduced updating by checking/setting 'updating...
tree
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commitdiff
2018-05-10
gmungoc
JAL-2629 handle decline 'Add Database'
tree
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commitdiff
2018-05-10
gmungoc
JAL-2629 adjust placement and optionality of arguments...
tree
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commitdiff
2018-05-10
gmungoc
JAL-591 show choice list with a single option
tree
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commitdiff
2018-05-10
Jim Procter
Merge branch 'bug/JAL-2920_uniprotvariantfeature' into...
tree
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commitdiff
2018-05-10
Jim Procter
JAL-2920 simplified logic and added corner cases for...
tree
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commitdiff
2018-05-09
gmungoc
JAL-2714 HMMSearch cutoff by E-Value, Score or None
tree
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commitdiff
2018-05-09
gmungoc
JAL-2984 add pdb as sequence(s) if associate structure...
tree
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commitdiff
2018-05-09
Jim Procter
Merge branch 'patch/JAL-2976_vaqua4_fallback' into...
tree
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commitdiff
2018-05-09
Jim Procter
JAL-2976 fixed bad equivalence check and implemented...
tree
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commitdiff
2018-05-08
gmungoc
Merge branch 'develop' into features/mchmmer
tree
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commitdiff
2018-05-07
Jim Procter
JAL-2321 ensure default is ‘parseImmediately=true’
tree
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commitdiff
2018-05-07
Jim Procter
JAL-2321 use configured values for structure derived...
tree
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commitdiff
2018-05-07
Jim Procter
JAL-2321 add secondary structure & temp factor if not...
tree
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commitdiff
2018-05-07
Jim Procter
JAL-2321 use StructureImportSettings singleton settings...
tree
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commitdiff
2018-05-07
Jim Procter
JAL-2321 isParseImmediately() allows the parse() method...
tree
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commitdiff
2018-05-07
Jim Procter
JAL-2321 allow JmolParser to be configured before parsi...
tree
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commitdiff
2018-05-07
gmungoc
Merge branch 'releases/Release_2_10_4_Branch' into...
tree
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commitdiff
2018-05-07
gmungoc
JAL-1767 unit test for save and restore PCA
features/JAL-1767pcaInProject
tree
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commitdiff
2018-05-07
gmungoc
JAL-1767 scheme DoubleMatrix type includes D and E...
tree
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commitdiff
2018-05-07
Jim Procter
JAL-2906 apply GPLv3 license source
tree
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commitdiff
2018-05-07
gmungoc
JAL-2982 use configured background colour in PCA image...
tree
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commitdiff
2018-05-07
gmungoc
JAL-1767 JAL-2647 hide 'Input Data..' for PCA loaded...
tree
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commitdiff
2018-05-07
gmungoc
JAL-1767 save PCA D and E vectors instead of 'details...
tree
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commitdiff
2018-05-07
Jim Procter
JAL-2960 don’t override a swing method and create infin...
tree
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commitdiff
2018-05-04
gmungoc
JAL-2975 Shift-arrow keys to rotate PCA incrementally
tree
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commitdiff
2018-05-04
gmungoc
JAL-1767 schema and Castor changes for Save PCA in...
tree
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commitdiff
2018-05-04
gmungoc
JAL-2965 graduate brightness on z-axis from centre...
tree
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commitdiff
2018-05-04
gmungoc
JAL-1767 refactorings to enable faithful restore of...
tree
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commitdiff
2018-05-04
Jim Procter
Merge branch 'bug/JAL-2899' into releases/Release_2_10_...
tree
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commitdiff
next