git://source.jalview.org
/
jalview.git
/ history
commit
grep
author
committer
pickaxe
?
search:
re
summary
|
shortlog
|
log
|
commit
|
commitdiff
|
tree
first
⋅
prev
⋅
next
JAL-4235 JAL-3599 Try and report Eclipse Product Version for jalviewjsTranspile....
[jalview.git]
/
src
/
jalview
/
2023-04-03
Ben Soares
JAL-629 added setprop. More filename based substitution...
tree
|
commitdiff
2023-03-30
Ben Soares
JAL-629 More extensive tests with real files being...
tree
|
commitdiff
2023-03-30
Ben Soares
JAL-629 fix bug for opening single named file with...
tree
|
commitdiff
2023-03-30
Ben Soares
JAL-629 Don't use new ArgParser if there are no --args...
tree
|
commitdiff
2023-03-30
Ben Soares
JAL-629 fix SubVals npe
tree
|
commitdiff
2023-03-29
Ben Soares
JAL-629 Added --opennew --nonews --nosplash. Added...
tree
|
commitdiff
2023-03-28
Ben Soares
JAL-629 Opening files in new windows. not working yet
tree
|
commitdiff
2023-03-25
Ben Soares
JAL-629 open initial non-Arg arguments as files in...
tree
|
commitdiff
2023-03-25
Ben Soares
JAL-629 improvements to argparser toString. Improvement...
tree
|
commitdiff
2023-03-24
James Procter
JAL-4134 - store colours in annotation row, so colour...
tree
|
commitdiff
2023-03-24
James Procter
JAL-4158 first attempt at stashing colours for contact...
tree
|
commitdiff
2023-03-24
Ben Soares
Merge branch 'develop' into features/r2_11_2_alphafold...
tree
|
commitdiff
2023-03-24
Ben Soares
JAL-629 Test tidyup
tree
|
commitdiff
2023-03-23
Ben Soares
JAL-629 refactor ArgParser and helper classes all to...
tree
|
commitdiff
2023-03-20
James Procter
JAL-4134 override default hasTree so PAE tree is saved!
tree
|
commitdiff
2023-03-20
James Procter
JAL-4134 - missing Jalview project JAXB class - st...
tree
|
commitdiff
2023-03-20
James Procter
Merge branch 'develop' into features/JAL-4134_treeviewe...
tree
|
commitdiff
2023-03-20
James Procter
JAL-4150 test and quick patch copying code from AlignFr...
tree
|
commitdiff
2023-03-20
James Procter
JAL-2349 JAL-4134 Console log messages for contact...
tree
|
commitdiff
2023-03-20
James Procter
JAL-4134 propagate column selection changes in tree...
tree
|
commitdiff
2023-03-20
James Procter
JAL-4134 fix off-by-one in selection
tree
|
commitdiff
2023-03-20
James Procter
JAL-4134 fix NPEs when matrix not resolved or alignment...
tree
|
commitdiff
2023-03-20
James Procter
JAL-4134 better popup menu name ‘Tree for Contact Matrix’
tree
|
commitdiff
2023-03-20
James Procter
JAL-2349 fix off by one when resolving columns for...
tree
|
commitdiff
2023-03-18
Ben Soares
JAL-629 Check for new commandsSuccess before quit
tree
|
commitdiff
2023-03-18
Ben Soares
JAL-629 move getdown update to earlier stage
tree
|
commitdiff
2023-03-17
Ben Soares
JAL-629 All applications System.exits going through...
tree
|
commitdiff
2023-03-17
James Procter
JAL-4134 fix up column selection when hidden regions...
tree
|
commitdiff
2023-03-17
James Procter
JAL-4134 store/restore Newick tree for PAE annotation row
tree
|
commitdiff
2023-03-16
Ben Soares
JAL-629 revert metal laf
tree
|
commitdiff
2023-03-16
Ben Soares
JAL-629 Set Metal as default LAF for build server tests
tree
|
commitdiff
2023-03-15
James Procter
JAL-4091 JAL-4147 - revised annotation label display...
tree
|
commitdiff
2023-03-15
James Procter
JAL-4091 JAL-629 ‘Add Reference Annotations’ takes...
tree
|
commitdiff
2023-03-15
James Procter
JAL-2349 don’t clobber existing label/description...
tree
|
commitdiff
2023-03-15
James Procter
JAL-4134 JAL-3855 store/restore groups, tree and thresh...
tree
|
commitdiff
2023-03-15
Ben Soares
JAL-629 Commands more objecty, less classy. FileLoader...
tree
|
commitdiff
2023-03-12
Ben Soares
JAL-629 Allow substitutions of {} = defaultCounter...
tree
|
commitdiff
2023-03-11
Ben Soares
JAL-629 --substitutions --nosubstitutions flags, -...
tree
|
commitdiff
2023-03-11
Ben Soares
JAL-629 Auto and Default count incrementer args. Flags...
tree
|
commitdiff
2023-03-10
Ben Soares
JAL-629 start of tests and more examples
tree
|
commitdiff
2023-03-09
Ben Soares
JAL-629 start of tests
tree
|
commitdiff
2023-03-09
Ben Soares
JAL-629 --argfile=glob implemented. Remove reference...
tree
|
commitdiff
2023-03-08
Ben Soares
JAL-629 --close individually for each AlignFrame opened...
tree
|
commitdiff
2023-03-08
Ben Soares
JAL-629 improved comment and return speed of StringUtil...
tree
|
commitdiff
2023-03-08
James Procter
JAL-2349 handle matrix_clicked on mouse_release rather...
tree
|
commitdiff
2023-03-08
Ben Soares
JAL-629 --quiet [no stdout], --quiet --quiet [no stderr...
tree
|
commitdiff
2023-03-08
James Procter
Merge branch 'features/r2_11_2_alphafold/JAL-629' into...
tree
|
commitdiff
2023-03-08
Ben Soares
JAL-629 Fix --headless for new args. Fix progressbar...
tree
|
commitdiff
2023-03-08
Ben Soares
JAL-629 stash some TFType and PAEFile info into a PDBEntry
tree
|
commitdiff
2023-03-06
Ben Soares
JAL-629 Fix null AlignPanel. More descriptive label...
tree
|
commitdiff
2023-03-03
Ben Soares
JAL-629 Improved consistency of ArgParser classes ...
tree
|
commitdiff
2023-03-02
Ben Soares
JAL-629 slight tidy up
tree
|
commitdiff
2023-03-02
Ben Soares
JAL-629 Removal of unnecessary methods. Set pLTTD tempf...
tree
|
commitdiff
2023-03-02
Ben Soares
JAL-629 Some refactoring to allow more flexible use...
tree
|
commitdiff
2023-03-01
James Procter
JAL-4134 hold ctrl to select groups containing rows...
tree
|
commitdiff
2023-02-28
Ben Soares
JAL-629 Firm up bootstrapArgs. Correct '-colour' in...
tree
|
commitdiff
2023-02-27
Ben Soares
JAL-629 add AF examples for FER1_SPIOL. Link and displa...
tree
|
commitdiff
2023-02-27
James Procter
JAL-2349 TODO consider caching contactRanges from getCo...
tree
|
commitdiff
2023-02-27
James Procter
JAL-4134 tree panel shouldn’t try to redraw before...
tree
|
commitdiff
2023-02-27
James Procter
JAL-4134 fix more of the egregious SeqNode/BinaryNode...
tree
|
commitdiff
2023-02-27
James Procter
JAL-4134 leaves marked when columns are selected -...
tree
|
commitdiff
2023-02-27
James Procter
JAL-4134 TODO: alternative way of performing interactiv...
tree
|
commitdiff
2023-02-27
James Procter
JAL-4134 use average distance between PAE elements...
tree
|
commitdiff
2023-02-27
James Procter
JAL-4134 display tree for columns - selecting an intern...
tree
|
commitdiff
2023-02-27
James Procter
JAL-4134 compute normalised dot product for contact...
tree
|
commitdiff
2023-02-27
James Procter
JAL-4134 allow tree groups to be stored/recovered on...
tree
|
commitdiff
2023-02-27
Ben Soares
JAL-629 Fix Exceptions when running with CLI not headless
tree
|
commitdiff
2023-02-27
Ben Soares
JAL-629 Guesstimate whether to set pLDDT with PDB file
tree
|
commitdiff
2023-02-27
Ben Soares
Merge branch 'develop' into features/r2_11_2_alphafold...
tree
|
commitdiff
2023-02-27
Ben Soares
JAL-629 removed debug prints. added .cif. added some...
tree
|
commitdiff
2023-02-27
James Procter
Merge branch 'develop' into features/JAL-4134_treeviewe...
tree
|
commitdiff
2023-02-26
Ben Soares
JAL-629 PAE matrix file guesstimate from filename
tree
|
commitdiff
2023-02-24
Ben Soares
JAL-629 Position GUI widgets for PDF file options....
tree
|
commitdiff
2023-02-24
James Procter
JAL-629 JAL-4124 JAL-3855 test to check we can import...
tree
|
commitdiff
2023-02-24
Ben Soares
Merge branch 'develop' into features/r2_11_2_alphafold...
tree
|
commitdiff
2023-02-24
Ben Soares
JAL-629 add widgets to StructureChooser for tempfac...
tree
|
commitdiff
2023-02-24
James Procter
Merge branch 'features/r2_11_2_alphafold/JAL-629' into...
features/JAL-3858_PAEsInProjects
tree
|
commitdiff
2023-02-24
Ben Soares
JAL-629 helper function for getting sensible structure...
tree
|
commitdiff
2023-02-24
Ben Soares
JAL-629 Made ArgValuesMap helper class, simplifies...
tree
|
commitdiff
2023-02-23
James Procter
JAL-4134 group columns using a tree cut - seems to...
tree
|
commitdiff
2023-02-23
James Procter
JAL-4134 - brutal hack to build a tree clustering colum...
tree
|
commitdiff
2023-02-23
Ben Soares
JAL-629 bootstrap args and properties. Remember index...
tree
|
commitdiff
2023-02-23
Ben Soares
JAL-629 fix a PAEMatrix casting error
tree
|
commitdiff
2023-02-23
James Procter
JAL-4134 tidied up refactoring and fix compilation...
tree
|
commitdiff
2023-02-23
James Procter
Merge branch 'features/JAL-3858_PAEsInProjects' into...
tree
|
commitdiff
2023-02-23
James Procter
JAL-3858 new MatrixType JAX-RI POJO
tree
|
commitdiff
2023-02-23
James Procter
JAL-4134 - refactor tree calculation code to work with...
tree
|
commitdiff
2023-02-23
James Procter
JAL-4133 update validChar width when font is changed...
tree
|
commitdiff
2023-02-22
James Procter
JAL-4133 store/restore alignment view’s charWidth and...
tree
|
commitdiff
2023-02-22
James Procter
JAL-3858 persist PAE matrix (only so far) as serialised...
tree
|
commitdiff
2023-02-22
James Procter
JAL-3858 construct a PAE direct from float array
tree
|
commitdiff
2023-02-22
James Procter
JAL-629 make sure we show GUI when not driven programma...
tree
|
commitdiff
2023-02-22
James Procter
JAL-4095 slightly better threshold setting and todos...
tree
|
commitdiff
2023-02-22
James Procter
JAL-4095 magic fill behaviour is PAE specific
tree
|
commitdiff
2023-02-22
Ben Soares
Merge branch 'develop' into features/r2_11_2_alphafold...
tree
|
commitdiff
2023-02-22
James Procter
JAL-3858 JAL-2381 allow different linear shading scheme...
tree
|
commitdiff
2023-02-22
James Procter
JAL-4027 JAL-3858 rename CUSTOM_RENDERER to CONTACT_MAT...
tree
|
commitdiff
2023-02-20
Ben Soares
JAL-3416 Turn off (partial) flatlaf scaling for HiDPI...
tree
|
commitdiff
2023-02-20
Ben Soares
JAL-4128 Catch RasterFormatException caused whilst...
bug/JAL-4128_resizing_overview_with_solid_drags_causes_exception
tree
|
commitdiff
2023-02-20
Ben Soares
Merge branch 'develop' into bug/JAL-4125_flatlaf_quitha...
bug/JAL-4125_flatlaf_quithandler_warning_doesnt_display_properly
tree
|
commitdiff
next