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Merge branch 'merge/develop_JAL-3725' into develop
[jalview.git] / src / jalview / io /
2019-05-29 gmungocJAL-2738 error logging if no ##reference found tree | commitdiff
2019-05-29 gmungocJAL-2738 accept .csi, default to GRCh37:homo_sapiens... tree | commitdiff
2019-05-27 Ben SoaresJAL-3141 Added HashMap types for Java 1.8 compatibility tree | commitdiff
2019-05-25 Ben SoaresJAL-3141 One more error log fix tree | commitdiff
2019-05-25 Ben SoaresJAL-3141 Added tooltips on Schemes dropdown and Customi... tree | commitdiff
2019-05-24 Ben SoaresJAL-3141 Fixes recommended from gmc's test tree | commitdiff
2019-05-24 Ben SoaresJAL-3141 Reworked a lot of BackupFiles to allow the... tree | commitdiff
2019-04-29 gmungocJAL-2738 JAL-2743 update unit test to match new VCF... tree | commitdiff
2019-04-26 gmungocJAL-2738 JAL-2743 properties to map VCF header to speci... tree | commitdiff
2019-04-18 hansonrexplicit Hashtable objects tree | commitdiff
2019-04-17 gmungocJAL-3026 fix bug loading Jalview Project (in Java) tree | commitdiff
2019-04-04 gmungocJAL-3220 j2sIgnore on 3 more main methods tree | commitdiff
2019-04-04 gmungocJAL-3220 j2sIgnore on main methods on test / utility... tree | commitdiff
2019-04-03 hansonrreplacing @j2sNative with @j2sIgnore where appropriate... tree | commitdiff
2019-04-03 hansonrj2sNative clean-up. Fixes problem with second try of... tree | commitdiff
2019-03-27 hansonrconsolidation of Platform isJS calls tree | commitdiff
2019-03-27 hansonrisJS cleanup tree | commitdiff
2019-03-27 hansonrclean-up of isJS business for (temporarily) noneditable... tree | commitdiff
2019-03-21 Ben SoaresJAL-3130 Replaced deprecated Class.newInstance() with... tree | commitdiff
2019-03-20 Ben SoaresJAL-3130 Lots of deprecation fixes. See utils/deprecat... tree | commitdiff
2019-03-19 Ben SoaresJAL-3130 Merge of JAL-3130_Java_11_investigations-Ben... tree | commitdiff
2019-03-14 gmungocJAL-3210 JAL-3141 JAL-3056 disable backups in JalviewJS tree | commitdiff
2019-03-13 gmungocJAL-3210 merge conflict tidying tree | commitdiff
2019-03-13 gmungocMerge branch 'develop' into trialMerge tree | commitdiff
2019-03-11 gmungocMerge branch 'feature/JAL-3127_seqidChainshading' into... tree | commitdiff
2019-03-01 gmungocMerge branch 'bug/JAL-2791exportFilteredFeature' into... tree | commitdiff
2019-03-01 gmungocMerge branch 'feature/JAL-3093wrappedModeTooltips'... tree | commitdiff
2019-02-28 gmungocMerge branch 'feature/JAL-3169cancelOverwrite' into... tree | commitdiff
2019-02-28 gmungocMerge remote-tracking branch 'origin/feature/JAL-3141_b... tree | commitdiff
2019-02-28 Jim ProcterMerge branch 'feature/JAL-3141_backupfiles_for211'... merge/develop_feature/JAL-3141_backupfiles_for211 tree | commitdiff
2019-02-22 gmungocJAL-2738 don't set AF as feature score tree | commitdiff
2019-02-22 Ben SoaresJAL-3141 improved message for asking whether to delete... tree | commitdiff
2019-02-21 Ben SoaresJAL-3141 Sensible refactoring for confirming deleting... tree | commitdiff
2019-02-17 Ben SoaresJAL-3141 User warning when deleting old backup files... tree | commitdiff
2019-02-15 Ben SoaresJAL-3141 re-order deletion of old files and check lastM... tree | commitdiff
2019-02-14 Ben SoaresJAL-3141 Added warning/confirmation when suffixReverse... tree | commitdiff
2019-02-04 hansonrSequenceFetcher JvCacheableInputBox isJS test tree | commitdiff
2019-02-04 hansonrrefactoring for DBMODList tree | commitdiff
2019-02-04 hansonradds protype size to JTextArea hack for nonexistent... tree | commitdiff
2019-02-04 hansonrfixing array processing order tree | commitdiff
2019-02-01 Ben SoaresJAL-3141 Slight efficiency gain in detecting backupfile... tree | commitdiff
2019-01-30 Ben SoaresJAL-3141 Enabled the 'Include backpup files' checkbox... tree | commitdiff
2019-01-29 hansonrJSON writing fix, JColorChooser (mnemonic change) fix tree | commitdiff
2019-01-29 Ben SoaresJAL-3141 Found a good fix for updating the FileChooser... tree | commitdiff
2019-01-29 Ben SoaresJAL-3141 Found a (not ideal) fix for updating the FileC... tree | commitdiff
2019-01-28 Ben SoaresJAL-3141 improvement on BackupFilenameParts filename... tree | commitdiff
2019-01-26 hansonrJalview.isJS() --> Platform.isJS(), DBRefEntry[] -... tree | commitdiff
2019-01-25 Ben SoaresJAL-3141. This adds quite a lot of code to allow an... tree | commitdiff
2019-01-25 hansonrJSON refactoring tree | commitdiff
2019-01-25 gmungocJAL-3187 don't compute variant features on peptide... tree | commitdiff
2019-01-24 Ben SoaresJAL-3141 New layout and wording of Backups Preferences... tree | commitdiff
2019-01-24 Ben SoaresJAL-3141 Reformatted code in eclipse tree | commitdiff
2019-01-23 Ben SoaresJAL-3141 Added Presets options in the Backups Preferenc... tree | commitdiff
2019-01-22 Ben SoaresJAL-3141 Fixed what happens when suffix template has... tree | commitdiff
2019-01-21 hansonrisAMac() -> isAMacAndNotJS(), isWindows() -> isWindowsA... tree | commitdiff
2019-01-20 Ben SoaresJAL-3141 removing diagnostic output tree | commitdiff
2019-01-20 Ben SoaresJAL-3141 Changed suffix position to after the extension... tree | commitdiff
2019-01-18 Jim ProcterMerge branch 'feature/JAL-3063jaxbNoCastor' into featur... tree | commitdiff
2019-01-14 Ben SoaresJAL-3141 Made more constants tree | commitdiff
2019-01-09 Ben SoaresJAL-3141 removed redundant method to tests tree | commitdiff
2019-01-09 Ben SoaresJAL-3141 forgot to add this file after extracting the... tree | commitdiff
2019-01-09 Ben SoaresJAL-3141 Made one more suggested change from code review tree | commitdiff
2019-01-08 Ben SoaresJAL-3141 Made some more suggested changes from code... tree | commitdiff
2019-01-08 Ben SoaresJAL-3141 Made some suggested changes from code review tree | commitdiff
2018-12-21 gmungocJAL-3032 prefer Jalview.isJS() to j2sNative tree | commitdiff
2018-12-20 hansonrJalviewFileChooser back to original; synth. ref fixed... tree | commitdiff
2018-12-20 hansonrpreliminary hack fix for synthetic reference issue tree | commitdiff
2018-12-19 gmungocJAL-3178 include non-positional features in their group... bug/JAL-2791exportFilteredFeature tree | commitdiff
2018-12-18 gmungocJAL-3048 fix NPE in file chooser callbacks map tree | commitdiff
2018-12-18 gmungocJAL-3048 DialogRunnerI reduced to minimal implementation tree | commitdiff
2018-12-17 gmungocMerge branch 'Jalview-BH/JAL-3026-JAL-3063-JAXB' into tree | commitdiff
2018-12-17 gmungocMerge branch 'feature/JAL-3169cancelOverwrite' into... tree | commitdiff
2018-12-17 gmungocJAL-3068 tidy status bar messaging tree | commitdiff
2018-12-17 gmungocMerge branch 'Jalview-BH/JAL-3026-JAL-3063-JAXB' into tree | commitdiff
2018-12-13 hansonrSwingJS 3.2.4.05 should fix JFileChooser synthetic... tree | commitdiff
2018-12-13 Ben SoaresJAL-3130 Attempting to fix 8 tests that pass on a Mac... tree | commitdiff
2018-12-10 gmungocJAL-3048 wip externalise trigger from RunResponse tree | commitdiff
2018-12-10 gmungocMerge branch 'feature/JAL-3169cancelOverwrite' into tree | commitdiff
2018-12-10 gmungocJAL-1421 added type to List and Vector feature/JAL-3169cancelOverwrite tree | commitdiff
2018-12-10 gmungocJAL-3169 leave file browser open on Cancel in overwrite... tree | commitdiff
2018-12-10 gmungocJAL-3048 DialogRunner changes (wip) tree | commitdiff
2018-12-06 Ben SoaresJAL-3130 incorporating feature/JAL-3063jaxbNoCastor... tree | commitdiff
2018-12-06 gmungocJAL-3048 response() renamed addResponse(); checkstyle... tree | commitdiff
2018-12-03 gmungocJAL-3063 Castor removed from codebase tree | commitdiff
2018-11-15 gmungocJAL-3032 JAL-2344 project files are 'identifiable' tree | commitdiff
2018-11-14 gmungocJAL-3032 don't throw Exception to signal chain not... tree | commitdiff
2018-11-08 gmungocJAL-3048 override showOpenDialog with JalviewJS compati... tree | commitdiff
2018-11-06 hansonrJAXB marshalling by JavaScript successfully unmarshalle... tree | commitdiff
2018-11-02 Ben SoaresJAL-3141 Tests now available and working, bringing... tree | commitdiff
2018-11-02 hansonrMarshalling produces valid ZIP file. Unmarshalling... tree | commitdiff
2018-11-01 gmungocMerge branch 'Jalview-BH/JAL-3026' into tree | commitdiff
2018-10-31 Ben SoaresJAL-3141 Preferences 'Backups' tab now working. Doesn... tree | commitdiff
2018-10-31 gmungocMerge branch 'Jalview-BH/JAL-3026-JAL-3063-JAXB' into... feature/JAL-3144noJTree tree | commitdiff
2018-10-29 gmungocJAL-3038 add ActionListener and FocusListener to SwingJ... tree | commitdiff
2018-10-25 Ben SoaresJAL-3141 Ostensibly all backups working for alignment... tree | commitdiff
2018-10-24 Ben SoaresJAL-3141 Code checkout. Not compiling. tree | commitdiff
2018-10-24 Ben SoaresJAL-3141 Code checkout. Not compiling. tree | commitdiff
2018-10-23 Ben SoaresBackupFilter and other unfinished business tree | commitdiff
2018-10-22 Ben SoaresJAL-3141 Taken the backing up code out of FileChooser... tree | commitdiff
2018-10-22 Ben SoaresJAL-3141 Taken the backing up code out of FileChooser... tree | commitdiff
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