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Merge branch 'develop' into Release_2_9_Branch
[jalview.git] / src /
2015-09-10 Jim ProcterJAL-1645 Version-Rel Version 2.9 Year-Rel 2015 Licensin... tree | commitdiff
2015-09-10 Jim ProcterJAL-1645 licencing for new files in src tree | commitdiff
2015-09-10 Jim ProcterJAL-1645 source formatting and organise imports tree | commitdiff
2015-09-10 Jim ProcterMerge branch 'develop' into release/2_9_documentation tree | commitdiff
2015-09-10 Jim ProcterJAL-1370 correct i18n message for reference sequence... tree | commitdiff
2015-09-10 Jim ProcterJAL-1370 detect any type of gap character in reference... tree | commitdiff
2015-09-10 Jim ProcterJAL-1370 mark Jpred query sequence as reference sequence tree | commitdiff
2015-09-09 gmungocJAL-857 added debug output to track down document base... tree | commitdiff
2015-09-09 gmungocJAL-1619 update applet.currentAlignFrame on any menu... tree | commitdiff
2015-09-09 gmungocJAL-1619 'align protein as cDNA' now leaves unmapped... tree | commitdiff
2015-09-08 Jim ProcterMerge branch 'develop' into release/2_9_documentation tree | commitdiff
2015-09-08 Jim ProcterJAL-1695 make enableSplitFrame applet parameter true... tree | commitdiff
2015-09-08 gmungocJAL-1859 debug output of pdb mappings (mine and SSMs) tree | commitdiff
2015-09-07 gmungocJAL-1636 translate stop codon as '*', mouseover * as... tree | commitdiff
2015-09-07 gmungocMerge branch 'develop' of https://source.jalview.org... tree | commitdiff
2015-09-07 tcofoegbumerge tree | commitdiff
2015-09-07 tcofoegbuJAL-1831 updated BioJSON schema tree | commitdiff
2015-09-07 gmungocJAL-1152 check 'autocalculated' not 'null sequenceRef... tree | commitdiff
2015-09-07 Jim ProcterJAL-1522 make installation default 'applet' for the... tree | commitdiff
2015-09-06 Jim ProcterJAL-1655 transfer setting option only displayed in... tree | commitdiff
2015-09-06 Jim ProcterJAL-1645 JAL-1355 UI/i18n: added missing messages,... tree | commitdiff
2015-09-05 Jim ProcterJAL-1871 JAL-1553 don’t modify selection/view colour... tree | commitdiff
2015-09-05 Jim ProcterJAL-1871 choose a new RNA Helices palette when annotati... tree | commitdiff
2015-09-05 Jim ProcterJAL-1871 don’t change the palette every time an edit... tree | commitdiff
2015-09-05 Jim ProcterJAL-1871 reinstate random generation of palette when... tree | commitdiff
2015-09-05 Jim ProcterJAL-1869 make per-sequence RNA helix colours each time... tree | commitdiff
2015-09-05 Jim ProcterMerge branch 'bugfix/JAL-841_JAL-1081' into develop tree | commitdiff
2015-09-05 Jim ProcterJAL-1233 tidy up and use same RNA helix colours in... tree | commitdiff
2015-09-05 Jim ProcterJAL-1081 JAL-891 don’t overwrite global colour scheme... tree | commitdiff
2015-09-05 Jim ProcterJAL-1081 JAL-841 JAL-1053 JAL-1081 use same selection... tree | commitdiff
2015-09-04 Jim ProcterJAL-1847 Merge branch 'thiago' into develop tree | commitdiff
2015-09-04 Jim ProcterJAL-1847 added AUTOSUPERIMPOSE property which can be... tree | commitdiff
2015-09-04 tcofoegbuJAL-793 added ability to visualise raw BioJSON in the... tree | commitdiff
2015-09-03 Jim ProcterJAL-1863 allow RNA secondary structure rows exported... tree | commitdiff
2015-09-03 Jim ProcterJAL-961 efficiency TODO: decouple overview updates... tree | commitdiff
2015-09-03 Jim ProcterJAL-1680 JAL-1576 JAL-1233 all conservation and consens... tree | commitdiff
2015-09-03 Jim ProcterJAL-1576 fix: trigger broadcast of colour change with... tree | commitdiff
2015-09-03 Jim ProcterJAL-961 TODO use workers for calculations supporting... tree | commitdiff
2015-09-03 Jim ProcterJAL-1551 source tidy tree | commitdiff
2015-09-03 Jim ProcterJAL-1550 JAL-1551 formatting tree | commitdiff
2015-09-03 Jim ProcterJAL-1233 JAL-1576 copy constructor to propagate helix... tree | commitdiff
2015-09-03 tcofoegbuhouse keeping tree | commitdiff
2015-09-03 tcofoegbumerge tree | commitdiff
2015-09-03 tcofoegbuJAL-1861 disable the action buttons for 1500 millisec... tree | commitdiff
2015-09-03 gmungocJAL-1859 removed unneeded dependency on package not... tree | commitdiff
2015-09-03 gmungocMerge branch 'develop' of https://source.jalview.org... tree | commitdiff
2015-09-03 gmungocJAL-1690 scaleProteinAsCdna new optional attribute... tree | commitdiff
2015-09-03 tcofoegbumerge tree | commitdiff
2015-09-03 tcofoegbuJAL-793 use default custom export settings for html... tree | commitdiff
2015-09-03 gmungocJAL-1828 lookup table to convert MSE to MET when parsin... tree | commitdiff
2015-09-03 gmungocMerge branch 'develop' of https://source.jalview.org... tree | commitdiff
2015-09-02 tcofoegbuJAL-1740 migrated BioJSMSAViewer git repo to https... tree | commitdiff
2015-09-02 tcofoegbumerge tree | commitdiff
2015-09-02 tcofoegbuJAL-1739 reverted BioJSON schema to use one main versio... tree | commitdiff
2015-09-02 gmungocJAL-1544 spelling tree | commitdiff
2015-09-02 gmungocJAL-1355 User error text externalised to message bundle tree | commitdiff
2015-09-02 gmungocJAL-1768 set initial 'enabled' state for id width label... tree | commitdiff
2015-09-02 gmungocJAL-1768 enable fixed width output when auto-width... tree | commitdiff
2015-09-02 gmungocJAL-1843 fixed input/add from textbox; added @Override... tree | commitdiff
2015-09-02 gmungocMerge branch 'develop' of https://source.jalview.org... tree | commitdiff
2015-09-02 Jim ProcterJAL-535 todo: refactor logic to desktop controller... tree | commitdiff
2015-09-02 gmungocMerge branch 'develop' of https://source.jalview.org... tree | commitdiff
2015-09-01 Jim ProcterMerge branch 'bug/JAL-1853_gapchar_output' into develop tree | commitdiff
2015-09-01 Jim ProcterJAL-1853 make getVisibleSeqs more memory efficient... tree | commitdiff
2015-09-01 Jim ProcterJAL-1853 refactor clip routine from getSequenceStrings tree | commitdiff
2015-09-01 Jim Procterpatch for JAL-1853 - use given gap character to reconst... tree | commitdiff
2015-09-01 gmungocJAL-1355 user error message text externalised tree | commitdiff
2015-09-01 tcofoegbuJAL-1668 house keeping tree | commitdiff
2015-08-31 tcofoegbumerge tree | commitdiff
2015-08-31 tcofoegbuJAL-1700 updated error handling with suggested improvem... tree | commitdiff
2015-08-28 gmungocJAL-1836 temporary workaround for negative resNumIns... tree | commitdiff
2015-08-27 gmungocJAL-1830 refactored so no jalview.gui references from... tree | commitdiff
2015-08-27 gmungocJAL-845 compacting duplicated code tree | commitdiff
2015-08-27 gmungocJAL-1611 debug sysout suppressed tree | commitdiff
2015-08-27 gmungocJAL-1544 message label corrected tree | commitdiff
2015-08-27 gmungocJAL-1725 restrict Jalview's Jetty server to localhost tree | commitdiff
2015-08-26 gmungocJAL-1830 dropped reference counts for mappings, instead... tree | commitdiff
2015-08-26 gmungocJAL-1596 check for null pointer (thread running after... tree | commitdiff
2015-08-26 gmungocJAL-1840 correct setting status bar for structure mouseover tree | commitdiff
2015-08-26 gmungocJAL-1759 added check for null (console 'history') tree | commitdiff
2015-08-26 gmungocFix to use correct resource bundle entry tree | commitdiff
2015-08-26 gmungocJAL-1759 corrected syntax for 'atom picked' callback... tree | commitdiff
2015-08-25 gmungocJAL-1780 just a spelling change tree | commitdiff
2015-08-25 gmungocJAL-1674 more correct status bars in splitframe mouseov... tree | commitdiff
2015-08-24 gmungocMerge branch 'develop' of https://source.jalview.org... tree | commitdiff
2015-08-24 gmungocJAL-1759 removed trim() of Atom.resNumIns as not backwa... tree | commitdiff
2015-08-24 tcofoegbuJAL-1641 externalised save_as_biojs_html tree | commitdiff
2015-08-24 tcofoegbumerge tree | commitdiff
2015-08-24 tcofoegbuJAL-1834 removed quotes around truncated strings with... tree | commitdiff
2015-08-24 gmungocMerge branch 'develop' of https://source.jalview.org... tree | commitdiff
2015-08-24 gmungocJAL-845 error message on syserr if supplied files don... tree | commitdiff
2015-08-24 gmungocremove mentions of non-functional RNAInteraction colour... tree | commitdiff
2015-08-21 tcofoegbuJAL-1834 capped the tool-tip text at 500. once that... tree | commitdiff
2015-08-21 tcofoegbuJAL-1834 disabled action buttons (Back / Ok / Cancel... tree | commitdiff
2015-08-21 tcofoegbuJAL-1443 bug fix for loading pasted alignments from... tree | commitdiff
2015-08-21 tcofoegbuJAL-1831 updated json schema doc tree | commitdiff
2015-08-21 tcofoegbuclean up tree | commitdiff
2015-08-21 tcofoegbuJAL-1780 made the 'Select All' checkbox to be shown... tree | commitdiff
2015-08-21 tcofoegbuJAL-1780 changed 'Check All' to 'Select All' and extern... tree | commitdiff
2015-08-20 tcofoegbumerge tree | commitdiff
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