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JAL-2137 prevent NPE when inFile is null. Not sure this is correct ?
[jalview.git] / src /
2016-07-04 Jim ProcterJAL-2137 prevent NPE when inFile is null. Not sure... spike/phyre2 tree | commitdiff
2016-07-04 Jim ProcterJAL-2137 create 1:1 mapping between model and query... tree | commitdiff
2016-07-04 Jim ProcterJAL-2137 hack to locate a StructureSelectionManager... tree | commitdiff
2016-07-04 Jim ProcterJAL-2137 resolve safely for URI and local paths tree | commitdiff
2016-07-04 Jim ProcterJAL-2137 resolve baseURI for prepending to alignments... tree | commitdiff
2016-07-04 Jim ProcterMerge branch 'develop' into spike/JAL-2040_JAL-2137_phyre2 tree | commitdiff
2016-07-01 tcofoegbuJAL-2135 bugfix for error preventing processing of... tree | commitdiff
2016-06-30 tcofoegbuJAL-2074 Improvement to StructureChooser and FTS interf... tree | commitdiff
2016-06-30 Jim ProcterJAL-2137 basic implementation of STRUCTMODEL annotation... tree | commitdiff
2016-06-30 tcofoegbuJAL-1919 updated PDBSequenceFetcherTest and JMol parser... tree | commitdiff
2016-06-29 Jim ProcterJAL-2137 STRUCTMODEL statement added, logic not yet... tree | commitdiff
2016-06-29 tcofoegbuMerge branch 'develop' of https://source.jalview.org... tree | commitdiff
2016-06-29 tcofoegbuJAL-1479 improved Sifts PID calculation for determining... tree | commitdiff
2016-06-29 gmungocJAL-1369 fix bug reloading a project with group sequenc... tree | commitdiff
2016-06-28 tcofoegbuJAL-1479 minor refactor and housekeeping tree | commitdiff
2016-06-28 tcofoegbuMerge branch 'develop' of https://source.jalview.org... tree | commitdiff
2016-06-28 tcofoegbuJAL-1479 improved SiftsClient test coverage and impleme... tree | commitdiff
2016-06-27 gmungoctidied loop with generic iteration / loop variable tree | commitdiff
2016-06-27 gmungocJAL-2133 refactored duplicated code to AlignmentViewport tree | commitdiff
2016-06-27 gmungocJAL-1270 unit tests for HiddenSequences tree | commitdiff
2016-06-24 tcofoegbuMerge branch 'develop' of https://source.jalview.org... tree | commitdiff
2016-06-24 tcofoegbuJAL-1960 updated unit test to include the test case... tree | commitdiff
2016-06-23 gmungocJAL-2130 now simply viewer.dispose() to close down... tree | commitdiff
2016-06-22 gmungocJAL-2015 fixed bug in copy constructor and added tests tree | commitdiff
2016-06-22 gmungocJAL-1982 defensive checks for null annotations array tree | commitdiff
2016-06-22 gmungocJAL-1982 defensive test for null array of annotations tree | commitdiff
2016-06-21 Jim ProcterMerge branch 'develop' of source.jalview.org/git/jalvie... tree | commitdiff
2016-06-21 gmungocJAL-2074 suppress prompt to save closed Groovy script... tree | commitdiff
2016-06-21 Jim ProcterMerge branch 'features/JAL-1956_featureStyles' into... tree | commitdiff
2016-06-21 gmungocJAL-2074 reuse Groovy window when reopening; rebind... tree | commitdiff
2016-06-21 Jim ProcterJAL-1369 mark reference sequence & view state and resto... tree | commitdiff
2016-06-21 Jim ProcterJAL-1369 project XML efficiency TODO tree | commitdiff
2016-06-21 Jim ProcterJAL-1369 dead code TODO? tree | commitdiff
2016-06-21 Jim ProcterJAL-1369 ensure *real* alignment’s metadata written... tree | commitdiff
2016-06-21 Jim ProcterJAL-1369 make sure the fake AlignmentI produced by... tree | commitdiff
2016-06-21 Jim ProcterJAL-1369 HUGE WARNING: datamodel.HiddenSequences is... tree | commitdiff
2016-06-20 Jim ProcterJAL-1369 updated project schema - flag on JSeq to mark... tree | commitdiff
2016-06-20 Jim ProcterJAL-2065 port patch to applet tree | commitdiff
2016-06-20 Jim ProcterJAL-1551 tidy tree | commitdiff
2016-06-20 Jim ProcterJAL-1551 tidy tree | commitdiff
2016-06-20 Jim ProcterJAL-2065 don’t pass stale group reference tree | commitdiff
2016-06-20 Jim ProcterJAL-2068 avoid ArrayIndexOutOfBounds when consensus... tree | commitdiff
2016-06-20 Jim ProcterJAL-2065 check position lies within group before gettin... tree | commitdiff
2016-06-20 tcofoegbuMerge branch 'develop' of https://source.jalview.org... tree | commitdiff
2016-06-20 tcofoegbuJAL-1823 Deleted two obsolete methods in PopupMenu... tree | commitdiff
2016-06-20 Jim ProcterMerge branch 'develop' into features/JAL-1812_JAL-2083_... features/JAL-1812_JAL-2083_groovyBinding tree | commitdiff
2016-06-20 gmungocJAL-2130 call viewer.dispose() on closing Jmol tree | commitdiff
2016-06-20 gmungocJAL-1667 updated PDB example query to a valid id (witho... tree | commitdiff
2016-06-17 tcofoegbuJAL-1823 Updated tooltip to reflect how a specific... tree | commitdiff
2016-06-17 tcofoegbuJAL-1976 clear message if export is cancelled at 'Rende... tree | commitdiff
2016-06-17 tcofoegbuJAL-1976 improved exception handler. tree | commitdiff
2016-06-17 tcofoegbuJAL-1976 added an intermediate message between a user... tree | commitdiff
2016-06-16 gmungocJAL-1993 close sequence fetcher when opening database... tree | commitdiff
2016-06-16 gmungocJAL-2112 optimisation of EMBL CDS parsing tree | commitdiff
2016-06-16 gmungocJAL-1993 hide sequence fetcher dialogue until database... tree | commitdiff
2016-06-15 tcofoegbuMerge branch 'develop' of https://source.jalview.org... tree | commitdiff
2016-06-15 tcofoegbuJAL-2002 disabled 'Best Uniport Coverage' filter. JAL... tree | commitdiff
2016-06-15 gmungocJAL-2025 unit tests added tree | commitdiff
2016-06-14 tcofoegbuMerge branch 'develop' of https://source.jalview.org... tree | commitdiff
2016-06-14 tcofoegbuJAL-2102 right justify 'Mass' in uniprot FTS, and ... tree | commitdiff
2016-06-14 gmungocJAL-2114 more helpful reporting of parse failures tree | commitdiff
2016-06-14 gmungocMerge branch 'develop' of https://source.jalview.org... tree | commitdiff
2016-06-14 tcofoegbuJAL-2047 trapped block that could likely cause ClassCas... tree | commitdiff
2016-06-14 tcofoegbuJAL-2047 resolved structure chooser's displayed column... tree | commitdiff
2016-06-10 tcofoegbuMerge branch 'develop' of https://source.jalview.org... tree | commitdiff
2016-06-10 tcofoegbuJAL-1479 updated SIFTS FTP download URL, added improvem... tree | commitdiff
2016-06-10 Jim ProcterJAL-1941 added test URL and notes about PyRNA restclient tree | commitdiff
2016-06-09 gmungocJAL-2114 corrected Javadoc tree | commitdiff
2016-06-08 tcofoegbuJAL-1479 JAL- Fix to eradicate duplicate mapping output... tree | commitdiff
2016-06-06 tcofoegbuJAL-1919, JAL-1960 fix to disable refetching dbrefs... tree | commitdiff
2016-06-06 tcofoegbuJAL-1944 bugfix for wrong alignment numbering when... tree | commitdiff
2016-06-02 tcofoegbuMerge branch 'develop' of https://source.jalview.org... tree | commitdiff
2016-06-02 tcofoegbuJAL-2020 fix for Jmol choking jalview while loading... tree | commitdiff
2016-06-02 gmungocJAL-1424 corrected typos in message text keys tree | commitdiff
2016-06-02 tcofoegbuJAL-1944 java doc update and minor house keeping tree | commitdiff
2016-06-01 Jim ProcterJAL-2038 ensure bare Strings are lowercased before... tree | commitdiff
2016-06-01 tcofoegbuMerge branch 'develop' of https://source.jalview.org... tree | commitdiff
2016-06-01 tcofoegbuJAL-1944 updated bugfix implementation tree | commitdiff
2016-06-01 gmungocJAL-1424 utility to check resource bundle labels used... tree | commitdiff
2016-06-01 Jim Procterfix build tree | commitdiff
2016-05-31 Jim ProcterJAL-1551 JAL-2106 javadoc tree | commitdiff
2016-05-31 Jim ProcterJAL-2110 abstract methods should never reference their... tree | commitdiff
2016-05-31 tcofoegbumerge tree | commitdiff
2016-05-31 tcofoegbuJAL-1944 fix for visible seqs sometimes been replaced... tree | commitdiff
2016-05-31 gmungocJAL-2023 adjustments to mappings added for split frame... tree | commitdiff
2016-05-31 gmungocJAL-2110 refactor + tests to allow a dbref version... tree | commitdiff
2016-05-31 Jim ProcterMerge branch 'develop' into features/JAL-2113_emblXml1.2 tree | commitdiff
2016-05-31 Jim ProcterMerge branch 'jims/291patches' into develop tree | commitdiff
2016-05-31 gmungocJAL-1011 JAL-1989 don't mirror column-only selections... tree | commitdiff
2016-05-31 gmungocJAL-2123 use "rlabel" command to highlight with label... tree | commitdiff
2016-05-30 tcofoegbuJAL-2038 fix to enable case-insensitive file name ... tree | commitdiff
2016-05-30 Jim ProcterJAL-553 JAL-1557 always send selections after triggerin... tree | commitdiff
2016-05-30 Jim ProcterJAL-1557 allow group associated rows to be used to... tree | commitdiff
2016-05-30 Jim ProcterJAL-2077 fix: convenience method and checks for CMD... tree | commitdiff
2016-05-30 Jim ProcterJAL-1551 formatting tree | commitdiff
2016-05-30 gmungocMerge branch 'develop' of https://source.jalview.org... tree | commitdiff
2016-05-30 gmungocJAL-1989 equals method strengthened to fully match... tree | commitdiff
2016-05-30 Jim ProcterJAL-1552 fix JAL-2122 resolve File->string before addin... tree | commitdiff
2016-05-27 gmungocJAL-1989 tightened up use of flag for 'column selection... tree | commitdiff
2016-05-27 gmungocJAL-1989 added hashCode and equals, renamed field to... tree | commitdiff
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