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jalview.git
2019-07-11 ThomasJAL-2629 hmm search UI and structural improvements... commit | commitdiff | tree | snapshot
2019-07-10 tvaJAL-2629 fix hmmsearch/jackhmmer assigning incorrect... commit | commitdiff | tree | snapshot
2019-07-10 tvaJAL-2629 fix hmsearch and jackhmmer not being able... commit | commitdiff | tree | snapshot
2019-07-10 tvaJAL-2629 hmmsearch # of new sequences now only displaye... commit | commitdiff | tree | snapshot
2019-07-10 tvaJAL-2629 fix incorrect hmmbuild on groups behaviour commit | commitdiff | tree | snapshot
2019-07-10 tvaJAL-2629 fix hmmsearch/jackhmmer being unable to search... commit | commitdiff | tree | snapshot
2019-07-05 tvaJAL-2629 uniquify all hmmer command sequence outputs commit | commitdiff | tree | snapshot
2019-07-05 tvaJAL-2629 fix file format issues preventing hmmsearch... commit | commitdiff | tree | snapshot
2019-07-03 tvaJAL-2629 fix search scores being read in incorrectly commit | commitdiff | tree | snapshot
2019-07-03 tvaJAL-2629 fix hmm on alignment being deleted upon runnin... commit | commitdiff | tree | snapshot
2019-07-03 tvaJAL-2629 evalues and bit scores now conserved after... commit | commitdiff | tree | snapshot
2019-07-03 tvaJAL-2629 removed empty line produced under sequence... commit | commitdiff | tree | snapshot
2019-07-03 tvaJAL-2629 can now filter by sequence e-value or bit... commit | commitdiff | tree | snapshot
2019-07-02 tvaJAL-2629 hmm match score colour scheme now colours... commit | commitdiff | tree | snapshot
2019-07-02 tvaJAL-2629 add simple jackhmmer functionality commit | commitdiff | tree | snapshot
2019-06-28 tvaJAL-2629 add ability to add background frequencies... commit | commitdiff | tree | snapshot
2019-06-28 tvaJAL-3336 add better method of determining where data... commit | commitdiff | tree | snapshot
2019-06-28 tvaJAL-3336 fix hmmsearch failing when parsing score table commit | commitdiff | tree | snapshot
2019-06-28 tvaJAL-2629 another file that should have been in previous... commit | commitdiff | tree | snapshot
2019-06-28 tvaJAL-2629 add file that should have been in previous... commit | commitdiff | tree | snapshot
2019-06-28 tvaJAL-2629 add HMM Match Score colour scheme commit | commitdiff | tree | snapshot
2019-06-10 tvaJAL-3297 pad gaps in alignment to ensure hmmalign runs commit | commitdiff | tree | snapshot
2019-06-07 tvaJAL-3291 issue fixed, passing tests added commit | commitdiff | tree | snapshot
2019-06-07 tvaJAL-3285 fix errors in tests introduced by merge commit | commitdiff | tree | snapshot
2019-06-06 tvaJAL-3285 build Jalview XML file for current version commit | commitdiff | tree | snapshot
2019-06-06 tvaJAL-3285 fix incorrect file paths on HMMAlign/Search... commit | commitdiff | tree | snapshot
2019-06-06 tvaJAL-3285 add Cygwin environment path fix for Windows commit | commitdiff | tree | snapshot
2019-06-06 tvaJAL-3285 code changes to HMMER colour schemes not inclu... commit | commitdiff | tree | snapshot
2019-06-06 tvaJAL-3285 fix FileLoader failing to load HMMER file commit | commitdiff | tree | snapshot
2019-06-05 tvaJAL-3285 method call change tin Information to match... commit | commitdiff | tree | snapshot
2019-06-05 tvaJAL-3285 delete duplicate variables in AlignmentViewpor... commit | commitdiff | tree | snapshot
2019-06-05 tvaJAL-3285 method call change to HMMBuild not included... commit | commitdiff | tree | snapshot
2019-06-05 tvaJAL-3285 method call change in SeqPanel to match develop commit | commitdiff | tree | snapshot
2019-06-05 tvaJAL-3285 change method declaration in AAFrequency to... commit | commitdiff | tree | snapshot
2019-06-05 tvaJAL-3285 changed method call on AnnotationRenderer... commit | commitdiff | tree | snapshot
2019-06-05 tvaJAL-3285 code changes to Jalview2XML not included in... commit | commitdiff | tree | snapshot
2019-06-05 tvaJAL-3285 add unmerged code to AlignmentAnnotation commit | commitdiff | tree | snapshot
2019-06-05 tvaJAL-3285 method call name change to SeqPanel not includ... commit | commitdiff | tree | snapshot
2019-06-05 tvaJAL-3285 method call name change in OverviewPanel not... commit | commitdiff | tree | snapshot
2019-06-05 tvaJAL-3285 small method call name change to AnnotationLabels commit | commitdiff | tree | snapshot
2019-06-05 tvaJAL-3285 add unmerged code to SequenceGroup commit | commitdiff | tree | snapshot
2019-06-05 tvaJAL-3285 small method call name change missed in Consen... commit | commitdiff | tree | snapshot
2019-06-05 tvaJAL-3285 small code changes to ConsensusThread not... commit | commitdiff | tree | snapshot
2019-06-05 tvaJAL-3285 small code changes to AnnotationRenderer not... commit | commitdiff | tree | snapshot
2019-06-05 tvaJAL-3285 code changes to AnnotationLabels not included... commit | commitdiff | tree | snapshot
2019-06-05 tvaJAL-3285 add unmerged features to AlignViewportI commit | commitdiff | tree | snapshot
2019-06-05 tvaJAL-3285 add unmerged features to AlignViewport commit | commitdiff | tree | snapshot
2019-06-05 tvaJAL-3285 add unmerged features into AlignmentViewport commit | commitdiff | tree | snapshot
2019-06-05 tvaJAL-3285 add methods and small changes to StockholmFile... commit | commitdiff | tree | snapshot
2019-06-04 Jim ProcterMerge branch 'develop' into developtomchmmer commit | commitdiff | tree | snapshot
2019-06-04 Ben SoaresJAL-3287 correct local file URI for appbase and getdown... commit | commitdiff | tree | snapshot
2019-06-04 Ben SoaresJAL-3287 adjustment to HelpLinksChecker commit | commitdiff | tree | snapshot
2019-06-04 Ben SoaresJAL-3287 adjustment to HelpLinksChecker to run in Windo... commit | commitdiff | tree | snapshot
2019-05-31 Ben SoaresJAL-3247 Adjusted Uninstall Old Jalview.app to just... commit | commitdiff | tree | snapshot
2019-05-29 gmungocJAL-2738 error logging if no ##reference found commit | commitdiff | tree | snapshot
2019-05-29 gmungocJAL-2738 accept .csi, default to GRCh37:homo_sapiens... commit | commitdiff | tree | snapshot
2019-05-28 Ben SoaresJAL-3277 Fixed getdown splashscreen. For unknown reason... commit | commitdiff | tree | snapshot
2019-05-28 Ben SoaresJAL-1988 Some TEST code accidentally left in now remove... commit | commitdiff | tree | snapshot
2019-05-28 Jalview Development... JAL-3247 sign the AppleScript uninstaller commit | commitdiff | tree | snapshot
2019-05-28 Ben SoaresJAL-3141 deleted TODO comment in Messages_es commit | commitdiff | tree | snapshot
2019-05-28 Ben SoaresMerge branch 'develop' into task/JAL-3141_JAL-3247_merge commit | commitdiff | tree | snapshot
2019-05-27 Ben SoaresJAL-3141 Added HashMap types for Java 1.8 compatibility commit | commitdiff | tree | snapshot
2019-05-27 Ben SoaresMerge branch 'task/JAL-3141_Customise_checkbox' into... commit | commitdiff | tree | snapshot
2019-05-27 Ben SoaresJAL-3141 Object array cast missing commit | commitdiff | tree | snapshot
2019-05-27 Ben SoaresMerge branch 'task/JAL-3247_JAL-3246_JAL-3254_JAL-3236_... commit | commitdiff | tree | snapshot
2019-05-27 Ben SoaresMerge branch 'develop' into task/JAL-3247_JAL-3246_JAL... commit | commitdiff | tree | snapshot
2019-05-27 Ben SoaresJAL-3247 Added AppleScript based App to run old Jalview... commit | commitdiff | tree | snapshot
2019-05-27 Ben SoaresJAL-3141 Generified the JvUtils.buildComboWithTooltips... commit | commitdiff | tree | snapshot
2019-05-27 gmungocJAL-3141 test file in test folder not examples commit | commitdiff | tree | snapshot
2019-05-25 Ben SoaresJAL-3141 One more error log fix commit | commitdiff | tree | snapshot
2019-05-25 Ben SoaresJAL-3141 Added tooltips on Schemes dropdown and Customi... commit | commitdiff | tree | snapshot
2019-05-24 Ben SoaresJAL-3141 Fixes recommended from gmc's test commit | commitdiff | tree | snapshot
2019-05-24 gmungocJAL-1988 Spanish typo corrección commit | commitdiff | tree | snapshot
2019-05-24 Ben SoaresJAL-3141 Fixed vertical size of the example filenames... commit | commitdiff | tree | snapshot
2019-05-24 Ben SoaresJAL-3141 Fixed tests commit | commitdiff | tree | snapshot
2019-05-24 Ben SoaresJAL-3141 Reworked a lot of BackupFiles to allow the... commit | commitdiff | tree | snapshot
2019-05-22 Ben SoaresMerge branch 'bug/JAL-3141_backupfiles_prefs_widget_dis... commit | commitdiff | tree | snapshot
2019-05-22 gmungocJAL-3111 help file spelling correction commit | commitdiff | tree | snapshot
2019-05-21 Ben SoaresJAL-3247 Launcher start improvements. RPM and DEB no... commit | commitdiff | tree | snapshot
2019-05-21 gmungocJAL-3273 small correction to expected result calculation commit | commitdiff | tree | snapshot
2019-05-20 Ben SoaresMerge branch 'task/JAL-3254_improved_max_memory_stack_s... commit | commitdiff | tree | snapshot
2019-05-20 Ben SoaresJAL-3247 Unix shell installer and tar archive corrected... commit | commitdiff | tree | snapshot
2019-05-20 Ben SoaresJAL-3254 Improved memory setting (allows mem for OS... commit | commitdiff | tree | snapshot
2019-05-13 Jim ProcterMerge branch 'task/JAL-3247_Install4j_improvements... commit | commitdiff | tree | snapshot
2019-05-13 Ben SoaresMerge branch 'task/JAL-3236_install4j_linux_unix_userla... commit | commitdiff | tree | snapshot
2019-05-13 Ben SoaresJAL-3247 nogradle option on this mac build/install... commit | commitdiff | tree | snapshot
2019-05-13 Ben SoaresJAL-3247 JAL-3254 JAL-3260 Fixed: JVL file jalview... commit | commitdiff | tree | snapshot
2019-05-10 Jim ProcterMerge branch 'task/JAL-3246_local_getdown_files' into... commit | commitdiff | tree | snapshot
2019-05-10 Ben SoaresJAL-3246 JAL-3247 Reworked JVL files as getdown.txt... commit | commitdiff | tree | snapshot
2019-05-10 Jim ProcterMerge branch 'task/JAL-3236_install4j_linux_unix_userla... commit | commitdiff | tree | snapshot
2019-05-09 Ben SoaresJAL-3236 Added unixInstaller to install4jMediaTypes... commit | commitdiff | tree | snapshot
2019-05-09 Jim ProcterMerge branch 'task/JAL-3246_local_getdown_files' into... commit | commitdiff | tree | snapshot
2019-05-09 Ben SoaresJAL-3247 JAL-3254 Ensure .jvp and .jvl appear first... commit | commitdiff | tree | snapshot
2019-05-09 Ben SoaresJAL-3247 JAL-3254 Fixed file association launch behavio... commit | commitdiff | tree | snapshot
2019-05-08 Ben SoaresJAL-3246 add -Pgetdown_local=true to use local files commit | commitdiff | tree | snapshot
2019-05-08 Ben SoaresJAL-3247 JAL-3254 changing default location of jalview... commit | commitdiff | tree | snapshot
2019-05-08 Ben SoaresJAL-3247 JAL-3254 Getdown now opening any files thrown... commit | commitdiff | tree | snapshot
2019-05-08 Ben SoaresJAL-3247 JAL-3254 Automatically creating correct file... commit | commitdiff | tree | snapshot
2019-05-08 Ben SoaresJAL-3247 JAL-3254 Automatically creating correct file... commit | commitdiff | tree | snapshot
2019-05-08 Ben SoaresJAL-3247 Script to produce auto file association files... commit | commitdiff | tree | snapshot
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