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JAL-2629 can now choose number of jackhmmer iterations
[jalview.git] / src /
2019-07-12 ThomasJAL-2629 can now choose number of jackhmmer iterations merge/JAL-3285_mchmmer_with_211_develop tree | commitdiff
2019-07-12 ThomasJAL-2629 fix faulty label in a MessageManager.getString... tree | commitdiff
2019-07-12 ThomasJAL-2629 add sort by evalue and bit score tree | commitdiff
2019-07-12 ThomasJAL-2629 hmmer searches now read domain rather than... tree | commitdiff
2019-07-11 ThomasJAL-2629 hmmer searches include seqs past inclusion... tree | commitdiff
2019-07-11 ThomasJAL-2629 hmm search UI and structural improvements... tree | commitdiff
2019-07-10 tvaJAL-2629 fix hmmsearch/jackhmmer assigning incorrect... tree | commitdiff
2019-07-10 tvaJAL-2629 fix hmsearch and jackhmmer not being able... tree | commitdiff
2019-07-10 tvaJAL-2629 hmmsearch # of new sequences now only displaye... tree | commitdiff
2019-07-10 tvaJAL-2629 fix incorrect hmmbuild on groups behaviour tree | commitdiff
2019-07-10 tvaJAL-2629 fix hmmsearch/jackhmmer being unable to search... tree | commitdiff
2019-07-05 tvaJAL-2629 uniquify all hmmer command sequence outputs tree | commitdiff
2019-07-05 tvaJAL-2629 fix file format issues preventing hmmsearch... tree | commitdiff
2019-07-03 tvaJAL-2629 fix search scores being read in incorrectly tree | commitdiff
2019-07-03 tvaJAL-2629 fix hmm on alignment being deleted upon runnin... tree | commitdiff
2019-07-03 tvaJAL-2629 evalues and bit scores now conserved after... tree | commitdiff
2019-07-03 tvaJAL-2629 removed empty line produced under sequence... tree | commitdiff
2019-07-03 tvaJAL-2629 can now filter by sequence e-value or bit... tree | commitdiff
2019-07-02 tvaJAL-2629 hmm match score colour scheme now colours... tree | commitdiff
2019-07-02 tvaJAL-2629 add simple jackhmmer functionality tree | commitdiff
2019-06-28 tvaJAL-2629 add ability to add background frequencies... tree | commitdiff
2019-06-28 tvaJAL-3336 add better method of determining where data... tree | commitdiff
2019-06-28 tvaJAL-3336 fix hmmsearch failing when parsing score table tree | commitdiff
2019-06-28 tvaJAL-2629 add file that should have been in previous... tree | commitdiff
2019-06-28 tvaJAL-2629 add HMM Match Score colour scheme tree | commitdiff
2019-06-10 tvaJAL-3297 pad gaps in alignment to ensure hmmalign runs tree | commitdiff
2019-06-07 tvaJAL-3291 issue fixed, passing tests added tree | commitdiff
2019-06-06 tvaJAL-3285 build Jalview XML file for current version tree | commitdiff
2019-06-06 tvaJAL-3285 fix incorrect file paths on HMMAlign/Search... tree | commitdiff
2019-06-06 tvaJAL-3285 add Cygwin environment path fix for Windows tree | commitdiff
2019-06-06 tvaJAL-3285 code changes to HMMER colour schemes not inclu... tree | commitdiff
2019-06-06 tvaJAL-3285 fix FileLoader failing to load HMMER file tree | commitdiff
2019-06-05 tvaJAL-3285 method call change tin Information to match... tree | commitdiff
2019-06-05 tvaJAL-3285 delete duplicate variables in AlignmentViewpor... tree | commitdiff
2019-06-05 tvaJAL-3285 method call change to HMMBuild not included... tree | commitdiff
2019-06-05 tvaJAL-3285 method call change in SeqPanel to match develop tree | commitdiff
2019-06-05 tvaJAL-3285 change method declaration in AAFrequency to... tree | commitdiff
2019-06-05 tvaJAL-3285 changed method call on AnnotationRenderer... tree | commitdiff
2019-06-05 tvaJAL-3285 code changes to Jalview2XML not included in... tree | commitdiff
2019-06-05 tvaJAL-3285 add unmerged code to AlignmentAnnotation tree | commitdiff
2019-06-05 tvaJAL-3285 method call name change to SeqPanel not includ... tree | commitdiff
2019-06-05 tvaJAL-3285 method call name change in OverviewPanel not... tree | commitdiff
2019-06-05 tvaJAL-3285 small method call name change to AnnotationLabels tree | commitdiff
2019-06-05 tvaJAL-3285 add unmerged code to SequenceGroup tree | commitdiff
2019-06-05 tvaJAL-3285 small method call name change missed in Consen... tree | commitdiff
2019-06-05 tvaJAL-3285 small code changes to ConsensusThread not... tree | commitdiff
2019-06-05 tvaJAL-3285 small code changes to AnnotationRenderer not... tree | commitdiff
2019-06-05 tvaJAL-3285 code changes to AnnotationLabels not included... tree | commitdiff
2019-06-05 tvaJAL-3285 add unmerged features to AlignViewportI tree | commitdiff
2019-06-05 tvaJAL-3285 add unmerged features to AlignViewport tree | commitdiff
2019-06-05 tvaJAL-3285 add unmerged features into AlignmentViewport tree | commitdiff
2019-06-05 tvaJAL-3285 add methods and small changes to StockholmFile... tree | commitdiff
2019-06-04 Jim ProcterMerge branch 'develop' into developtomchmmer tree | commitdiff
2019-05-31 Ben SoaresJAL-3247 Adjusted Uninstall Old Jalview.app to just... tree | commitdiff
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
2019-05-28 Ben SoaresJAL-1988 Some TEST code accidentally left in now remove... tree | commitdiff
2019-05-27 Ben SoaresJAL-3141 Added HashMap types for Java 1.8 compatibility tree | commitdiff
2019-05-27 Ben SoaresMerge branch 'task/JAL-3141_Customise_checkbox' into... tree | commitdiff
2019-05-27 Ben SoaresJAL-3141 Object array cast missing tree | commitdiff
2019-05-27 Ben SoaresMerge branch 'task/JAL-3247_JAL-3246_JAL-3254_JAL-3236_... tree | commitdiff
2019-05-27 Ben SoaresJAL-3141 Generified the JvUtils.buildComboWithTooltips... 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 Fixed vertical size of the example filenames... tree | commitdiff
2019-05-24 Ben SoaresJAL-3141 Reworked a lot of BackupFiles to allow the... tree | commitdiff
2019-05-22 Ben SoaresMerge branch 'bug/JAL-3141_backupfiles_prefs_widget_dis... tree | commitdiff
2019-05-21 Ben SoaresJAL-3247 Launcher start improvements. RPM and DEB no... tree | commitdiff
2019-05-20 Ben SoaresJAL-3254 Improved memory setting (allows mem for OS... tree | commitdiff
2019-05-06 gmungocJAL-3239 release note tree | commitdiff
2019-05-06 gmungocMerge remote-tracking branch 'origin/bug/JAL-3239monosp... tree | commitdiff
2019-05-06 gmungocJAL-3244 delete obsolete method tree | commitdiff
2019-05-02 gmungocJAL-3239 draw EPS or SVG one character at a time (even... bug/JAL-3239monospacedEps tree | commitdiff
2019-05-02 gmungocJAL-3244 renamed Platform method for clarity bug/JAL-3244jmolWindows tree | commitdiff
2019-05-01 gmungocJAL-3244 ignore file path separator when comparing... tree | commitdiff
2019-04-30 gmungocJAL-3241 simplified enum constructors for classloadabil... tree | commitdiff
2019-04-29 gmungocJAL-2738 JAL-2743 update unit test to match new VCF... tree | commitdiff
2019-04-26 gmungocMerge branch 'develop' of https://source.jalview.org... tree | commitdiff
2019-04-26 gmungocJAL-2743 class Javadoc tree | commitdiff
2019-04-26 gmungocJAL-2738 JAL-2743 properties to map VCF header to speci... tree | commitdiff
2019-04-26 Ben SoaresJAL-3233 Added isAMac check for -Xdock:icon addition... tree | commitdiff
2019-04-26 gmungocJAL-3010 borderless 'x' for "delete this filter condition" tree | commitdiff
2019-04-26 gmungocJAL-2808 better tooltip 'delete this condition' tree | commitdiff
2019-04-25 Ben SoaresJAL-3224 JAL-3225 Some fixes in install4j template... tree | commitdiff
2019-04-25 Ben SoaresJAL-3224 JAL-3225 Added lines to check for updates... tree | commitdiff
2019-04-24 Jim ProcterMerge branch 'task/JAL-3225_Integration_Gradle_building... tree | commitdiff
2019-04-23 Jim ProcterMerge branch 'develop' into bug/JAL-3224_getdown_change... tree | commitdiff
2019-04-20 gmungocJAL-2791 tailored message if find fails on selection... tree | commitdiff
2019-04-18 gmungocJAL-3193 dbSource always "ENSEMBL" tree | commitdiff
2019-04-16 gmungocMerge branch 'bug/JAL-3218scalePanelPopups' into develop tree | commitdiff
2019-04-15 Ben SoaresJAL-3130 Helper classes to take Class Exceptions when... tree | commitdiff
2019-04-15 gmungocJAL-3193 no separatge EnsemblGenomes source in Sequence... tree | commitdiff
2019-04-11 Jim ProcterMerge branch 'develop' into task/JAL-3130_Java_11_inves... tree | commitdiff
2019-04-10 gmungocJAL-3193 rest.ensemblgenomes.org merged to rest.ensembl.org tree | commitdiff
2019-04-10 gmungocJAL-3018 REST version updated to 10.0 tree | commitdiff
2019-04-05 Ben SoaresJAL-3130 This commit concentrates on the Mac OS X DMG... tree | commitdiff
2019-04-04 Ben SoaresJAL-3130 trying to be Java 1.8 source compatible -... tree | commitdiff
2019-04-03 gmungocJAL-3021 show Sequence Details with cursor at top tree | commitdiff
2019-04-02 gmungocJAL-3218 allow both Hide and Reveal in scale panel... bug/JAL-3218scalePanelPopups tree | commitdiff
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