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JAL-1483 cut and paste from SW score model to allow scores based on sequences to...
[jalview.git] / src / jalview / io /
2014-04-21 Jim Procterfix for JAL-1478 tree | commitdiff
2014-02-26 Jim ProcterJAL-1457 refactoring to explore why '-' appear in annot... tree | commitdiff
2014-02-26 Jim Procterfix for JAL-686 - don't trim spaces before creating... tree | commitdiff
2014-02-20 Jim ProcterMerge branch 'JAL-1447' into Release_2_8_1_Branch tree | commitdiff
2014-02-20 Jim ProcterJAL-1447 patch to correctly recognise FASTA files conta... tree | commitdiff
2014-02-03 Jim ProcterMerge branch 'Release_2_8_1_Branch_i18n' into try_r20b1... tree | commitdiff
2014-02-03 Jim ProcterMerge branch 'Release_2_8_0b1_Branch' into try_r20b1_merge tree | commitdiff
2014-01-29 Jim ProcterJAL-1432 updated copyright notices tree | commitdiff
2014-01-27 Jim ProcterJAL-1430 mfa added as a known extension for FASTA files tree | commitdiff
2014-01-13 Jim ProcterMerge branch 'Release_2_8_1_Branch' into Release_2_8_1_... tree | commitdiff
2013-12-25 darolmarJAL-1355 (basic i18n support) tree | commitdiff
2013-11-07 Jim ProcterMerge branch 'JAL-1286' into Release_2_8_1_Branch tree | commitdiff
2013-11-07 Jim ProcterJAL-1286 check if local file ends with .gz and opens... tree | commitdiff
2013-08-29 darolmari18n tree | commitdiff
2013-06-21 Jim ProcterJAL-1325 JAL-1294 resolve SEQUENCE_REF and GROUP_REF... tree | commitdiff
2013-06-21 Jim ProcterJAL-1294 JAL-1325 store graphline for individual annota... tree | commitdiff
2013-06-14 Jim ProcterJAL-1316 compact '' to ' tree | commitdiff
2013-06-14 Jim ProcterJAL-1316 recognise and extract quoted region as nodename tree | commitdiff
2013-05-24 Jim Procterpatch for JAL-1300 fixes JAL-1294: read and write COMBI... tree | commitdiff
2013-05-24 Jim ProcterJAL-381 Desktop.addInternalFrame cannot be called in... tree | commitdiff
2013-05-24 Jim ProcterJAL-1299 fix: ensure a new graphGroup is created if... tree | commitdiff
2013-05-24 Jim Procterfix for JAL-1297: COMBINE output now follows specificat... tree | commitdiff
2013-05-24 Jim ProcterJAL-1070 - [ not a real patch ] - include offending... tree | commitdiff
2013-04-12 Jim ProcterJAL-1286 URL stream reader tries to use a GZIPInputStre... tree | commitdiff
2013-02-06 jprocterJAL-1265 basic support for parsing database accessions... tree | commitdiff
2013-02-06 jprocterJAL-1199 refactored stockholm test code from main class... tree | commitdiff
2013-02-05 jprocterformatting tree | commitdiff
2012-12-17 Natashatest for output a file in Stockholm format tree | commitdiff
2012-12-12 NatashaOutput accession number for file in stockholm format tree | commitdiff
2012-11-23 Natashastockholm file output code developed by Natasha Sherstneva tree | commitdiff
2012-11-15 Paolo Di TommasoFixed T-Coffee file scores parser to support extended... tree | commitdiff
2012-11-08 jproctertidy imports tree | commitdiff
2012-10-22 jprocterJalview 2.8 Source Header tree | commitdiff
2012-10-03 jprocterformatting tree | commitdiff
2012-08-31 jprocterJAL-1015 resolve dataset sequence before searching... tree | commitdiff
2012-08-31 jprocterJAL-1015 refactor tooltip html generation code to jalvi... tree | commitdiff
2012-07-03 jprocterJAL-961 allow calcId to be specified independently... tree | commitdiff
2012-07-01 jprocterJAL-1117 alleviate lock starvation tree | commitdiff
2012-06-13 jprocterJAL-1116 - location where vamsas sync failure occurs tree | commitdiff
2012-06-13 jprocterjavatidy tree | commitdiff
2012-06-12 jprocterJAL-1115 refactor base collection for Alignment from... tree | commitdiff
2012-05-30 jprocterJAL-1114 - refactor methods handling Vectors and Hashta... tree | commitdiff
2012-05-24 jprocterJAL-1065 per sequence and per-alignment scores added... tree | commitdiff
2012-05-24 jprocterJAL-1065 - ensure null entries in annotation row so... tree | commitdiff
2012-05-23 jprocterJAL-1067, JAL-1105 - refactor parser to fit Jalview... tree | commitdiff
2012-05-23 jproctertodo: blocked by JAL-1104 tree | commitdiff
2012-05-22 jprocterMerge remote-tracking branch 'origin/Tcoffee_JAL-1065... tree | commitdiff
2012-03-02 jprocter(JAL-1052) todo for output of RNA consensus lines tree | commitdiff
2012-03-02 jprocter(JAL-1052) basic consensus line parsing to rna structur... tree | commitdiff
2012-03-02 jprocter(JAL-1052) make RNA secondary structure string parsing... tree | commitdiff
2011-10-21 jproctertodo tree | commitdiff
2011-10-10 jprocterupdate author list in license for (JAL-826) tree | commitdiff
2011-10-04 jprocterMerge remote-tracking branch 'remotes/origin/2_5_1_rna_... tree | commitdiff
2011-09-27 jprocterapply version 2.7 copyright tree | commitdiff
2011-08-30 jprocterensure parsing errors and 'lack of data' errors are... tree | commitdiff
2011-08-19 jprocterJAL-908 JAL-701 refactored HTML escape/unescape code... tree | commitdiff
2011-07-25 janengelhardtsome print statements to test things tree | commitdiff
2011-07-25 janengelhardtJAL-878; Additional structures with a 'GR' tag in Stock... tree | commitdiff
2011-07-25 janengelhardtJAL-841; Structure trigger token in jalview.io.Alignmen... tree | commitdiff
2011-07-25 janengelhardt'Update to Covariaton color scheme' merge; JAL-580 tree | commitdiff
2011-07-25 janengelhardtStart merging of Laurens Code tree | commitdiff
2011-07-21 jprocterensure contents of hash is extended JAL-876 tree | commitdiff
2011-06-24 jprocterfix to preserve sequence numbering in MSF (JAL-847) tree | commitdiff
2011-05-17 jprocterrefactor to allow distinct StructureSelectionManager... tree | commitdiff
2011-02-17 jprocterclassCast exception - attempting to update registry... tree | commitdiff
2011-01-21 jprocterrelaxed ID matching parameter JAL-753 tree | commitdiff
2011-01-07 jproctercheck for all http protocols tree | commitdiff
2011-01-05 jprocterJAL-727 tree | commitdiff
2011-01-05 jprocterJAL-727 tree | commitdiff
2010-12-17 jprocterJAL-715 tree | commitdiff
2010-12-15 jprocterupdate modification state flag according to parsing... tree | commitdiff
2010-12-15 jproctergetters and modification state flag tree | commitdiff
2010-12-15 jproctermore accurate determination of annotation modification tree | commitdiff
2010-12-15 jprocterrefactored key calc for hash to separate function tree | commitdiff
2010-12-14 jprocter1.1 compat tree | commitdiff
2010-12-14 jprocter1.1 compat tree | commitdiff
2010-12-14 jprocteralways provide reference to hashtable so feature settin... tree | commitdiff
2010-12-14 jprocterrefactored and patched for JAL-721 tree | commitdiff
2010-12-10 jproctermime types and handler tree | commitdiff
2010-12-09 jprocterdataIn.ready() is not a test of data source validity! tree | commitdiff
2010-12-09 jprocterinitial list of mime-type bindings to jalview data... tree | commitdiff
2010-12-09 jprocterinitial implementation for JAL-718 tree | commitdiff
2010-11-14 jprocterrefactored to decouple dependencies due to FileParse... tree | commitdiff
2010-11-14 jprocterimport annotation file from datasource tree | commitdiff
2010-11-14 jprocterrefactored protocol parser and allow human readable... tree | commitdiff
2010-10-12 jprocterpatch primary issue causing JAL-664 re testing for... tree | commitdiff
2010-10-12 jprocterpatch for secondary issue in JAL-664 re parsing empty... tree | commitdiff
2010-09-23 jprocterapply jalview code style tree | commitdiff
2010-09-23 jprocterJalview 2.6 source licence tree | commitdiff
2010-09-15 jprocteradded colour by label to feature type colourspec and... tree | commitdiff
2010-08-20 jprocterwrapped code from URL retrieval tester as a function... tree | commitdiff
2010-06-14 jprocterpatch for JAL-572 tree | commitdiff
2010-06-11 jprocterstockholm added as readable format (Lauren Lui commit) tree | commitdiff
2010-06-06 jprocterpatch for JAL-542 tree | commitdiff
2010-06-03 jprocterpatch ensuring annotation is output correctly re *... tree | commitdiff
2010-06-03 jprocterpatch and error reports re JAL-554 tree | commitdiff
2010-04-30 jprocterjalview 2.5 release banner tree | commitdiff
2010-04-29 jprocterisAligned assertion (bug 0008144) tree | commitdiff
2010-04-28 jproctergroup/annotation association tree | commitdiff
2010-04-23 jprocterskips any annotation that appears to be identical to... tree | commitdiff
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