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Merge branch 'hotfix/JAL-1524' into Release_2_8_2_Branch
[jalview.git]
/
src
/
jalview
/
io
/
2014-06-06
Jim Procter
JAL-1517 source formatting
tree
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commitdiff
2014-06-06
Jim Procter
JAL-1517 fix copyright for 2.8.2
tree
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commitdiff
2014-06-05
Jim Procter
JAL-1517 update copyright to version 2.8.2
tree
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commitdiff
2014-06-05
Jim Procter
Merge branch 'docs/2_8_1_Release' into Release_2_8_2_Branch
tree
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commitdiff
2014-06-03
Jim Procter
JAL-690 JAL-1503 update file types/extensions in Jalvie...
tree
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commitdiff
2014-06-03
Jim Procter
JAL-690 add .jvp as default jalview project filetype
tree
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commitdiff
2014-05-22
Jim Procter
JAL-1503 update version in GPL header
tree
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commitdiff
2014-04-23
Jim Procter
Merge branch 'JAL-1486_hiddenStartEnd' into develop
tree
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commitdiff
2014-04-23
Jim Procter
Merge branch 'JAL-1486_hiddenStartEnd' into Release_2_8...
tree
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commitdiff
2014-04-23
Jim Procter
Merge branch 'JAL-1486_hiddenStartEnd' into Release_2_8...
tree
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commitdiff
2014-04-23
Jim Procter
JAL-1486 todo for 2.8.2 release
tree
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commitdiff
2014-04-23
Jim Procter
Merge branch 'jims_marckhacks' into develop
tree
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commitdiff
2014-04-21
Jim Procter
fix for JAL-1438
tree
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commitdiff
2014-04-21
Jim Procter
Merge branch 'jims_marckhacks' into develop
tree
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commitdiff
2014-04-21
Jim Procter
fix for JAL-1478
tree
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commitdiff
2014-02-26
Jim Procter
Merge branch 'JAL-686' into develop
tree
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commitdiff
2014-02-26
Jim Procter
JAL-1457 refactoring to explore why '-' appear in annot...
tree
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commitdiff
2014-02-26
Jim Procter
fix for JAL-686 - don't trim spaces before creating...
tree
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commitdiff
2014-02-20
Jim Procter
Merge branch 'JAL-1447' into develop
tree
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commitdiff
2014-02-20
Jim Procter
Merge branch 'JAL-1447' into Release_2_8_1_Branch
tree
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commitdiff
2014-02-20
Jim Procter
JAL-1447 patch to correctly recognise FASTA files conta...
tree
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commitdiff
2014-02-18
Jim Procter
Merge branch 'JAL-1445' into develop
tree
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commitdiff
2014-02-03
Jim Procter
Merge branch 'Release_2_8_1_Branch_i18n' into try_r20b1...
tree
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commitdiff
2014-02-03
Jim Procter
Merge branch 'Release_2_8_0b1_Branch' into try_r20b1_merge
tree
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commitdiff
2014-01-29
Jim Procter
JAL-1432 updated copyright notices
tree
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commitdiff
2014-01-27
Jim Procter
JAL-1430 mfa added as a known extension for FASTA files
tree
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commitdiff
2014-01-13
Jim Procter
Merge branch 'Release_2_8_1_Branch' into Release_2_8_1_...
tree
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commitdiff
2013-12-25
darolmar
JAL-1355 (basic i18n support)
tree
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commitdiff
2013-11-07
Jim Procter
Merge branch 'JAL-1286' into develop
tree
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commitdiff
2013-11-07
Jim Procter
Merge branch 'JAL-1286' into Release_2_8_1_Branch
tree
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commitdiff
2013-11-07
Jim Procter
JAL-1286 check if local file ends with .gz and opens...
tree
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commitdiff
2013-10-15
Jim Procter
JAL-1159 Merging 2.8.1 patches and Anne Menards work...
tree
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commitdiff
2013-10-14
Jim Procter
Merge branch 'develop' into dev_from_2_8_1
tree
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commitdiff
2013-08-29
darolmar
i18n
tree
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commitdiff
2013-06-21
Jim Procter
Merge branch 'develop' into develop_m2_8_1_2
tree
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commitdiff
2013-06-21
Jim Procter
Merge branch 'JAL-1294_iupredexportimport' into develop
tree
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commitdiff
2013-06-21
Jim Procter
JAL-1325 JAL-1294 resolve SEQUENCE_REF and GROUP_REF...
tree
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commitdiff
2013-06-21
Jim Procter
JAL-1294 JAL-1325 store graphline for individual annota...
tree
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commitdiff
2013-06-14
Jim Procter
Merge branch 'develop' into develop_m2_8_1_2
tree
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commitdiff
2013-06-14
Jim Procter
Merge branch 'JAL-1316' into develop
tree
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commitdiff
2013-06-14
Jim Procter
JAL-1316 compact '' to '
tree
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commitdiff
2013-06-14
Jim Procter
JAL-1316 recognise and extract quoted region as nodename
tree
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commitdiff
2013-06-07
Jim Procter
Merge branch 'develop' into develop_m2_8_1_2
tree
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commitdiff
2013-06-07
Jim Procter
Merge branch 'JAL-1161_optimisingAnnotationPanel' into...
tree
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commitdiff
2013-05-24
Jim Procter
Merge branch 'menard' into develop_m2_8_1_2
tree
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commitdiff
2013-05-24
Jim Procter
patch for JAL-1300 fixes JAL-1294: read and write COMBI...
tree
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commitdiff
2013-05-24
Jim Procter
JAL-381 Desktop.addInternalFrame cannot be called in...
tree
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commitdiff
2013-05-24
Jim Procter
JAL-1299 fix: ensure a new graphGroup is created if...
tree
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commitdiff
2013-05-24
Jim Procter
fix for JAL-1297: COMBINE output now follows specificat...
tree
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commitdiff
2013-05-24
Jim Procter
JAL-1070 - [ not a real patch ] - include offending...
tree
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commitdiff
2013-05-13
Jim Procter
JAL-1286 URL stream reader tries to use a GZIPInputStre...
tree
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commitdiff
2013-04-12
Jim Procter
JAL-1286 URL stream reader tries to use a GZIPInputStre...
tree
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commitdiff
2013-02-14
Jim Procter
Merge branch 'JAL-1199-Stk_writing' into rnaml_test
tree
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commitdiff
2013-02-14
Jim Procter
JAL-1140 reinstate the simpler version of parsing code...
tree
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commitdiff
2013-02-13
Jim Procter
Merge branch 'jims_annotate3d_update' into menard_final...
tree
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commitdiff
2013-02-13
jprocter
fix merge conflicts for finess on JAL-1140 (introduced...
tree
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commitdiff
2013-02-13
jprocter
JAL-1213 JAL-674 - import a PDB file using Jmol data...
tree
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commitdiff
2013-02-11
jprocter
patch for 'This parser does not support specification...
tree
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commitdiff
2013-02-06
jprocter
JAL-1265 basic support for parsing database accessions...
tree
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commitdiff
2013-02-06
jprocter
JAL-1199 refactored stockholm test code from main class...
tree
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commitdiff
2013-02-05
jprocter
formatting
tree
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commitdiff
2012-12-17
Natasha
test for output a file in Stockholm format
tree
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commitdiff
2012-12-12
Natasha
Output accession number for file in stockholm format
tree
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commitdiff
2012-12-07
jprocter
Anne's refined RNAML parser. Seems to have some bugs...
tree
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commitdiff
2012-12-07
jprocter
Anne reinstated general stockholm parser code but exten...
tree
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commitdiff
2012-12-07
jprocter
formatting and error report cleanup
tree
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commitdiff
2012-12-07
jprocter
proxy commit for Anne Menard <menard.annec@gmail.com...
tree
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commitdiff
2012-12-04
jprocter
JAL-1140 - handled VARNA specific RNA exceptions within...
tree
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commitdiff
2012-12-04
jprocter
JAL-1140 - handle VARNA specific RNA exceptions within...
tree
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commitdiff
2012-12-04
jprocter
JAL-1140 - IO classes should only raise generic IOExcep...
tree
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commitdiff
2012-12-04
jprocter
JAL-1213 JAL-674 - import a PDB file using Jmol data...
tree
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commitdiff
2012-11-23
Natasha
stockholm file output code developed by Natasha Sherstneva
tree
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commitdiff
2012-11-17
jprocter
Merge branch 'develop' into menard
tree
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commitdiff
2012-11-17
jprocter
FileParse adapter for reading directly from inputstreams
tree
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commitdiff
2012-11-17
jprocter
format adapter should return AlignmentI
tree
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commitdiff
2012-11-17
jprocter
formatting
tree
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commitdiff
2012-11-17
jprocter
sequence numbering from 1
tree
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commitdiff
2012-11-17
jprocter
formatting
tree
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commitdiff
2012-11-17
jprocter
formatting
tree
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commitdiff
2012-11-15
Paolo Di Tommaso
Fixed T-Coffee file scores parser to support extended...
tree
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commitdiff
2012-11-15
jprocter
allow .rnaml as a filename extension
tree
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commitdiff
2012-11-15
jprocter
comment on jalview.io.AlignFile architecture
tree
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commitdiff
2012-11-15
jprocter
source formatting
tree
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commitdiff
2012-11-15
jprocter
Merge branch 'develop' into menard
tree
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commitdiff
2012-11-08
jprocter
tidy imports
tree
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commitdiff
2012-10-22
jprocter
Jalview 2.8 Source Header
tree
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commitdiff
2012-10-03
jprocter
formatting
tree
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commitdiff
2012-08-31
jprocter
Merge branch 'develop' into menard
tree
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commitdiff
2012-08-31
jprocter
JAL-1015 resolve dataset sequence before searching...
tree
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commitdiff
2012-08-31
jprocter
JAL-1015 refactor tooltip html generation code to jalvi...
tree
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commitdiff
2012-08-20
jprocter
JAL-1140 bugfix - getDataName throws errors - prefer...
tree
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commitdiff
2012-08-20
jprocter
JAL-1140 use the Reader provided by the jalview.io...
tree
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commitdiff
2012-08-14
Anne Menard
last version stay many bugs ..
tree
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commitdiff
2012-07-16
Anne Menard
Merge branch 'develop' of https://source.jalview.org...
tree
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commitdiff
2012-07-10
Anne Menard
v2
tree
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commitdiff
2012-07-05
Anne Menard
Add support RNAML format
tree
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commitdiff
2012-07-03
jprocter
JAL-961 allow calcId to be specified independently...
tree
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commitdiff
2012-07-01
jprocter
JAL-1117 alleviate lock starvation
tree
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commitdiff
2012-06-13
jprocter
JAL-1116 - location where vamsas sync failure occurs
tree
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commitdiff
2012-06-13
jprocter
javatidy
tree
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commitdiff
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