SynBioDex/SBOLDesigner issues and pull requests

#395 - Bump httpclient from 4.5.3 to 4.5.13

Pull Request - State: open - Opened by dependabot[bot] about 3 years ago
Labels: dependencies

#394 - Bump junit from 4.12 to 4.13.1

Pull Request - State: open - Opened by dependabot[bot] over 3 years ago
Labels: dependencies

#393 - Annotation editor does not change namespace

Issue - State: open - Opened by cjmyers about 4 years ago

#392 - CSV feature

Pull Request - State: closed - Opened by SamuelSauce over 4 years ago

#391 - CSV Export Support for Enumerated Designs

Issue - State: open - Opened by cjmyers over 4 years ago
Labels: enhancement, priority

#390 - CSV Output for Parts in a Design

Issue - State: open - Opened by cjmyers over 4 years ago

#389 - Select multiple parts when adding variant to a combinatorial design

Issue - State: open - Opened by bertfordley over 4 years ago

#388 - Changed provenance string.

Pull Request - State: closed - Opened by SamuelSauce over 4 years ago - 1 comment

#387 - Create a sequence feature viewer

Issue - State: open - Opened by cjmyers over 4 years ago
Labels: enhancement

#386 - Sequence feature view should show sequence subset in the editor

Issue - State: open - Opened by cjmyers over 4 years ago
Labels: change

#385 - Think it has been fixed.

Pull Request - State: closed - Opened by cjmyers over 4 years ago

#384 - Issue383

Pull Request - State: closed - Opened by cjmyers over 4 years ago - 1 comment

#383 - Editing part not in namespace drops sequence

Issue - State: closed - Opened by cjmyers over 4 years ago - 2 comments
Labels: bug, priority

#382 - This might fix the issue.

Pull Request - State: closed - Opened by SamuelSauce over 4 years ago - 1 comment

#381 - Fixed exception.

Pull Request - State: closed - Opened by SamuelSauce over 4 years ago - 1 comment

#380 - Updated gitignore

Pull Request - State: closed - Opened by cjmyers over 4 years ago

#379 - Updating namespace disconnects CombinatorialDerivations

Issue - State: closed - Opened by cjmyers over 4 years ago - 4 comments
Labels: bug, priority

#378 - Canceling Add Variant throws an exception

Issue - State: closed - Opened by cjmyers over 4 years ago
Labels: bug, priority

#377 - Creating fresh components as opposed to creating a copy of the document.

Pull Request - State: closed - Opened by cjmyers over 4 years ago

#376 - Issue375

Pull Request - State: closed - Opened by cjmyers over 4 years ago - 1 comment

#375 - Missing stop site glyph.

Issue - State: closed - Opened by SamuelSauce over 4 years ago - 1 comment
Labels: priority

#374 - RNA stability element is in the list of parts twice.

Issue - State: closed - Opened by SamuelSauce over 4 years ago

#373 - Should be a fix to issue #361, test to confirm functionality.

Pull Request - State: closed - Opened by SamuelSauce over 4 years ago - 1 comment

#372 - Dialog to select combo deriv add ability to select, delete or open

Issue - State: closed - Opened by cjmyers over 4 years ago - 2 comments
Labels: enhancement

#371 - Add support to enumerate collections

Issue - State: closed - Opened by cjmyers over 4 years ago - 3 comments
Labels: enhancement

#370 - Issue359

Pull Request - State: closed - Opened by SamuelSauce over 4 years ago - 9 comments

#369 - Changed the preference to be 'if the sequence changes'

Pull Request - State: closed - Opened by SamuelSauce almost 5 years ago

#368 - Added new SO term for SO:0000374. Fixes #358

Pull Request - State: closed - Opened by SamuelSauce almost 5 years ago

#367 - Have added functionality to rebuild SequenceAnnotations

Pull Request - State: closed - Opened by SamuelSauce almost 5 years ago - 3 comments

#366 - Have added functionality to rebuild SequenceAnnotations

Pull Request - State: closed - Opened by AlfredCapstoneGithub almost 5 years ago

#365 - Installation Java compatibility

Issue - State: closed - Opened by geoffbaldwin almost 5 years ago - 2 comments

#364 - Release is very out of date

Issue - State: closed - Opened by jakebeal almost 5 years ago - 1 comment

#363 - SynBioHub Properties Incorrectly Copied When Enumerating Existing Combinatorial Design

Issue - State: closed - Opened by nroehner about 5 years ago - 4 comments
Labels: bug, priority

#362 - Sequence Annotations Needed When Enumerating from a Combinatorial Design

Issue - State: closed - Opened by nroehner about 5 years ago - 1 comment
Labels: bug

#361 - Add Ability to Specify Whether a Sequence is Generated on Save

Issue - State: closed - Opened by nroehner about 5 years ago - 10 comments
Labels: enhancement, priority

#360 - Designs Generated from a Combinatorial Design Need New Sequences

Issue - State: closed - Opened by nroehner about 5 years ago - 5 comments
Labels: bug, priority

#359 - Add Ability to Reuse Existing CombinatorialDerivations in a New Hierarchy

Issue - State: closed - Opened by nroehner about 5 years ago - 4 comments
Labels: enhancement, priority

#358 - Ribozyme rendered as RNA stability element glyph

Issue - State: closed - Opened by cjmyers about 5 years ago - 3 comments
Labels: bug, priority

#357 - Merging in changes from master

Pull Request - State: closed - Opened by cjmyers about 5 years ago

#356 - Overlapping features

Pull Request - State: closed - Opened by SamuelSauce over 5 years ago - 2 comments

#355 - Index out of bounds exception when editing part outside namespace.

Issue - State: closed - Opened by SamuelSauce over 5 years ago - 3 comments
Labels: priority

#354 - With fix from libSBOLj library, functionality should be complete.

Pull Request - State: closed - Opened by SamuelSauce over 5 years ago - 2 comments

#353 - Query

Pull Request - State: closed - Opened by cjmyers over 5 years ago - 1 comment

#352 - Query should be fixed. Should be tested more.

Pull Request - State: closed - Opened by SamuelSauce over 5 years ago - 1 comment

#351 - Delete namespace object fixed.

Pull Request - State: closed - Opened by SamuelSauce over 5 years ago - 1 comment

#350 - Delete object outside namespace does not complete after saying yes

Issue - State: closed - Opened by cjmyers over 5 years ago - 9 comments
Labels: bug, priority

#349 - So term changed.

Pull Request - State: closed - Opened by SamuelSauce over 5 years ago - 5 comments

#348 - Getting Ns in sequence

Issue - State: closed - Opened by cjmyers over 5 years ago - 1 comment
Labels: bug, priority

#347 - Compile instructions in README are obsolete

Issue - State: closed - Opened by jakebeal over 5 years ago - 1 comment

#346 - Functionality of editing a part not in your namespace is now fixed.

Pull Request - State: closed - Opened by SamuelSauce over 5 years ago - 18 comments

#345 - Component of a part without a definition is being dropped

Issue - State: closed - Opened by Fontanapink over 5 years ago - 2 comments
Labels: bug, needs testing

#344 - Import part only import version 1 of the files

Issue - State: closed - Opened by Gonza10V over 5 years ago - 5 comments
Labels: bug, priority

#343 - Unable to save edits on parts without version field

Issue - State: closed - Opened by tim-tx over 5 years ago - 3 comments
Labels: bug, priority

#342 - Removed duplicate "always".

Pull Request - State: closed - Opened by SamuelSauce over 5 years ago

#340 - Synbiohub is broken

Issue - State: closed - Opened by jurquiza over 5 years ago - 3 comments

#339 - Download images as an SVG file

Issue - State: open - Opened by Fontanapink over 5 years ago - 7 comments
Labels: enhancement

#338 - Change operator glyph to use binding_site SO term (SO:0000409)

Issue - State: closed - Opened by cjmyers over 5 years ago - 2 comments
Labels: priority, change

#337 - Improve rendering of overlapping features

Issue - State: closed - Opened by cjmyers over 5 years ago - 3 comments
Labels: priority, change

#336 - Improve rendering of sequence features

Issue - State: closed - Opened by cjmyers over 5 years ago - 2 comments

#333 - Composite flip finished.

Pull Request - State: closed - Opened by SamuelSauce over 5 years ago

#331 - Explain why you're asking for contact info on first launch

Issue - State: closed - Opened by jakebeal over 5 years ago - 1 comment
Labels: priority, change

#330 - Don't own part message is confusing

Issue - State: closed - Opened by cjmyers over 5 years ago - 15 comments
Labels: priority, change

#326 - Command-Q is not asking to save

Issue - State: open - Opened by cjmyers over 5 years ago
Labels: bug

#325 - Error while trying to switch collections while looking for sequences.

Issue - State: closed - Opened by SamuelSauce over 5 years ago - 1 comment

#312 - Get SBOL from remote SynBioHubs

Issue - State: open - Opened by cjmyers almost 6 years ago - 1 comment
Labels: change

#302 - Drag and Drop

Issue - State: open - Opened by JMante1 almost 6 years ago
Labels: enhancement

#293 - Don't allow mixing of CDs and sequence features

Issue - State: closed - Opened by michael13162 almost 6 years ago - 2 comments
Labels: bug, priority

#292 - Sequence features show yellow "no sequence" warning icon

Issue - State: closed - Opened by michael13162 almost 6 years ago - 2 comments

#291 - Undo

Issue - State: open - Opened by michael13162 almost 6 years ago
Labels: enhancement

#290 - Deletion of features/sequence annotations should not be allowed

Issue - State: closed - Opened by michael13162 almost 6 years ago - 1 comment
Labels: bug, priority

#274 - Agent should be included in saved files to make them complete

Issue - State: closed - Opened by cjmyers about 6 years ago - 4 comments
Labels: change

#265 - Add wasDerivedFrom to refer to template Component for generated components from a derivation

Issue - State: closed - Opened by cjmyers about 6 years ago - 5 comments
Labels: change

#256 - Ability to assign color to glyph outline and fill area

Issue - State: open - Opened by gmcarthuriv about 6 years ago - 1 comment
Labels: enhancement

#252 - Consider paying Apple $99 to sign releases

Issue - State: open - Opened by jakebeal over 6 years ago - 8 comments
Labels: enhancement

#250 - Do not show warning for Sequence Features (i.e., Role not Component)

Issue - State: closed - Opened by cjmyers over 6 years ago - 2 comments
Labels: bug, needs testing

#244 - Can't change part URI prefix

Issue - State: open - Opened by jakebeal over 6 years ago - 17 comments
Labels: change

#237 - Would be nice to be able to unassign part

Issue - State: open - Opened by cjmyers over 6 years ago
Labels: enhancement

#236 - color and superpose warning icons onto glyphs

Issue - State: open - Opened by jakebeal over 6 years ago - 6 comments
Labels: enhancement

#233 - After adding variants cannot save

Issue - State: closed - Opened by cjmyers over 6 years ago - 13 comments
Labels: change, needs testing

#223 - Should squash unneeded queries

Issue - State: closed - Opened by cjmyers over 6 years ago - 2 comments
Labels: enhancement, priority

#222 - Collections are inscrutable

Issue - State: open - Opened by jakebeal over 6 years ago - 11 comments
Labels: change

#216 - Standards Mac hotkeys don't work

Issue - State: open - Opened by jakebeal over 6 years ago - 1 comment
Labels: bug

#213 - Add ability to introduce hierarchy

Issue - State: open - Opened by cjmyers over 6 years ago
Labels: enhancement

#199 - Merging changes from SBOLInputDialog into SBOLDesigner

Issue - State: open - Opened by cjmyers over 6 years ago - 2 comments
Labels: change

#192 - SEP V008 - Functional Glyphs

Issue - State: closed - Opened by michael13162 almost 7 years ago - 1 comment

#187 - SEP V003 - Distinguished Unknowns

Issue - State: closed - Opened by michael13162 almost 7 years ago - 3 comments

#161 - Create sequence after assembly

Issue - State: open - Opened by cjmyers about 7 years ago
Labels: enhancement

#158 - Circular should be determined by type and not circular component

Issue - State: open - Opened by cjmyers about 7 years ago - 3 comments
Labels: bug

#125 - Add support to BOOST for sequence optimization

Issue - State: open - Opened by cjmyers over 7 years ago - 3 comments
Labels: enhancement

#118 - Display of part with no sub-structure

Issue - State: open - Opened by cjmyers over 7 years ago
Labels: enhancement

#115 - Add option to use FileDialog instead of JFileChooser

Issue - State: open - Opened by cjmyers over 7 years ago
Labels: change

#104 - Editing Component Roles

Issue - State: open - Opened by cjmyers over 7 years ago
Labels: enhancement, question

#95 - Representing SequenceAnnotations without Components

Issue - State: closed - Opened by cjmyers over 7 years ago - 2 comments
Labels: bug, enhancement

#94 - Select glyphs as a group when overlapping

Issue - State: closed - Opened by cjmyers over 7 years ago - 1 comment
Labels: enhancement, question

#71 - Create a Geneious plugin of SBOLDesigner

Issue - State: open - Opened by michael13162 almost 8 years ago - 1 comment
Labels: enhancement

#47 - SBOL Designer Tutorial

Issue - State: closed - Opened by cjmyers about 8 years ago - 1 comment
Labels: Documentation

#46 - Documentation

Issue - State: closed - Opened by cjmyers about 8 years ago - 2 comments
Labels: Documentation

#29 - Option to use reference the latest version

Issue - State: closed - Opened by cjmyers about 8 years ago - 3 comments
Labels: enhancement

#22 - Add a separate Component editor

Issue - State: open - Opened by cjmyers about 8 years ago - 3 comments
Labels: enhancement

#21 - Add a sequence editor

Issue - State: open - Opened by cjmyers about 8 years ago - 2 comments
Labels: enhancement

GitHub / SynBioDex/SBOLDesigner issues and pull requests