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@cjmyers cjmyers released this May 16, 2020

We are pleased to announce the release of SBOLDesigner 3.1. download from:
https://github.com/SynBioDex/SBOLDesigner/releases
On this link you will find the JAR file which will run SBOLDesigner. In addition to some small bug fixes and behavior modification, SBOLDesigner now supports a more robust version of enumerating combinatorial derivations. The enhancements to enumeration largely stand behind the newly added ability to enumerate over collections and adding pre existing combinatorial derivations. 

  • New features
    -Added ability to add variant collections to combinatorial derivations
    -Added ability to enumerate variant collections
    -Added stop site glyph. 
    -Added ability to view sequence features hierarchically
  • Changes
    -Preferences now more robust in regards to saving designs with incomplete sequences. 
    -Ability to re-use existing combinatorial derivations 
    -Sequence annotations generated upon enumeration 
    -No longer allow mixing of sequence features.
  • Bug fixes
    -Fixed bugs in regards to editing part outside namespace.
    -Fixed bug where "N" would appear in sequences. 
    -Ribozyme rendered as RNA stability element glyph
    -Constitutive promoter now rendered as promoter. 
    -Was derived from field now properly added during enumeration
Assets 3

@michael13162 michael13162 released this Apr 23, 2018

SBOLDesigner is a simple, biologist-friendly CAD software tool for creating and manipulating the sequences of genetic constructs using the Synthetic Biology Open Language (SBOL) data model. Throughout the design process, SBOL Visual symbols, a system of schematic glyphs, provide standardized visualizations of individual parts. SBOLDesigner completes a workflow for users of genetic design automation tools. It combines a simple user interface with the power of the SBOL standard and serves as a launchpad for more detailed designs involving simulations and experiments.

New features include:

  • Support for combinatorial design
  • SBOL Visual 2 compliant glyphs
  • More extensive support for SynBioHub (private accounts, search, upload)
  • Web of Registries integration
  • Improved provenance support
  • Overlay glyphs/notifications
  • Bug fixes
  • Numerous other improvements

To run, download and double click on the SBOLDesigner-3.0.jar file above. To see detailed error messages and logging, run SBOLDesigner using a terminal by running "java -jar SBOLDesigner-3.0.jar" in the same directory as the file. Make sure there is an internet connection and the latest version of Java is installed.

Assets 3
Pre-release

@michael13162 michael13162 released this Aug 29, 2017 · 282 commits to master since this release

SBOLDesigner is a simple, biologist-friendly CAD software tool for creating and manipulating the sequences of genetic constructs using the Synthetic Biology Open Language (SBOL) data model. Throughout the design process, SBOL Visual symbols, a system of schematic glyphs, provide standardized visualizations of individual parts. SBOLDesigner completes a workflow for users of genetic design automation tools. It combines a simple user interface with the power of the SBOL standard and serves as a launchpad for more detailed designs involving simulations and experiments.

New features include:

  • Support for combinatorial design
  • SBOL Visual 2 compliant glyphs
  • More extensive support for SynBioHub (private accounts, search, upload)
  • Web of Registries integration
  • Improved provenance support
  • Overlay glyphs/notifications
  • Bug fixes
  • Numerous other improvements

To run, download and double click on the SBOLDesigner-3.0.jar file above. To see detailed error messages and logging, run SBOLDesigner using a terminal by running "java -jar SBOLDesigner-3.0.jar" in the same directory as the file. Make sure there is an internet connection and the latest version of Java is installed.

Assets 3
Aug 29, 2017
Prevents the user from logging into file Registries.

@michael13162 michael13162 released this Jun 14, 2017 · 450 commits to master since this release

SBOLDesigner 2.2 is a simple, biologist-friendly CAD software tool for creating and manipulating the sequences of genetic constructs using the Synthetic Biology Open Language (SBOL) 2 data model. Throughout the design process, SBOL Visual symbols, a system of schematic glyphs, provide standardized visualizations of individual parts. SBOLDesigner 2.2 completes a workflow for users of genetic design automation tools. It combines a simple user interface with the power of the SBOL standard and serves as a launchpad for more detailed designs involving simulations and experiments.

Assets 3
Pre-release

@cjmyers cjmyers released this Jan 28, 2017 · 463 commits to master since this release

This is a pre-release of SBOLDesigner 2.2 that includes support for interfacing with SynBioHub.

Assets 6
Jan 28, 2017
Removed unneed validate action since icon missing.
Add error check on images.
Updated classpath

@michael13162 michael13162 released this Oct 23, 2016 · 680 commits to master since this release

SBOLDesigner 2.1 is a simple, biologist-friendly CAD software tool for creating and manipulating the sequences of genetic constructs using the Synthetic Biology Open Language (SBOL) 2.0 data model. Throughout the design process, SBOL Visual symbols, a system of schematic glyphs, provide standardized visualizations of individual parts. SBOLDesigner 2.1 completes a workflow for users of genetic design automation tools. It combines a simple user interface with the power of the SBOL standard and serves as a launchpad for more detailed designs involving simulations and experiments. Some new features in SBOLDesigner 2.1 are SBOL Stack integration, local repositories, importing of parts/sequences from existing files, import and export of GenBank and FASTA files, extended role ontology support, the ability to partially open designs with multiple root ComponentDefinitions, backward compatibility with SBOL 1.1, and versioning.

Assets 3

@michael13162 michael13162 released this Jul 27, 2016

SBOLDesigner 2.0 is a simple, biologist-friendly CAD software tool for creating and manipulating the sequences of genetic constructs using the Synthetic Biology Open Language (SBOL) 2.0 data model. Throughout the design process, SBOL Visual symbols, a system of schematic glyphs, provide standardized visualizations of individual parts. SBOLDesigner 2.0 completes a workflow for users of genetic design automation tools. It combines a simple user interface with the power of the SBOL standard and serves as a launchpad for more detailed designs involving simulations and experiments. Some new features in SBOLDesigner 2.0 are SBOL Stack integration, local repositories, importing of parts/sequences from existing files, import and export of GenBank and FASTA files, extended role ontology support, the ability to partially open designs with multiple root ComponentDefinitions, backward compatibility with SBOL 1.1, and versioning.

Assets 3
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