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01-23-09: Integrating Tools Using Ruby and Genboree APIs
Part 2: Integrating Tools Via BioRuby ;
Integrating Tools with Genboree using the Genboree API
Mr. Andrew Jackson - andrewj@bcm.eduIntegrating Tools with Genboree using the Genboree API
Important Links:
Genboree API Help
Some Help pages with an overview of the Genboree REST API, as well as more detailed pages about specific aspects of the API (which include lists of exposed resources and such).
See also the example script from lecture, especially for uploading LFF data since that resource path is new.
Some Help pages with an overview of the Genboree REST API, as well as more detailed pages about specific aspects of the API (which include lists of exposed resources and such).
See also the example script from lecture, especially for uploading LFF data since that resource path is new.
Ruby Lecture 2 - Slides & Code
The link above is to the handful of PowerPoint slides. Here are links where you can see the toy code examples we examined in class:
- methodUse.rb
- classUse.rb
- classInheritanceUse.rb
- getCutSite.rb
- biorubyPubMed.rb
- biorubySequence.rb
- apiExample1.rb
- apiExample2_putLFF.rb
The link above is to the handful of PowerPoint slides. Here are links where you can see the toy code examples we examined in class:
- methodUse.rb
- classUse.rb
- classInheritanceUse.rb
- getCutSite.rb
- biorubyPubMed.rb
- biorubySequence.rb
- apiExample1.rb
- apiExample2_putLFF.rb
RubyGems
Go here and download & install Rubygems on your system. If needed, there is lots of documentation about Rubygems there, but really what I covered should be more than enough for this class.
Once installed, use the gem command to install these gems:
- rest-open-uri
- bio
- json (Windows users: install the "json_pure" gem instead)
Go here and download & install Rubygems on your system. If needed, there is lots of documentation about Rubygems there, but really what I covered should be more than enough for this class.
Once installed, use the gem command to install these gems:
- rest-open-uri
- bio
- json (Windows users: install the "json_pure" gem instead)
Documents & Files:
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