Tripal User's Meeting 2017/09/08

Announcements:

1. Updated Tripal site:  http://tripal.info

2. Tripal v3 API documentation coming in September.

3. Online Training Events

   1. Sept 29th.  How to use Tripal v3

   2. Oct 27th.  Possible Topic Tripal + Galaxy Integration

   3. Nov 30th.  Topic TBD

   4. Possible week-long GMOD "Summer School" in November.

4. 2-Day User's Meeting and Hackathon at PAG XXVI, January 11-12th.

5. Add documentation for web services:  http://tripal.info/tutorials/v3.x/web-services

6. Thank you!

Reminders:

• Consider adding your modules into the Tripal GitHub organization.  

  • if you prefer to have your Tripal modules in a your own organization or account consider "tagging" your repository with the word "Tripal" to make it easier to find all Tripal module.

  • Link for all repositories: https://github.com/search?utf8=%E2%9C%93&q=topic%3Atripal+&type=Repositories

• Remember to update the status of your modules on the Tripal.info site.  

• If you have a new site or major updates to your existing site let us now and we can publish those on the Tripal news feed and twitter accounts.

• Send us your logo if you have shared a module with the community and would like it showcased on the Tripal.info site

Agenda:

• Python-tripal (tripaille) and loading data from Galaxy (Anthony B)

  • https://github.com/galaxy-genome-annotation/python-tripal

  • Uses a Tripal API module created by Anthony: https://github.com/abretaud/tripal_rest_api

  • Helps load data from the command-line using Python

  • Integrates data from Galaxy

  • TODO: add issue to Tripal issue queue to provide better API support for items like this.

  • Part of the Galaxy Genome Annotation: https://github.com/galaxy-genome-annotation

• Installation Profiles -- (Tripal Style) (Shawna)

  • Generic install

  • Current profile suggestions

    • Genomics site

    • Breeding site

  • What content types are desired?

    • phylogeny

  • What ontologies should be added?

  • What other profiles are desired?

  • TODO:  Create a google doc for suggestions.

  • Possibly allow user input to expand installation steps.

• How do other groups store metrics about an analysis in Chado  (Monica)

  • e.g. N50 of a genome assembly

  • How to store

  • How to display?

  • Ideas:

    • Ethy C: Store in analysisprop table.   Ethy has a vocabulary that could be shared for these properties.

    • Andrew F:  Interactive graphs to show stats across multiple analyses (e.g. multiple annotations or assemblies)

    • Anthony: https://github.com/rjchallis/assembly-stats

• Questions about Tripal v3?

  • Migration how hard is it: http://tripal.info/tutorials/v3.x/upgrade/2.x-to-3.x

  • Extension modules don't need adjusting unless the interact with Tripal created nodes.

  • TODO: create a document for developers about differences between working with nodes vs entities.

  • Generator and Documentation for creating fields:
    https://github.com/statonlab/fields_generator
    https://github.com/statonlab/fields_generator/blob/master/CV_guide.md

Items not discussed:

• Upcoming Training Meetings

  • September possible topics: Installation, migration from Tripal v2, content type creation, web services, development of fields, development of new web services.

  • October:  Tripal + Galaxy Integration, others?

  • November:  ??

• Tripal Slack project?