Ticket #357 (closed defect: fixed)

Opened 5 years ago

Last modified 4 years ago

Implement Galaxy fetch functionality in GSCF

Reported by: business@… Owned by: business@…
Priority: critical Milestone: Must have
Component: Export functionality Version: 0.6.3
Keywords: Cc:
Hardware: Operating system:
Product: URL:

Description

Implement a Galaxy plugin that fetches GSCF information via the steps in Excel export (#159).

Change History

comment:1 Changed 5 years ago by work@…

  • Milestone changed from 0.7.0 to 0.7.1

comment:2 Changed 5 years ago by work@…

  • Milestone changed from 0.7.1 to 0.8.1

comment:3 Changed 5 years ago by business@…

  • Milestone changed from 0.8.1 to 0.8.2

comment:4 Changed 5 years ago by business@…

  • Milestone changed from 0.8.2 to 0.8.3

Moving this to next milestone.

comment:5 Changed 5 years ago by work@…

  • Component changed from Unknown to Export functionality

comment:6 Changed 5 years ago by work@…

  • Milestone changed from 0.8.3 to 0.8.4

comment:7 Changed 5 years ago by business@…

  • Milestone changed from 0.8.4 to Must have

comment:8 Changed 4 years ago by business@…

  • Owner changed from s.h.sikkema@… to work@…
  • Status changed from new to assigned

As a blueprint for the controller you can either use 'Export Assay Data' or 'Advanced Query' (output choice: Sample) controllers.

  • Select study & assay
  • Get data of that assay from assay module
  • Export metadata + assay data as tab delimited file and send to Galaxy

Implement Galaxy data protocol: http://wiki.g2.bx.psu.edu/Admin/Internals/Data%20Sources?highlight=%28external%29|%28tool%29

Run Galaxy locally: defaults write com.apple.versioner.python Version 2.5

comment:9 Changed 4 years ago by business@…

  • Priority changed from major to critical

comment:10 Changed 4 years ago by work@…

  • Owner changed from work@… to business@…

comment:11 Changed 4 years ago by s.h.sikkema@…

  • Status changed from assigned to closed
  • Resolution set to fixed
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