sanger / sanger/sample-tracking
ST0013 As a user I would like to see the IRods root collection path for my samples so that I can find my sequencing data.
Nobody has claimed this yet.
- Dominant language
- Python
- Stars
- 0
- Forks
- 0
- PR merge metrics
- No merged PRs in 30d
Description
As a user I would like to see the IRods root collection path for my samples so that I can find my sequencing data.
Acceptance Criteria
- Add a new column to the Sample Tracking view in the database named "IRods Root Collection Paths"
- Each row should contain the distinct concatenated strings from the table seq_product_irods_locations.irods_root_collection
- Confluence page description of the report and view should be updated to include the new column
- Sanity check: It is expected that if a sample has been sequenced there should be an entry in this column.
Additional Info
An example query that pulls back the IRods path is here.
https://ssg-confluence.internal.sanger.ac.uk/display/PSDPUB/How+to+query+for+all+sequencing+run+status+changes+for+a+given+study+after+a+given+time+point
Contributor guide
First steps
- Read the whole issue, then the project's contributing guide.
- Comment on the issue to say you are picking it up — it saves two people doing the same work.
- Fork the repository and make your change on a branch.
- Open a pull request that references the issue number.
Research direction
Start with the Sample Tracking view and the example query linked in the issue, then verify that sequenced samples have an entry in the IRods Root Collection Paths column. Update the Confluence report and view description with the new column and record the sanity-check result.
Written by the indexing model from the issue text.
Assessment
- Tech stack
- python, sql
- Domain
- databases, documentation
- Issue type
- Feature
- Difficulty
- 3/5
- Estimated time
- 1-2 days
- Activity status
- Stale
- Clarity
- Mostly clear
- Newbie friendliness
- 35/100