Details
-
Type:
Task
-
Status: Closed (View Workflow)
-
Priority:
Major
-
Resolution: Done
-
Affects Version/s: None
-
Fix Version/s: None
-
Labels:None
-
Story Points:2
-
Epic Link:
-
Sprint:Spring 6, Summer 4
Description
Situation: usegalaxy.org website is used frequently by IGB users. When a user views data from Galaxy in IGB we attempt to load the appropriate genome in IGB. Many of the genomes line up with and use the same nomenclature as Galaxy, but there are now many more genomes in Galaxy.
Task: Update the IGB synonyms.txt with any missing Galaxy synonyms. See IGBF-1879 for additional details.
Galaxy genome API: https://usegalaxy.org/api/genomes
Galaxy Europe genome API: https://usegalaxy.eu/api/genomes
UCSC genome API (for comparison, this should be up to date in IGB already): https://api.genome.ucsc.edu/list/ucscGenomes
Attachments
Issue Links
Activity
| Field | Original Value | New Value |
|---|---|---|
| Epic Link | IGBF-1880 [ 17970 ] |
| Description |
Situation: usegalaxy.org website is used frequently by IGB users. When a user views data from Galaxy in IGB we attempt to load the appropriate genome in IGB. Many of the genomes line up with and use the same nomenclature as Galaxy, but there are now many more genomes in Galaxy.
Task: Update the IGB synonyms.txt with any missing Galaxy synonyms. Galaxy genome API: https://usegalaxy.org/api/genomes Galaxy Europe genome API: https://usegalaxy.eu/api/genomes UCSC genome API (for comparison, this should be up to date in IGB already): https://api.genome.ucsc.edu/list/ucscGenomes |
Situation: usegalaxy.org website is used frequently by IGB users. When a user views data from Galaxy in IGB we attempt to load the appropriate genome in IGB. Many of the genomes line up with and use the same nomenclature as Galaxy, but there are now many more genomes in Galaxy.
Task: Update the IGB synonyms.txt with any missing Galaxy synonyms. See Galaxy genome API: https://usegalaxy.org/api/genomes Galaxy Europe genome API: https://usegalaxy.eu/api/genomes UCSC genome API (for comparison, this should be up to date in IGB already): https://api.genome.ucsc.edu/list/ucscGenomes |
| Assignee | Paige Kulzer [ pkulzer ] |
| Sprint | Spring 3 [ 212 ] | Spring 4 [ 213 ] |
| Sprint | Spring 4 [ 213 ] |
| Rank | Ranked higher |
| Sprint | Spring 6 [ 215 ] |
| Rank | Ranked lower |
| Status | To-Do [ 10305 ] | In Progress [ 3 ] |
| Status | In Progress [ 3 ] | To-Do [ 10305 ] |
| Status | To-Do [ 10305 ] | In Progress [ 3 ] |
| Attachment | galaxy-genomes-to-add-to-synonyms.csv [ 18667 ] |
| Status | In Progress [ 3 ] | Needs 1st Level Review [ 10005 ] |
| Assignee | Paige Kulzer [ pkulzer ] | Nowlan Freese [ nfreese ] |
| Attachment | UniqueGalaxyGenomes.html [ 18668 ] | |
| Attachment | UniqueGalaxyGenomes.R [ 18669 ] |
| Sprint | Spring 6 [ 215 ] | Spring 6, Spring 7 [ 215, 216 ] |
| Rank | Ranked higher |
| Assignee | Nowlan Freese [ nfreese ] | Paige Kulzer [ pkulzer ] |
| Status | Needs 1st Level Review [ 10005 ] | First Level Review in Progress [ 10301 ] |
| Status | First Level Review in Progress [ 10301 ] | To-Do [ 10305 ] |
| Status | To-Do [ 10305 ] | In Progress [ 3 ] |
| Status | In Progress [ 3 ] | To-Do [ 10305 ] |
| Sprint | Spring 6, Spring 7 [ 215, 216 ] | Spring 6, Summer 1 [ 215, 218 ] |
| Sprint | Spring 6, Summer 1 [ 215, 218 ] | Spring 6, Summer 3 [ 215, 220 ] |
| Sprint | Spring 6, Summer 3 [ 215, 220 ] | Spring 6, Summer 4 [ 215, 221 ] |
| Status | To-Do [ 10305 ] | In Progress [ 3 ] |
| Status | In Progress [ 3 ] | Needs 1st Level Review [ 10005 ] |
| Status | Needs 1st Level Review [ 10005 ] | First Level Review in Progress [ 10301 ] |
| Status | First Level Review in Progress [ 10301 ] | Ready for Pull Request [ 10304 ] |
| Status | Ready for Pull Request [ 10304 ] | Pull Request Submitted [ 10101 ] |
| Status | Pull Request Submitted [ 10101 ] | Reviewing Pull Request [ 10303 ] |
| Status | Reviewing Pull Request [ 10303 ] | Merged Needs Testing [ 10002 ] |
| Status | Merged Needs Testing [ 10002 ] | Post-merge Testing In Progress [ 10003 ] |
| Resolution | Done [ 10000 ] | |
| Status | Post-merge Testing In Progress [ 10003 ] | Closed [ 6 ] |