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License: MIT License
Currently Arnold resides outside of the mongo-eco-system. We should migrate it into where the other mongo dbs reside.
Refactor Arnold where necessary
Moved Pydantic to version 2 #47
https://docs.google.com/document/d/1eRqtCeIIYboYPw2GdyMb6ER4j4C2Z4PyQ9Nf2Otzfl8/edit#
Investigate Number of delivered analyses (ie have a delivered_date set in statusdb)
The trending capabilities should be removed from Arnold since the software should only deal with storing and fetching of data. Trending will be implemented elsewhere, with perhaps different software.
A decision has been reach to continue the development for the collection of pipeline metrics in Arnold, so the functionality developed in Maven will be implemented within Arnold.
Target response
[
{ date: "2020/01", datapoints: [{ tag: "WGS", turnaround_time: 80 },
]
[
{ date: "2020/01", datapoints: [{ priority: "low", turnaround_time: 80 },
]
for dunamic plots
In trending endpoints, some negative values are way off the charts and totally change the look and proportions of graphs
Add endpoint in the API to receive QC metrics data from QC.
Received data should the be validated and stored in the mongoDB.
The cigrid tab for turnaround times is broken due to requests failing against the arnold api
Network Error https://arnold.scilifelab.se/api/v1/turnaround?&date_min=2022-12-01&date_max=2023-12-01&group=tag
Seems like the endpoint is broken.
After an update to the python3.XX-slim base images, Gunicorn has problems creating threads. See issue docker-library/python#835.
Secure endpoints of Arnold:
TBD
GET https://arnold.scilifelab.se/api/v1/trends/nr_samples?&year=2022&group=customer
returns data of samples received for cust0 and cust124 in December 2022
@annaengstrom reported the bug
Find field names reused (or have potential to be reused) by all pipelines and fields unique to pipelines
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