Add new fields on the portal

[jecos]

Objective

Add these new fields on the portal :

• Duo Code : related to kids-first/kf-api-dataservice/issues/541
• Library Prep and Library Selection : related to kids-first/kf-api-dataservice/issues/540
• Taxonomy : related to kids-first/kf-api-dataservice/issues/542

UI

Duo Code

• Cohort Builder : Add a filter in Biospecimens section
• File repository : Add a filter in Browse All > Participants > Biospecimens section

Library Prep and Library Selection

• Cohort Builder : Add two filters in Available data section (TBD : for now there is not all sequencing-experiments fields , there is only Experiment Strategy)
• File repository : Add two filter in Browse All > Sequencing Experiments section

Taxonomy

TBD

Technical Details

Duo Code

Extract :

• Correspond to field duo_ids in /biospecimens dataservice endpoint

Transform :

• Need to map each duo code with this label from this file

Load :

• participant_centric : new field duo_code under biospecimens
• file_centric : new field duo_code under participants > biospecimens

Library Prep

Extract :

• Correspond to field library_prep in /sequencing-experiments dataservice endpoint

Transform :

• None

Load :

• participant_centric : new field library_prep under biospecimens > files > sequencing_experiment AND files
• file_centric : new field library_prep under sequencing_experiment

Library Selection

Extract :

• Correspond to field library_selection in /sequencing-experiments dataservice endpoint

Transform :

• None

Load :

• participant_centric : new field library_selection under biospecimens > files > sequencing_experiment AND files
• file_centric : new field library_selection under sequencing_experiment

Taxonomy

TBD

[denis-crsj]

Allison mentioned that they were hoping to have the fields added during their current Sprint. Once the fields are there, we'll be able to test what we had done a couple of months back and then deploy.

[denis-crsj]

@adipaul1981 After following up with Allison, the task wasn't completed yet since they were very busy with the covid-19 demo. It should be completed soon.

[denis-crsj]

1 year old card, moving to the icebox for now.