Update NEON soil biosample records to include GOLD ecosystem pathways and gold_biosample_identifiers

[aclum]

Deliverable this task is associated with

_See Deliverables tab here: https://docs.google.com/spreadsheets/d/1jF1RU_TwQlJpqvHnKk-KieE6VlUv0je4eFddK9idPuE/edit#gid=417989680

• 1

RACI

Tag people in their roles

• Responsible: @sujaypatil96
• Accountable: @turbomam
• Consulted: neon squad
• Informed: neon squad

Describe the the task

• [ ] Update biosample_set records in NMDC for nmdc:sty-11-34xj1150 such that all biosamples have GOLD ecosystem pathway fields and gold_biosample_identifiers. GOLD made biosamples for the DNA extracts so you'll have to map from biosample_set id matching on pooling_set has_input to get pooling_set has_output, use that on processed_sample_set id to get processed_sample_set name. This will be the same as the identifier value in GOLD. ie nmdc biosample ID bsm-11-01g9wf51 maps to Gb0387288. Some samples may not go through pooling in which case you'd check against extraction_set records.

Criteria for completion

• for each VALUE, {VALUE:{$exists:false}} on biosample_set should return nothing where the list of VALUE is ecosystem ecosystem_category ecosystem_type ecosystem_subtype specific_ecosystem gold_biosample_identifiers

Estimate people time

• 1 person, 4 hours

Completion Date (Goal)

• May 3

Target Sprint Start & End Dates

• Start: April 22
• End: May 3

Tag Blocker/Contingent upon issues

• [Tagg issues]

[ssarrafan]

Sprint over, removing from sprint.