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Note: It is possible for work to take place simultaneously in the three sections with overlapping periods, allowing curation workflows for different months to coincide.
1. Curation and Annotation
Run Pubmed crawler to generate PublicationView manifest [205 publications generated, long sprint anticipated]
Send Amber and Jineta a copy of the PublicationView manifest from latest crawl to review for MC2 Center Newsletter publication highlights
Send Amber "News from CCKP" for MC2 Center Newsletter
Annotate publications in PublicationView manifest [In progress]
Generate ToolView and DatasetView manifests based on PublicationView manifest
Run the automated curation workflow to upload publications, datasets and tools [This includes splitting manifests, processing and validating manifests, generating target synapse IDs for upload, schema updates, upload to synapse and (in progress) a validation check for uploads)
Generate UNION tables
QC of staging tables
Performing automate portal sync to CCKP
Validate data on the CCKP
Status check [Plan to report numbers for each category following pubmed crawl]:
Publication upload [ ]
Tool upload [ ]
Data set upload [ ]
2. Data model
Update valid values in the data model and build
Generate templates from new model
Release new model version [no changes, no release]
Update DCA config [no changes, no update]
3. Contributor Engagement
Emails to contributors (by grant) with info on newly added manifests, link to project, DCA, and instructions on review, annotation, validation, and submission, as applicable
Jira Help Desk ticket tracking, review, triage, with data model updates, as needed (TBD)
Annotation gap-filling of DatasetView and ToolView manifests
The text was updated successfully, but these errors were encountered:
Pending Annotations still growing? @jaybee84 Check which resources have this. Not that "Pending Annotations" was historically implemented with publications that were not yet open access. But these are now also pushed to portal as an incentive for adding annotations to these resources.
resume emails to contributors with existing documentation. Maybe targeted engagement to certain contributor
Publications: pending annotation for tumor type + assay (as discussed in the meeting mostly due to restricted access, but some on open access)
Datasets : pending annotations for tissue
aditigopalan
changed the title
[June] Curation Workflow Tracking
[June] [Pubs] Curation Workflow Tracking
Sep 4, 2024
This ticket tracks curation workflow progression.
Note: It is possible for work to take place simultaneously in the three sections with overlapping periods, allowing curation workflows for different months to coincide.
1. Curation and Annotation
Status check [Plan to report numbers for each category following pubmed crawl]:
2. Data model
3. Contributor Engagement
The text was updated successfully, but these errors were encountered: