Skip to content
New issue

Have a question about this project? Sign up for a free GitHub account to open an issue and contact its maintainers and the community.

Sign up for GitHub

By clicking “Sign up for GitHub”, you agree to our terms of service and privacy statement. We’ll occasionally send you account related emails.

Already on GitHub? Sign in to your account

TASK-7272 - Cohorts column of Variant Browser includes cohorts without calculated stats #1007

Open
wants to merge 3 commits into
base: release-2.12.x
Choose a base branch
from
Open

TASK-7272 - Cohorts column of Variant Browser includes cohorts without calculated stats #1007

Changes from all commits
Commits
Show all changes
3 commits
Select commit Hold shift + click to select a range
04c2291
clients: Minor code style fixes in opencga-client when creating the s…
jmjuanes Dec 11, 2024
ca46db0
clients: Filter study cohorts by internal status ready, calculating, …
jmjuanes Dec 11, 2024
88c4e5f
Merge branch 'release-2.12.x' into TASK-7272
jmjuanes Dec 18, 2024
File filter

Filter by extension

Filter by extension
Conversations
Failed to load comments.
Loading
Jump to
Jump to file
Failed to load files.
Loading
Diff view
Diff view
9 changes: 6 additions & 3 deletions src/core/clients/opencga/opencga-client.js
View file
Open in desktop
Original file line number Diff line number Diff line change
Expand Up @@ -418,11 +418,14 @@ export class OpenCGAClient {
// Fetch all the cohort
console.log("Fetching cohorts");
const cohortsResponse = await _this.cohorts()
.search({study: study.fqn, exclude: "samples", limit: 100});
.search({
study: study.fqn,
internalStatus: "READY,CALCULATING,INVALID",
exclude: "samples",
limit: 100,
});
study.cohorts = cohortsResponse.responses[0].results
.filter(cohort => !cohort.attributes?.IVA?.ignore);
// FIXME line above should check cohort.internal instead
// .filter(cohort => cohort.internal.index?.status === "READY");

// Keep track of the studies to fetch Disease Panels
studies.push(study.fqn);
Expand Down