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.

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

Issue 50132: importing folder archive with identical sample IDs in diferent sample types fails #5462

Merged
merged 1 commit into from May 1, 2024

Conversation

XingY
Copy link
Contributor

@XingY XingY commented Apr 29, 2024

Rationale

The sample lookup columns in assay data are exported as sample names during folder export. When there are duplicate sample names across different samples types, the folder import fails with unable to resolve sample error.

This PR modifies assay result data import to first try to resolve assay result samples names from already processed material inputs information (which was exported using lsid and hence resolvable).

This PR does not address sample resolution for assay Run fields, which currently exports sample row id, and doesn't resolve (but doesn't error out either).

Related Pull Requests

Changes

  • try to use assay run's input material to resolve assay result samples during import

Copy link

ERROR: A pull request from 23.11_fb_50132 is expected to target release23.11-SNAPSHOT, not develop

@XingY XingY closed this Apr 29, 2024
@XingY XingY reopened this Apr 29, 2024
Copy link

ERROR: A pull request from 23.11_fb_50132 is expected to target release23.11-SNAPSHOT, not develop

@XingY XingY changed the base branch from develop to release23.11-SNAPSHOT April 29, 2024 23:12
Copy link
Contributor

@labkey-klum labkey-klum left a comment

Choose a reason for hiding this comment

The reason will be displayed to describe this comment to others. Learn more.

That's a lot of code in checkData, it's unfortunate that assays don't use DataIterators.

@XingY XingY merged commit d1fbb63 into release23.11-SNAPSHOT May 1, 2024
6 of 7 checks passed
@XingY XingY deleted the 23.11_fb_50132 branch May 1, 2024 22:49
Sign up for free to join this conversation on GitHub. Already have an account? Sign in to comment
Labels
None yet
Projects
None yet
Development

Successfully merging this pull request may close these issues.

None yet

2 participants