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

Jump to bottom

VCF parser returning FILL instead of MISSING values #1192

Closed
jeromekelleher opened this issue Feb 9, 2024 · 0 comments
Closed

VCF parser returning FILL instead of MISSING values #1192

jeromekelleher opened this issue Feb 9, 2024 · 0 comments
Labels
bug Something isn't working
Milestone
0.8.0

Comments

@jeromekelleher
Copy link
Collaborator

As described in #1190, we are currently returning int FILL values (-2) rather than missing data (-1) for INFO fields, and (I think) FORMAT fields as well.

I'm not sure if this generalises to Float and String fields as well, but I think it probably does.
@jeromekelleher jeromekelleher added the bug Something isn't working label Feb 9, 2024
@jeromekelleher jeromekelleher added this to the 0.8.0 release milestone Feb 9, 2024
This was referenced Feb 15, 2024
Open
Closed
jeromekelleher added a commit to jeromekelleher/sgkit that referenced this issue Feb 15, 2024
@jeromekelleher
Errors in missing vs pad values in VCF
3279fe1 
Closes sgkit-dev#1192
jeromekelleher added a commit to jeromekelleher/sgkit that referenced this issue Feb 15, 2024
@jeromekelleher
Errors in missing vs pad values in VCF
e82d622 
Closes sgkit-dev#1192
jeromekelleher added a commit to jeromekelleher/sgkit that referenced this issue Feb 16, 2024
@jeromekelleher
Errors in missing vs pad values in VCF
fa73397 
Closes sgkit-dev#1192
jeromekelleher added a commit to jeromekelleher/sgkit that referenced this issue Feb 16, 2024
@jeromekelleher
Errors in missing vs pad values in VCF
1a93fd1 
Closes sgkit-dev#1192
@jeromekelleher jeromekelleher mentioned this issue Feb 20, 2024
Open
jeromekelleher added a commit to jeromekelleher/sgkit that referenced this issue Mar 5, 2024
@jeromekelleher
Errors in missing vs pad values in VCF
b61a09b 
Closes sgkit-dev#1192
@mergify mergify bot closed this as completed in 2eb3ab9 Mar 5, 2024
Sign up for free to join this conversation on GitHub. Already have an account? Sign in to comment
Assignees
No one assigned
Labels
bug Something isn't working
Projects
None yet
Milestone
0.8.0
Development

No branches or pull requests
1 participant
@jeromekelleher