Closed gspowley closed 3 months ago
This pull request has been linked to Shortcut Story #43060: Unexpected END values in VCF dataset.
You can rebase onto main to fix the failing CI. I fixed the dask-expr error in #673
Something went wrong with the Azure jobs. They aren't even in the queue
The backport to release-0.29
failed:
The process '/usr/bin/git' failed with exit code 128
To backport manually, run these commands in your terminal:
# Fetch latest updates from GitHub
git fetch
# Create a new working tree
git worktree add .worktrees/backport-release-0.29 release-0.29
# Navigate to the new working tree
cd .worktrees/backport-release-0.29
# Create a new branch
git switch --create backport-672-to-release-0.29
# Cherry-pick the merged commit of this pull request and resolve the conflicts
git cherry-pick --mainline 1 28c5e5d7e920b83b24759915a739e683fc685fc7
# Push it to GitHub
git push --set-upstream origin backport-672-to-release-0.29
# Go back to the original working tree
cd ../..
# Delete the working tree
git worktree remove .worktrees/backport-release-0.29
Then, create a pull request where the base
branch is release-0.29
and the compare
/head
branch is backport-672-to-release-0.29
.
This PR introduces two changes related to the info
END
field:END
field is normally defined as an integer in VCF headers. This PR handles the case whereEND
is defined as a string in a VCF header.info_END
attribute in the TileDB array now contains the original value ofEND
from the VCF, including missing values.The
pos_end
TileDB attribute has not changed. If infoEND
is defined,pos_end
holds the value of infoEND
. Otherwise,pos_end
holds the valuePOS
+length(REF)
- 1.