Skip to content

removal of predefined auxtags added#2034

Merged
whitwham merged 1 commit into
samtools:developfrom
vasudeva8:resetupd1
May 7, 2024
Merged

removal of predefined auxtags added#2034
whitwham merged 1 commit into
samtools:developfrom
vasudeva8:resetupd1

Conversation

@vasudeva8

Copy link
Copy Markdown
Contributor

Aux tags AS, CC, CG, CP, H1, H2, HI, H0, IH, MC, MD, MQ, NM, SA, TS are removed by default.
They are removed as the data in these tags are not valid after the reset operation.
This can be overridden by adding these tags to keep-tag option, by explicitly given all required tags along with these.

Man page updated for the same and missing tab values for .EX were added to avoid possible warnings.

A few of the test cases were using bwa / PN and are updated to use bwa_index/ID, so that they are correct though it didn't affect the results.
A few result files for sort tests are updated to reflect the default removal of aforementioned tags.

This fixes #2011.

@whitwham whitwham merged commit 95f5426 into samtools:develop May 7, 2024
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.

samtools reset SA-tag

2 participants