removal of predefined auxtags added#2034
Merged
Merged
Conversation
This file contains hidden or bidirectional Unicode text that may be interpreted or compiled differently than what appears below. To review, open the file in an editor that reveals hidden Unicode characters.
Learn more about bidirectional Unicode characters
Sign up for free
to join this conversation on GitHub.
Already have an account?
Sign in to comment
Add this suggestion to a batch that can be applied as a single commit.This suggestion is invalid because no changes were made to the code.Suggestions cannot be applied while the pull request is closed.Suggestions cannot be applied while viewing a subset of changes.Only one suggestion per line can be applied in a batch.Add this suggestion to a batch that can be applied as a single commit.Applying suggestions on deleted lines is not supported.You must change the existing code in this line in order to create a valid suggestion.Outdated suggestions cannot be applied.This suggestion has been applied or marked resolved.Suggestions cannot be applied from pending reviews.Suggestions cannot be applied on multi-line comments.Suggestions cannot be applied while the pull request is queued to merge.Suggestion cannot be applied right now. Please check back later.
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.