- Notifications
You must be signed in to change notification settings - Fork555
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 ourterms of service andprivacy statement. We’ll occasionally send you account related emails.
Already on GitHub?Sign in to your account
Avoid conflicting with HTSlib's kstring.c functions#346
Open
jmarshall wants to merge1 commit intolh3:masterChoose a base branch fromjmarshall:bwa_kvsprintf
base:master
Could not load branches
Branch not found:{{ refName }}
Loading
Could not load tags
Nothing to show
Loading
Are you sure you want to change the base?
Some commits from the old base branch may be removed from the timeline, and old review comments may become outdated.
Conversation
This file contains 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
Make ksprintf() static inline in kstring.h, so that it (like the otherbwa/kstring.h functions) won't conflict with similar HTSlib functions.Instead implement it and kvsprintf() in terms of a new bwa_kvsprintf()function.Fixessamtools/htslib#693.
Sign up for freeto 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Outdated suggestions cannot be applied.This suggestion has been applied or marked resolved.Suggestions cannot be applied from pending reviews.Suggestions cannot be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.
Some people's programs use both HTSlib and libbwa.a — see e.g.samtools/htslib#693. Unfortunately one function —
ksprintf
— is defined in both libraries, leading to linker errors.This happens for
ksprintf
only, because all the other functions in bwa'skstring.h are declared asstatic inline
.This PR makes
ksprintf()
static inline inkstring.h, so that it (like the otherbwa/kstring.h functions) won't conflict with similar HTSlib functions. Instead implement it and a newkvsprintf()
in terms of a newbwa_kvsprintf()
function.Fixessamtools/htslib#693.