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.

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

Provide a default file format version for BCF #170

Merged
merged 4 commits into from Jul 3, 2019
Merged

Conversation

alumi
Copy link
Member

@alumi alumi commented Jul 1, 2019

This PR depends on #169
The actual diff is 94ce1f8...581438a

Like VCFWriter, this PR provides a default file format version "VCFv4.3" for meta-info of BCF.
Though BCF has its version in the magic number BCF\2\2, the header string should start with ##fileformat=.

@codecov
Copy link

codecov bot commented Jul 1, 2019

Codecov Report

Merging #170 into master will increase coverage by <.01%.
The diff coverage is 100%.

Impacted file tree graph

@@            Coverage Diff             @@
##           master     #170      +/-   ##
==========================================
+ Coverage   86.87%   86.88%   +<.01%     
==========================================
  Files          73       73              
  Lines        5663     5667       +4     
  Branches      481      481              
==========================================
+ Hits         4920     4924       +4     
  Misses        262      262              
  Partials      481      481
Impacted Files Coverage Δ
src/cljam/io/bcf/writer.clj 90.04% <100%> (+0.19%) ⬆️

Continue to review full report at Codecov.

Legend - Click here to learn more
Δ = absolute <relative> (impact), ø = not affected, ? = missing data
Powered by Codecov. Last update 2cbb76f...584c4bf. Read the comment docs.

@alumi alumi added the bug label Jul 1, 2019
@alumi alumi marked this pull request as ready for review July 1, 2019 08:37
@alumi alumi requested a review from a team July 1, 2019 08:37
@ghost ghost requested review from r6eve and yito88 and removed request for a team July 1, 2019 08:37
@alumi alumi assigned yito88 and r6eve Jul 1, 2019
src/cljam/io/bcf/writer.clj Outdated Show resolved Hide resolved
Copy link
Contributor

@yito88 yito88 left a comment

Choose a reason for hiding this comment

The reason will be displayed to describe this comment to others. Learn more.

LGTM!

@alumi alumi unassigned yito88 Jul 2, 2019
Copy link
Contributor

@r6eve r6eve left a comment

Choose a reason for hiding this comment

The reason will be displayed to describe this comment to others. Learn more.

LGTM! Thank you for the PR.

@alumi
Copy link
Member Author

alumi commented Jul 2, 2019

@r6eve
Copy link
Contributor

r6eve commented Jul 2, 2019

Thank you for the point out.
When the bug is fixed, I'll restart build and merge this PR.

@alumi
Copy link
Member Author

alumi commented Jul 3, 2019

I've modified the JDK versions used in CI.

@r6eve
Copy link
Contributor

r6eve commented Jul 3, 2019

Great catch! I merge it.

@r6eve r6eve merged commit a568dc5 into master Jul 3, 2019
@alumi alumi deleted the fix/bcf-default-version branch July 3, 2019 01:55
@alumi
Copy link
Member Author

alumi commented Jul 3, 2019

Thank you for reviewing @r6eve @yito88! 😺

Sign up for free to join this conversation on GitHub. Already have an account? Sign in to comment
Labels
Projects
None yet
Development

Successfully merging this pull request may close these issues.

None yet

3 participants