-
Notifications
You must be signed in to change notification settings - Fork 80
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
WIP: add manifest summarization #3030
Open
bluegenes
wants to merge
14
commits into
latest
Choose a base branch
from
summarize-manifest
base: latest
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and old review comments may become outdated.
Open
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
Codecov ReportAttention: Patch coverage is
Additional details and impacted files@@ Coverage Diff @@
## latest #3030 +/- ##
==========================================
+ Coverage 86.89% 86.91% +0.01%
==========================================
Files 136 136
Lines 15542 15581 +39
Branches 2637 2637
==========================================
+ Hits 13505 13542 +37
- Misses 1735 1737 +2
Partials 302 302
Flags with carried forward coverage won't be shown. Click here to find out more. ☔ View full report in Codecov by Sentry. |
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Outdated suggestions cannot be applied.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.
I went down a rabbithole while trying to write tests for safer selection... ended up implementing manifest summarization in rust. The output of
write_summary
mimics our current python manifest summarization (https://github.com/sourmash-bio/sourmash/blob/latest/src/sourmash/sig/__main__.py#L1309-L1407).Since disk_revindex (rocksdb) are also collections with manifests, could we use this to summarize those?