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taxprofiler / taxpasta

TAXnomic Profile Aggregation and STAndardisation
https://taxpasta.readthedocs.io/
Apache License 2.0
34 stars 7 forks source link

Add bracken #23

Closed Midnighter closed 2 years ago

Midnighter commented 2 years ago
Midnighter commented 2 years ago

Need to generate some data from the pipeline first, then I will add tests.

codecov-commenter commented 2 years ago

Codecov Report

Base: 87.61% // Head: 89.92% // Increases project coverage by +2.31% :tada:

Coverage data is based on head (cc19b35) compared to base (6f79094). Patch coverage: 100.00% of modified lines in pull request are covered.

Additional details and impacted files ```diff @@ Coverage Diff @@ ## dev #23 +/- ## ========================================== + Coverage 87.61% 89.92% +2.31% ========================================== Files 19 22 +3 Lines 218 268 +50 Branches 5 5 ========================================== + Hits 191 241 +50 Misses 23 23 Partials 4 4 ``` | [Impacted Files](https://codecov.io/gh/taxprofiler/taxpasta/pull/23?src=pr&el=tree&utm_medium=referral&utm_source=github&utm_content=comment&utm_campaign=pr+comments&utm_term=None) | Coverage Δ | | |---|---|---| | [...frastructure/application/kraken2\_profile\_reader.py](https://codecov.io/gh/taxprofiler/taxpasta/pull/23/diff?src=pr&el=tree&utm_medium=referral&utm_source=github&utm_content=comment&utm_campaign=pr+comments&utm_term=None#diff-c3JjL3RheHBhc3RhL2luZnJhc3RydWN0dXJlL2FwcGxpY2F0aW9uL2tyYWtlbjJfcHJvZmlsZV9yZWFkZXIucHk=) | `73.33% <ø> (ø)` | | | [...rc/taxpasta/infrastructure/application/\_\_init\_\_.py](https://codecov.io/gh/taxprofiler/taxpasta/pull/23/diff?src=pr&el=tree&utm_medium=referral&utm_source=github&utm_content=comment&utm_campaign=pr+comments&utm_term=None#diff-c3JjL3RheHBhc3RhL2luZnJhc3RydWN0dXJlL2FwcGxpY2F0aW9uL19faW5pdF9fLnB5) | `100.00% <100.00%> (ø)` | | | [...asta/infrastructure/application/bracken\_profile.py](https://codecov.io/gh/taxprofiler/taxpasta/pull/23/diff?src=pr&el=tree&utm_medium=referral&utm_source=github&utm_content=comment&utm_campaign=pr+comments&utm_term=None#diff-c3JjL3RheHBhc3RhL2luZnJhc3RydWN0dXJlL2FwcGxpY2F0aW9uL2JyYWNrZW5fcHJvZmlsZS5weQ==) | `100.00% <100.00%> (ø)` | | | [...frastructure/application/bracken\_profile\_reader.py](https://codecov.io/gh/taxprofiler/taxpasta/pull/23/diff?src=pr&el=tree&utm_medium=referral&utm_source=github&utm_content=comment&utm_campaign=pr+comments&utm_term=None#diff-c3JjL3RheHBhc3RhL2luZnJhc3RydWN0dXJlL2FwcGxpY2F0aW9uL2JyYWNrZW5fcHJvZmlsZV9yZWFkZXIucHk=) | `100.00% <100.00%> (ø)` | | | [...ication/bracken\_profile\_standardisation\_service.py](https://codecov.io/gh/taxprofiler/taxpasta/pull/23/diff?src=pr&el=tree&utm_medium=referral&utm_source=github&utm_content=comment&utm_campaign=pr+comments&utm_term=None#diff-c3JjL3RheHBhc3RhL2luZnJhc3RydWN0dXJlL2FwcGxpY2F0aW9uL2JyYWNrZW5fcHJvZmlsZV9zdGFuZGFyZGlzYXRpb25fc2VydmljZS5weQ==) | `100.00% <100.00%> (ø)` | | | [...ication/kraken2\_profile\_standardisation\_service.py](https://codecov.io/gh/taxprofiler/taxpasta/pull/23/diff?src=pr&el=tree&utm_medium=referral&utm_source=github&utm_content=comment&utm_campaign=pr+comments&utm_term=None#diff-c3JjL3RheHBhc3RhL2luZnJhc3RydWN0dXJlL2FwcGxpY2F0aW9uL2tyYWtlbjJfcHJvZmlsZV9zdGFuZGFyZGlzYXRpb25fc2VydmljZS5weQ==) | `100.00% <100.00%> (ø)` | | Help us with your feedback. Take ten seconds to tell us [how you rate us](https://about.codecov.io/nps?utm_medium=referral&utm_source=github&utm_content=comment&utm_campaign=pr+comments&utm_term=None). Have a feature suggestion? [Share it here.](https://app.codecov.io/gh/feedback/?utm_medium=referral&utm_source=github&utm_content=comment&utm_campaign=pr+comments&utm_term=None)

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