taxprofiler / taxpasta

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

Refactor taxid to be integer #51

Closed Midnighter closed 1 year ago

Midnighter commented 1 year ago
codecov-commenter commented 1 year ago

Codecov Report

Base: 91.81% // Head: 92.55% // Increases project coverage by +0.74% :tada:

Coverage data is based on head (d368c0f) compared to base (0260d5c). Patch coverage: 94.44% of modified lines in pull request are covered.

Additional details and impacted files ```diff @@ Coverage Diff @@ ## dev #51 +/- ## ========================================== + Coverage 91.81% 92.55% +0.74% ========================================== Files 101 101 Lines 1392 1370 -22 Branches 88 83 -5 ========================================== - Hits 1278 1268 -10 + Misses 92 86 -6 + Partials 22 16 -6 ``` | [Impacted Files](https://codecov.io/gh/taxprofiler/taxpasta/pull/51?src=pr&el=tree&utm_medium=referral&utm_source=github&utm_content=comment&utm_campaign=pr+comments&utm_term=None) | Coverage Δ | | |---|---|---| | [...ture/application/kraken2/kraken2\_profile\_reader.py](https://codecov.io/gh/taxprofiler/taxpasta/pull/51/diff?src=pr&el=tree&utm_medium=referral&utm_source=github&utm_content=comment&utm_campaign=pr+comments&utm_term=None#diff-c3JjL3RheHBhc3RhL2luZnJhc3RydWN0dXJlL2FwcGxpY2F0aW9uL2tyYWtlbjIva3Jha2VuMl9wcm9maWxlX3JlYWRlci5weQ==) | `73.33% <ø> (ø)` | | | [.../infrastructure/application/motus/motus\_profile.py](https://codecov.io/gh/taxprofiler/taxpasta/pull/51/diff?src=pr&el=tree&utm_medium=referral&utm_source=github&utm_content=comment&utm_campaign=pr+comments&utm_term=None#diff-c3JjL3RheHBhc3RhL2luZnJhc3RydWN0dXJlL2FwcGxpY2F0aW9uL21vdHVzL21vdHVzX3Byb2ZpbGUucHk=) | `100.00% <ø> (ø)` | | | [src/taxpasta/application/service/profile\_reader.py](https://codecov.io/gh/taxprofiler/taxpasta/pull/51/diff?src=pr&el=tree&utm_medium=referral&utm_source=github&utm_content=comment&utm_campaign=pr+comments&utm_term=None#diff-c3JjL3RheHBhc3RhL2FwcGxpY2F0aW9uL3NlcnZpY2UvcHJvZmlsZV9yZWFkZXIucHk=) | `86.66% <71.42%> (-13.34%)` | :arrow_down: | | [...rastructure/application/bracken/bracken\_profile.py](https://codecov.io/gh/taxprofiler/taxpasta/pull/51/diff?src=pr&el=tree&utm_medium=referral&utm_source=github&utm_content=comment&utm_campaign=pr+comments&utm_term=None#diff-c3JjL3RheHBhc3RhL2luZnJhc3RydWN0dXJlL2FwcGxpY2F0aW9uL2JyYWNrZW4vYnJhY2tlbl9wcm9maWxlLnB5) | `100.00% <100.00%> (ø)` | | | [...ture/application/bracken/bracken\_profile\_reader.py](https://codecov.io/gh/taxprofiler/taxpasta/pull/51/diff?src=pr&el=tree&utm_medium=referral&utm_source=github&utm_content=comment&utm_campaign=pr+comments&utm_term=None#diff-c3JjL3RheHBhc3RhL2luZnJhc3RydWN0dXJlL2FwcGxpY2F0aW9uL2JyYWNrZW4vYnJhY2tlbl9wcm9maWxlX3JlYWRlci5weQ==) | `100.00% <100.00%> (ø)` | | | [...bracken/bracken\_profile\_standardisation\_service.py](https://codecov.io/gh/taxprofiler/taxpasta/pull/51/diff?src=pr&el=tree&utm_medium=referral&utm_source=github&utm_content=comment&utm_campaign=pr+comments&utm_term=None#diff-c3JjL3RheHBhc3RhL2luZnJhc3RydWN0dXJlL2FwcGxpY2F0aW9uL2JyYWNrZW4vYnJhY2tlbl9wcm9maWxlX3N0YW5kYXJkaXNhdGlvbl9zZXJ2aWNlLnB5) | `100.00% <100.00%> (ø)` | | | [...cture/application/centrifuge/centrifuge\_profile.py](https://codecov.io/gh/taxprofiler/taxpasta/pull/51/diff?src=pr&el=tree&utm_medium=referral&utm_source=github&utm_content=comment&utm_campaign=pr+comments&utm_term=None#diff-c3JjL3RheHBhc3RhL2luZnJhc3RydWN0dXJlL2FwcGxpY2F0aW9uL2NlbnRyaWZ1Z2UvY2VudHJpZnVnZV9wcm9maWxlLnB5) | `100.00% <100.00%> (ø)` | | | [...pplication/centrifuge/centrifuge\_profile\_reader.py](https://codecov.io/gh/taxprofiler/taxpasta/pull/51/diff?src=pr&el=tree&utm_medium=referral&utm_source=github&utm_content=comment&utm_campaign=pr+comments&utm_term=None#diff-c3JjL3RheHBhc3RhL2luZnJhc3RydWN0dXJlL2FwcGxpY2F0aW9uL2NlbnRyaWZ1Z2UvY2VudHJpZnVnZV9wcm9maWxlX3JlYWRlci5weQ==) | `100.00% <100.00%> (+15.38%)` | :arrow_up: | | [...fuge/centrifuge\_profile\_standardisation\_service.py](https://codecov.io/gh/taxprofiler/taxpasta/pull/51/diff?src=pr&el=tree&utm_medium=referral&utm_source=github&utm_content=comment&utm_campaign=pr+comments&utm_term=None#diff-c3JjL3RheHBhc3RhL2luZnJhc3RydWN0dXJlL2FwcGxpY2F0aW9uL2NlbnRyaWZ1Z2UvY2VudHJpZnVnZV9wcm9maWxlX3N0YW5kYXJkaXNhdGlvbl9zZXJ2aWNlLnB5) | `100.00% <100.00%> (ø)` | | | [...ture/application/diamond/diamond\_profile\_reader.py](https://codecov.io/gh/taxprofiler/taxpasta/pull/51/diff?src=pr&el=tree&utm_medium=referral&utm_source=github&utm_content=comment&utm_campaign=pr+comments&utm_term=None#diff-c3JjL3RheHBhc3RhL2luZnJhc3RydWN0dXJlL2FwcGxpY2F0aW9uL2RpYW1vbmQvZGlhbW9uZF9wcm9maWxlX3JlYWRlci5weQ==) | `100.00% <100.00%> (+13.33%)` | :arrow_up: | | ... and [16 more](https://codecov.io/gh/taxprofiler/taxpasta/pull/51/diff?src=pr&el=tree-more&utm_medium=referral&utm_source=github&utm_content=comment&utm_campaign=pr+comments&utm_term=None) | | 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)

:umbrella: View full report at Codecov.
:loudspeaker: Do you have feedback about the report comment? Let us know in this issue.