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Add Bakta annotation to CI tests #249

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merged 2 commits into from
Mar 29, 2023
Merged

Add Bakta annotation to CI tests #249

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48bb940
Add bakta to CI tests
jasmezz Mar 27, 2023
30c0f7c
Update changelog
jasmezz Mar 27, 2023
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4 changes: 3 additions & 1 deletion .github/workflows/ci.yml
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Expand Up @@ -29,7 +29,7 @@ jobs:
parameters:
- "--annotation_tool prodigal"
- "--annotation_tool prokka"
## Warning: we can't test Bakta as uses more memory than available on GHA CIs
- "--annotation_tool bakta --annotation_bakta_db_downloadtype light"

steps:
- name: Check out pipeline code
Expand Down Expand Up @@ -57,6 +57,7 @@ jobs:
parameters:
- "--annotation_tool prodigal"
- "--annotation_tool prokka"
- "--annotation_tool bakta --annotation_bakta_db_downloadtype light"

steps:
- name: Check out pipeline code
Expand Down Expand Up @@ -84,6 +85,7 @@ jobs:
parameters:
- "--annotation_tool prodigal"
- "--annotation_tool prokka"
- "--annotation_tool bakta --annotation_bakta_db_downloadtype light"

steps:
- name: Check out pipeline code
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1 change: 1 addition & 0 deletions CHANGELOG.md
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Expand Up @@ -9,6 +9,7 @@ and this project adheres to [Semantic Versioning](https://semver.org/spec/v2.0.0

- [#238](https://github.com/nf-core/funcscan/pull/238) Added dedicated DRAMP database downloading step for AMPcombi to prevent parallel downloads when no database provided by user (by @jfy133)
- [#235](https://github.com/nf-core/funcscan/pull/235) Added parameter `annotation_bakta_db_downloadtype` to be able to switch between downloading either full (33.1 GB) or light (1.3 GB excluding UPS, IPS, PSC, see parameter description) versions of the Bakta database. (by @jasmezz)
- [#249](https://github.com/nf-core/funcscan/pull/249) Added bakta annotation to CI tests. (by @jasmezz)

### `Fixed`

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