nf-core CI

Add support for presupplied annotation files (FAA + GFF or FAA + GBK) #1011

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Triggered via pull request February 14, 2024 20:40

jfy133

synchronize #340

presupplied-orfs

Status Failure

Total duration 40m 41s

Artifacts –

ci.yml

on: pull_request

Matrix: Run pipeline with test data (AMP/ARG)

Matrix: Run pipeline with test data (BGC)

Annotations

6 errors and 18 warnings

Run pipeline with test data (BGC) (latest-everything, -profile docker,test_bgc --annotation_tool ...

Process completed with exit code 1.

Run pipeline with test data (BGC) (latest-everything, -profile docker,test_bgc --annotation_tool ...

The operation was canceled.

Run pipeline with test data (BGC) (23.04.0, -profile docker,test_preannotated_bgc --annotation_to...

The operation was canceled.

Run pipeline with test data (BGC) (latest-everything, -profile docker,test_preannotated_bgc --ann...

The operation was canceled.

Run pipeline with test data (BGC) (23.04.0, -profile docker,test_bgc --annotation_tool prokka)

The operation was canceled.

Run pipeline with test data (BGC) (23.04.0, -profile docker,test_bgc --annotation_tool bakta --an...

The operation was canceled.

Run pipeline with test data (AMP/ARG) (23.04.0, -profile docker,test --annotation_tool prokka)

Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: nf-core/setup-nextflow@v1. For more information see: https://github.blog/changelog/2023-09-22-github-actions-transitioning-from-node-16-to-node-20/.

Run pipeline with test data (AMP/ARG) (latest-everything, -profile docker,test --annotation_tool ...

Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: nf-core/setup-nextflow@v1. For more information see: https://github.blog/changelog/2023-09-22-github-actions-transitioning-from-node-16-to-node-20/.

Run pipeline with test data (AMP/ARG) (latest-everything, -profile docker,test --annotation_tool ...

Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: nf-core/setup-nextflow@v1. For more information see: https://github.blog/changelog/2023-09-22-github-actions-transitioning-from-node-16-to-node-20/.

Run pipeline with test data (AMP/ARG) (23.04.0, -profile docker,test --annotation_tool bakta --an...

Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: nf-core/setup-nextflow@v1. For more information see: https://github.blog/changelog/2023-09-22-github-actions-transitioning-from-node-16-to-node-20/.

Run pipeline with test data (AMP/ARG) (23.04.0, -profile docker,test_preannotated --annotation_to...

Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: nf-core/setup-nextflow@v1. For more information see: https://github.blog/changelog/2023-09-22-github-actions-transitioning-from-node-16-to-node-20/.

Run pipeline with test data (AMP/ARG) (latest-everything, -profile docker,test_preannotated --ann...

Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: nf-core/setup-nextflow@v1. For more information see: https://github.blog/changelog/2023-09-22-github-actions-transitioning-from-node-16-to-node-20/.

Run pipeline with test data (BGC) (latest-everything, -profile docker,test_bgc --annotation_tool ...

Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: actions/checkout@v2, nf-core/setup-nextflow@v1. For more information see: https://github.blog/changelog/2023-09-22-github-actions-transitioning-from-node-16-to-node-20/.

Run pipeline with test data (BGC) (latest-everything, -profile docker,test_bgc --annotation_tool ...

The following actions uses node12 which is deprecated and will be forced to run on node16: actions/checkout@v2. For more info: https://github.blog/changelog/2023-06-13-github-actions-all-actions-will-run-on-node16-instead-of-node12-by-default/

Run pipeline with test data (BGC) (latest-everything, -profile docker,test_bgc --annotation_tool ...

Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: actions/checkout@v2, nf-core/setup-nextflow@v1. For more information see: https://github.blog/changelog/2023-09-22-github-actions-transitioning-from-node-16-to-node-20/.

Run pipeline with test data (BGC) (latest-everything, -profile docker,test_bgc --annotation_tool ...

The following actions uses node12 which is deprecated and will be forced to run on node16: actions/checkout@v2. For more info: https://github.blog/changelog/2023-06-13-github-actions-all-actions-will-run-on-node16-instead-of-node12-by-default/

Run pipeline with test data (BGC) (23.04.0, -profile docker,test_preannotated_bgc --annotation_to...

Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: actions/checkout@v2, nf-core/setup-nextflow@v1. For more information see: https://github.blog/changelog/2023-09-22-github-actions-transitioning-from-node-16-to-node-20/.

Run pipeline with test data (BGC) (23.04.0, -profile docker,test_preannotated_bgc --annotation_to...

The following actions uses node12 which is deprecated and will be forced to run on node16: actions/checkout@v2. For more info: https://github.blog/changelog/2023-06-13-github-actions-all-actions-will-run-on-node16-instead-of-node12-by-default/

Run pipeline with test data (BGC) (latest-everything, -profile docker,test_preannotated_bgc --ann...

Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: actions/checkout@v2, nf-core/setup-nextflow@v1. For more information see: https://github.blog/changelog/2023-09-22-github-actions-transitioning-from-node-16-to-node-20/.

Run pipeline with test data (BGC) (latest-everything, -profile docker,test_preannotated_bgc --ann...

The following actions uses node12 which is deprecated and will be forced to run on node16: actions/checkout@v2. For more info: https://github.blog/changelog/2023-06-13-github-actions-all-actions-will-run-on-node16-instead-of-node12-by-default/

Run pipeline with test data (BGC) (23.04.0, -profile docker,test_bgc --annotation_tool prokka)

Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: actions/checkout@v2, nf-core/setup-nextflow@v1. For more information see: https://github.blog/changelog/2023-09-22-github-actions-transitioning-from-node-16-to-node-20/.

Run pipeline with test data (BGC) (23.04.0, -profile docker,test_bgc --annotation_tool prokka)

The following actions uses node12 which is deprecated and will be forced to run on node16: actions/checkout@v2. For more info: https://github.blog/changelog/2023-06-13-github-actions-all-actions-will-run-on-node16-instead-of-node12-by-default/

Run pipeline with test data (BGC) (23.04.0, -profile docker,test_bgc --annotation_tool bakta --an...

Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: actions/checkout@v2, nf-core/setup-nextflow@v1. For more information see: https://github.blog/changelog/2023-09-22-github-actions-transitioning-from-node-16-to-node-20/.

Run pipeline with test data (BGC) (23.04.0, -profile docker,test_bgc --annotation_tool bakta --an...

The following actions uses node12 which is deprecated and will be forced to run on node16: actions/checkout@v2. For more info: https://github.blog/changelog/2023-06-13-github-actions-all-actions-will-run-on-node16-instead-of-node12-by-default/