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Adding and simplifying MaskPrimers options #1241

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Adding and simplifying MaskPrimers options

Adding and simplifying MaskPrimers options #1241

Triggered via pull request August 20, 2024 16:02
@ggabernetggabernet
synchronize #344
ggabernet:dev
Status Cancelled
Total duration 1h 16m 30s
Artifacts 5

ci.yml

on: pull_request
Matrix: Run pipeline with test data
Matrix: Run workflow test with different profiles
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20 errors and 31 warnings
Run workflow test with different profiles (23.04.0, test_no_umi)
Process completed with exit code 1.
Run pipeline with test data (latest-everything)
Process completed with exit code 1.
Run pipeline with test data (23.04.0)
The job was canceled because "latest-everything" failed.
Run pipeline with test data (23.04.0)
The operation was canceled.
Run workflow test with different profiles (latest-everything, test_no_umi)
Process completed with exit code 1.
Run workflow test with different profiles (23.04.0, test_nocluster)
Process completed with exit code 1.
Run workflow test with different profiles (23.04.0, test_fetchimgt)
Process completed with exit code 1.
Run workflow test with different profiles (23.04.0, test_nebnext_umi)
Process completed with exit code 1.
Run workflow test with different profiles (latest-everything, test_nebnext_umi)
Process completed with exit code 1.
Run workflow test with different profiles (latest-everything, test_nocluster)
Process completed with exit code 1.
Run workflow test with different profiles (23.04.0, test_tcr)
Process completed with exit code 1.
Run workflow test with different profiles (latest-everything, test_tcr)
Process completed with exit code 1.
Run workflow test with different profiles (latest-everything, test_fetchimgt)
Canceling since a higher priority waiting request for 'nf-core CI-344' exists
Run workflow test with different profiles (latest-everything, test_fetchimgt)
ENOENT: no such file or directory, stat '/home/runner/work/airrflow/airrflow/work/d2/f1189ff5e21c3211153f950d873823/imgtdb_base/human/leader/imgt_human_IGLL.fasta.tmp'
Run workflow test with different profiles (latest-everything, test_fetchimgt)
The operation was canceled.
Run workflow test with different profiles (latest-everything, test_fetchimgt)
Process completed with exit code 1.
Run workflow test with different profiles (latest-everything, test_clontech_umi)
Canceling since a higher priority waiting request for 'nf-core CI-344' exists
Run workflow test with different profiles (latest-everything, test_clontech_umi)
The operation was canceled.
Run workflow test with different profiles (23.04.0, test_clontech_umi)
Canceling since a higher priority waiting request for 'nf-core CI-344' exists
Run workflow test with different profiles (23.04.0, test_clontech_umi)
The operation was canceled.
Run workflow test with different profiles (23.04.0, test_no_umi)
The following actions uses node12 which is deprecated and will be forced to run on node16: actions/upload-artifact@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 workflow test with different profiles (23.04.0, test_no_umi)
The following actions use a deprecated Node.js version and will be forced to run on node20: actions/checkout@v3, nf-core/setup-nextflow@v1, actions/upload-artifact@v2. For more info: https://github.blog/changelog/2024-03-07-github-actions-all-actions-will-run-on-node20-instead-of-node16-by-default/
Run workflow test with different profiles (latest-everything, test_no_umi)
The following actions uses node12 which is deprecated and will be forced to run on node16: actions/upload-artifact@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 workflow test with different profiles (latest-everything, test_no_umi)
The following actions use a deprecated Node.js version and will be forced to run on node20: actions/checkout@v3, nf-core/setup-nextflow@v1, actions/upload-artifact@v2. For more info: https://github.blog/changelog/2024-03-07-github-actions-all-actions-will-run-on-node20-instead-of-node16-by-default/
Run workflow test with different profiles (23.04.0, test_nocluster)
The following actions uses node12 which is deprecated and will be forced to run on node16: actions/upload-artifact@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 workflow test with different profiles (23.04.0, test_nocluster)
The following actions use a deprecated Node.js version and will be forced to run on node20: actions/checkout@v3, nf-core/setup-nextflow@v1, actions/upload-artifact@v2. For more info: https://github.blog/changelog/2024-03-07-github-actions-all-actions-will-run-on-node20-instead-of-node16-by-default/
Run workflow test with different profiles (23.04.0, test_fetchimgt)
The following actions uses node12 which is deprecated and will be forced to run on node16: actions/upload-artifact@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 workflow test with different profiles (23.04.0, test_fetchimgt)
The following actions use a deprecated Node.js version and will be forced to run on node20: actions/checkout@v3, nf-core/setup-nextflow@v1, actions/upload-artifact@v2. For more info: https://github.blog/changelog/2024-03-07-github-actions-all-actions-will-run-on-node20-instead-of-node16-by-default/
Run workflow test with different profiles (23.04.0, test_nebnext_umi)
The following actions uses node12 which is deprecated and will be forced to run on node16: actions/upload-artifact@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 workflow test with different profiles (23.04.0, test_nebnext_umi)
The following actions use a deprecated Node.js version and will be forced to run on node20: actions/checkout@v3, nf-core/setup-nextflow@v1, actions/upload-artifact@v2. For more info: https://github.blog/changelog/2024-03-07-github-actions-all-actions-will-run-on-node20-instead-of-node16-by-default/
Run workflow test with different profiles (latest-everything, test_nebnext_umi)
The following actions uses node12 which is deprecated and will be forced to run on node16: actions/upload-artifact@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 workflow test with different profiles (latest-everything, test_nebnext_umi)
The following actions use a deprecated Node.js version and will be forced to run on node20: actions/checkout@v3, nf-core/setup-nextflow@v1, actions/upload-artifact@v2. For more info: https://github.blog/changelog/2024-03-07-github-actions-all-actions-will-run-on-node20-instead-of-node16-by-default/
Run workflow test with different profiles (latest-everything, test_nocluster)
The following actions uses node12 which is deprecated and will be forced to run on node16: actions/upload-artifact@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 workflow test with different profiles (latest-everything, test_nocluster)
The following actions use a deprecated Node.js version and will be forced to run on node20: actions/checkout@v3, nf-core/setup-nextflow@v1, actions/upload-artifact@v2. For more info: https://github.blog/changelog/2024-03-07-github-actions-all-actions-will-run-on-node20-instead-of-node16-by-default/
Run workflow test with different profiles (23.04.0, test_rnaseq_bulk)
The following actions use a deprecated Node.js version and will be forced to run on node20: actions/checkout@v3, nf-core/setup-nextflow@v1. For more info: https://github.blog/changelog/2024-03-07-github-actions-all-actions-will-run-on-node20-instead-of-node16-by-default/
Run workflow test with different profiles (23.04.0, test_10x_sc)
The following actions use a deprecated Node.js version and will be forced to run on node20: actions/checkout@v3, nf-core/setup-nextflow@v1. For more info: https://github.blog/changelog/2024-03-07-github-actions-all-actions-will-run-on-node20-instead-of-node16-by-default/
Run workflow test with different profiles (23.04.0, test_rnaseq_sc)
The following actions use a deprecated Node.js version and will be forced to run on node20: actions/checkout@v3, nf-core/setup-nextflow@v1. For more info: https://github.blog/changelog/2024-03-07-github-actions-all-actions-will-run-on-node20-instead-of-node16-by-default/
Run workflow test with different profiles (latest-everything, test_rnaseq_bulk)
The following actions use a deprecated Node.js version and will be forced to run on node20: actions/checkout@v3, nf-core/setup-nextflow@v1. For more info: https://github.blog/changelog/2024-03-07-github-actions-all-actions-will-run-on-node20-instead-of-node16-by-default/
Run workflow test with different profiles (latest-everything, test_rnaseq_sc)
The following actions use a deprecated Node.js version and will be forced to run on node20: actions/checkout@v3, nf-core/setup-nextflow@v1. For more info: https://github.blog/changelog/2024-03-07-github-actions-all-actions-will-run-on-node20-instead-of-node16-by-default/
Run workflow test with different profiles (23.04.0, test_assembled_mm)
The following actions use a deprecated Node.js version and will be forced to run on node20: actions/checkout@v3, nf-core/setup-nextflow@v1. For more info: https://github.blog/changelog/2024-03-07-github-actions-all-actions-will-run-on-node20-instead-of-node16-by-default/
Run workflow test with different profiles (latest-everything, test_10x_sc)
The following actions use a deprecated Node.js version and will be forced to run on node20: actions/checkout@v3, nf-core/setup-nextflow@v1. For more info: https://github.blog/changelog/2024-03-07-github-actions-all-actions-will-run-on-node20-instead-of-node16-by-default/
Run workflow test with different profiles (23.04.0, test_assembled_hs)
The following actions use a deprecated Node.js version and will be forced to run on node20: actions/checkout@v3, nf-core/setup-nextflow@v1. For more info: https://github.blog/changelog/2024-03-07-github-actions-all-actions-will-run-on-node20-instead-of-node16-by-default/
Run workflow test with different profiles (latest-everything, test_assembled_mm)
The following actions use a deprecated Node.js version and will be forced to run on node20: actions/checkout@v3, nf-core/setup-nextflow@v1. For more info: https://github.blog/changelog/2024-03-07-github-actions-all-actions-will-run-on-node20-instead-of-node16-by-default/
Run workflow test with different profiles (23.04.0, test_tcr)
The following actions uses node12 which is deprecated and will be forced to run on node16: actions/upload-artifact@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 workflow test with different profiles (23.04.0, test_tcr)
The following actions use a deprecated Node.js version and will be forced to run on node20: actions/checkout@v3, nf-core/setup-nextflow@v1, actions/upload-artifact@v2. For more info: https://github.blog/changelog/2024-03-07-github-actions-all-actions-will-run-on-node20-instead-of-node16-by-default/
Run workflow test with different profiles (latest-everything, test_assembled_hs)
The following actions use a deprecated Node.js version and will be forced to run on node20: actions/checkout@v3, nf-core/setup-nextflow@v1. For more info: https://github.blog/changelog/2024-03-07-github-actions-all-actions-will-run-on-node20-instead-of-node16-by-default/
Run workflow test with different profiles (latest-everything, test_tcr)
The following actions uses node12 which is deprecated and will be forced to run on node16: actions/upload-artifact@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 workflow test with different profiles (latest-everything, test_tcr)
The following actions use a deprecated Node.js version and will be forced to run on node20: actions/checkout@v3, nf-core/setup-nextflow@v1, actions/upload-artifact@v2. For more info: https://github.blog/changelog/2024-03-07-github-actions-all-actions-will-run-on-node20-instead-of-node16-by-default/
Run workflow test with different profiles (23.04.0, test_maskprimers_extract)
The following actions use a deprecated Node.js version and will be forced to run on node20: actions/checkout@v3, nf-core/setup-nextflow@v1. For more info: https://github.blog/changelog/2024-03-07-github-actions-all-actions-will-run-on-node20-instead-of-node16-by-default/
Run workflow test with different profiles (latest-everything, test_maskprimers_extract)
The following actions use a deprecated Node.js version and will be forced to run on node20: actions/checkout@v3, nf-core/setup-nextflow@v1. For more info: https://github.blog/changelog/2024-03-07-github-actions-all-actions-will-run-on-node20-instead-of-node16-by-default/
Deprecation notice: v1, v2, and v3 of the artifact actions
The following artifacts were uploaded using a version of actions/upload-artifact that is scheduled for deprecation: "logs-test_fetchimgt", "logs-test_nebnext_umi", "logs-test_no_umi", "logs-test_nocluster", "logs-test_tcr". Please update your workflow to use v4 of the artifact actions. Learn more: https://github.blog/changelog/2024-04-16-deprecation-notice-v3-of-the-artifact-actions/

Artifacts

Produced during runtime
Name Size
logs-test_fetchimgt
268 MB
logs-test_nebnext_umi
358 MB
logs-test_no_umi
16 MB
logs-test_nocluster
292 MB
logs-test_tcr
2.58 GB