Sarek minimap2 #2
ci.yml
on: pull_request
Check for changes (nf-test)
9s
Check for changes (pytest)
7s
Matrix: nftest
Matrix: pytest
confirm-pass
0s
Annotations
9 errors and 40 warnings
sentieon_dnascope_joint_germline docker NF 23.04.0
Process returned exit code 1
Launched as "bash --noprofile --norc -eo pipefail /home/runner/work/_actions/Wandalen/wretry.action/v1.4.7_js_action/src/script.sh"
Launched at "/home/runner/work/sarek/sarek"
Attempts exhausted, made 3 attempts :
Attempt #1 started at : 12:09:39 GMT+0000 (Coordinated Universal Time)
Attempt #2 started at : 12:11:07 GMT+0000 (Coordinated Universal Time)
Attempt #3 started at : 12:12:22 GMT+0000 (Coordinated Universal Time)
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sentieon_dnascope_joint_germline docker NF latest-everything
Process returned exit code 1
Launched as "bash --noprofile --norc -eo pipefail /home/runner/work/_actions/Wandalen/wretry.action/v1.4.7_js_action/src/script.sh"
Launched at "/home/runner/work/sarek/sarek"
Attempts exhausted, made 3 attempts :
Attempt #1 started at : 12:09:31 GMT+0000 (Coordinated Universal Time)
Attempt #2 started at : 12:11:06 GMT+0000 (Coordinated Universal Time)
Attempt #3 started at : 12:12:26 GMT+0000 (Coordinated Universal Time)
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sentieon_haplotyper_joint_germline docker NF 23.04.0
Process returned exit code 1
Launched as "bash --noprofile --norc -eo pipefail /home/runner/work/_actions/Wandalen/wretry.action/v1.4.7_js_action/src/script.sh"
Launched at "/home/runner/work/sarek/sarek"
Attempts exhausted, made 3 attempts :
Attempt #1 started at : 12:10:44 GMT+0000 (Coordinated Universal Time)
Attempt #2 started at : 12:12:42 GMT+0000 (Coordinated Universal Time)
Attempt #3 started at : 12:14:29 GMT+0000 (Coordinated Universal Time)
|
sentieon/bwamem docker NF 23.04.0
Process returned exit code 1
Launched as "bash --noprofile --norc -eo pipefail /home/runner/work/_actions/Wandalen/wretry.action/v1.4.7_js_action/src/script.sh"
Launched at "/home/runner/work/sarek/sarek"
Attempts exhausted, made 3 attempts :
Attempt #1 started at : 12:09:18 GMT+0000 (Coordinated Universal Time)
Attempt #2 started at : 12:12:55 GMT+0000 (Coordinated Universal Time)
Attempt #3 started at : 12:15:46 GMT+0000 (Coordinated Universal Time)
|
minimap2/align docker NF 23.04.0
Process completed with exit code 1.
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sentieon_haplotyper_joint_germline docker NF latest-everything
Process returned exit code 1
Launched as "bash --noprofile --norc -eo pipefail /home/runner/work/_actions/Wandalen/wretry.action/v1.4.7_js_action/src/script.sh"
Launched at "/home/runner/work/sarek/sarek"
Attempts exhausted, made 3 attempts :
Attempt #1 started at : 12:10:54 GMT+0000 (Coordinated Universal Time)
Attempt #2 started at : 12:13:12 GMT+0000 (Coordinated Universal Time)
Attempt #3 started at : 12:15:05 GMT+0000 (Coordinated Universal Time)
|
minimap2/align docker NF latest-everything
Process completed with exit code 1.
|
sentieon/bwamem docker NF latest-everything
Process returned exit code 1
Launched as "bash --noprofile --norc -eo pipefail /home/runner/work/_actions/Wandalen/wretry.action/v1.4.7_js_action/src/script.sh"
Launched at "/home/runner/work/sarek/sarek"
Attempts exhausted, made 3 attempts :
Attempt #1 started at : 12:07:13 GMT+0000 (Coordinated Universal Time)
Attempt #2 started at : 12:11:10 GMT+0000 (Coordinated Universal Time)
Attempt #3 started at : 12:14:13 GMT+0000 (Coordinated Universal Time)
|
confirm-pass
Process completed with exit code 1.
|
default docker NF 23.04.0
Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: actions/setup-python@v4, nf-core/setup-nextflow@v1, actions/cache@v3. For more information see: https://github.blog/changelog/2023-09-22-github-actions-transitioning-from-node-16-to-node-20/.
|
default docker NF latest-everything
Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: actions/setup-python@v4, nf-core/setup-nextflow@v1, actions/cache@v3. For more information see: https://github.blog/changelog/2023-09-22-github-actions-transitioning-from-node-16-to-node-20/.
|
bwamem docker NF latest-everything
Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: actions/setup-python@v4, nf-core/setup-nextflow@v1, actions/cache@v3. For more information see: https://github.blog/changelog/2023-09-22-github-actions-transitioning-from-node-16-to-node-20/.
|
bwamem docker NF 23.04.0
Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: actions/setup-python@v4, nf-core/setup-nextflow@v1, actions/cache@v3. For more information see: https://github.blog/changelog/2023-09-22-github-actions-transitioning-from-node-16-to-node-20/.
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bwamem2 docker NF latest-everything
Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: actions/setup-python@v4, nf-core/setup-nextflow@v1, actions/cache@v3. For more information see: https://github.blog/changelog/2023-09-22-github-actions-transitioning-from-node-16-to-node-20/.
|
dragmap docker NF latest-everything
Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: actions/setup-python@v4, nf-core/setup-nextflow@v1, actions/cache@v3. For more information see: https://github.blog/changelog/2023-09-22-github-actions-transitioning-from-node-16-to-node-20/.
|
bwamem2 docker NF 23.04.0
Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: actions/setup-python@v4, nf-core/setup-nextflow@v1, actions/cache@v3. For more information see: https://github.blog/changelog/2023-09-22-github-actions-transitioning-from-node-16-to-node-20/.
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minimap2 docker NF latest-everything
Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: actions/setup-python@v4, nf-core/setup-nextflow@v1, actions/cache@v3. For more information see: https://github.blog/changelog/2023-09-22-github-actions-transitioning-from-node-16-to-node-20/.
|
dragmap docker NF 23.04.0
Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: actions/setup-python@v4, nf-core/setup-nextflow@v1, actions/cache@v3. For more information see: https://github.blog/changelog/2023-09-22-github-actions-transitioning-from-node-16-to-node-20/.
|
save_mapped_only docker NF latest-everything
Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: actions/setup-python@v4, nf-core/setup-nextflow@v1, actions/cache@v3. For more information see: https://github.blog/changelog/2023-09-22-github-actions-transitioning-from-node-16-to-node-20/.
|
save_output_as_bam_only docker NF 23.04.0
Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: actions/setup-python@v4, nf-core/setup-nextflow@v1, actions/cache@v3. For more information see: https://github.blog/changelog/2023-09-22-github-actions-transitioning-from-node-16-to-node-20/.
|
save_output_as_bam_only docker NF latest-everything
Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: actions/setup-python@v4, nf-core/setup-nextflow@v1, actions/cache@v3. For more information see: https://github.blog/changelog/2023-09-22-github-actions-transitioning-from-node-16-to-node-20/.
|
minimap2 docker NF 23.04.0
Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: actions/setup-python@v4, nf-core/setup-nextflow@v1, actions/cache@v3. For more information see: https://github.blog/changelog/2023-09-22-github-actions-transitioning-from-node-16-to-node-20/.
|
save_mapped_only docker NF 23.04.0
Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: actions/setup-python@v4, nf-core/setup-nextflow@v1, actions/cache@v3. For more information see: https://github.blog/changelog/2023-09-22-github-actions-transitioning-from-node-16-to-node-20/.
|
skip_all_qc docker NF latest-everything
Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: actions/setup-python@v4, nf-core/setup-nextflow@v1, actions/cache@v3. For more information see: https://github.blog/changelog/2023-09-22-github-actions-transitioning-from-node-16-to-node-20/.
|
skip_all_qc docker NF 23.04.0
Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: actions/setup-python@v4, nf-core/setup-nextflow@v1, actions/cache@v3. For more information see: https://github.blog/changelog/2023-09-22-github-actions-transitioning-from-node-16-to-node-20/.
|
sentieon_dnascope_joint_germline docker NF 23.04.0
Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: actions/setup-python@v4, nf-core/setup-nextflow@v1, actions/cache@v3, actions/upload-artifact@v2. For more information see: https://github.blog/changelog/2023-09-22-github-actions-transitioning-from-node-16-to-node-20/.
|
sentieon_dnascope_joint_germline docker NF 23.04.0
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/
|
sentieon_dnascope_joint_germline docker NF latest-everything
Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: actions/setup-python@v4, nf-core/setup-nextflow@v1, actions/cache@v3, actions/upload-artifact@v2. For more information see: https://github.blog/changelog/2023-09-22-github-actions-transitioning-from-node-16-to-node-20/.
|
sentieon_dnascope_joint_germline docker NF latest-everything
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/
|
tumor_normal_pair docker NF latest-everything
Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: actions/setup-python@v4, nf-core/setup-nextflow@v1, actions/cache@v3. For more information see: https://github.blog/changelog/2023-09-22-github-actions-transitioning-from-node-16-to-node-20/.
|
sentieon_haplotyper_joint_germline docker NF 23.04.0
Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: actions/setup-python@v4, nf-core/setup-nextflow@v1, actions/cache@v3, actions/upload-artifact@v2. For more information see: https://github.blog/changelog/2023-09-22-github-actions-transitioning-from-node-16-to-node-20/.
|
sentieon_haplotyper_joint_germline docker NF 23.04.0
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/
|
skip_markduplicates docker NF latest-everything
Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: actions/setup-python@v4, nf-core/setup-nextflow@v1, actions/cache@v3. For more information see: https://github.blog/changelog/2023-09-22-github-actions-transitioning-from-node-16-to-node-20/.
|
validation_checks docker NF 23.04.0
Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: actions/setup-python@v4, nf-core/setup-nextflow@v1, actions/cache@v3. For more information see: https://github.blog/changelog/2023-09-22-github-actions-transitioning-from-node-16-to-node-20/.
|
validation_checks docker NF latest-everything
Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: actions/setup-python@v4, nf-core/setup-nextflow@v1, actions/cache@v3. For more information see: https://github.blog/changelog/2023-09-22-github-actions-transitioning-from-node-16-to-node-20/.
|
sentieon/bwamem docker NF 23.04.0
Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: actions/setup-python@v4, nf-core/setup-nextflow@v1, actions/cache@v3, actions/upload-artifact@v2. For more information see: https://github.blog/changelog/2023-09-22-github-actions-transitioning-from-node-16-to-node-20/.
|
sentieon/bwamem docker NF 23.04.0
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/
|
tumor_normal_pair docker NF 23.04.0
Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: actions/setup-python@v4, nf-core/setup-nextflow@v1, actions/cache@v3. For more information see: https://github.blog/changelog/2023-09-22-github-actions-transitioning-from-node-16-to-node-20/.
|
umi docker NF 23.04.0
Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: actions/setup-python@v4, nf-core/setup-nextflow@v1, actions/cache@v3. For more information see: https://github.blog/changelog/2023-09-22-github-actions-transitioning-from-node-16-to-node-20/.
|
umi docker NF latest-everything
Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: actions/setup-python@v4, nf-core/setup-nextflow@v1, actions/cache@v3. For more information see: https://github.blog/changelog/2023-09-22-github-actions-transitioning-from-node-16-to-node-20/.
|
minimap2/align docker NF 23.04.0
Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: actions/setup-java@v3, nf-core/setup-nextflow@v1, actions/cache@v3, conda-incubator/setup-miniconda@v2. For more information see: https://github.blog/changelog/2023-09-22-github-actions-transitioning-from-node-16-to-node-20/.
|
sentieon_haplotyper_joint_germline docker NF latest-everything
Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: actions/setup-python@v4, nf-core/setup-nextflow@v1, actions/cache@v3, actions/upload-artifact@v2. For more information see: https://github.blog/changelog/2023-09-22-github-actions-transitioning-from-node-16-to-node-20/.
|
sentieon_haplotyper_joint_germline docker NF latest-everything
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/
|
minimap2/align docker NF latest-everything
Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: actions/setup-java@v3, nf-core/setup-nextflow@v1, actions/cache@v3, conda-incubator/setup-miniconda@v2. For more information see: https://github.blog/changelog/2023-09-22-github-actions-transitioning-from-node-16-to-node-20/.
|
skip_markduplicates docker NF 23.04.0
Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: actions/setup-python@v4, nf-core/setup-nextflow@v1, actions/cache@v3. For more information see: https://github.blog/changelog/2023-09-22-github-actions-transitioning-from-node-16-to-node-20/.
|
sentieon/bwamem docker NF latest-everything
Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: actions/setup-python@v4, nf-core/setup-nextflow@v1, actions/cache@v3, actions/upload-artifact@v2. For more information see: https://github.blog/changelog/2023-09-22-github-actions-transitioning-from-node-16-to-node-20/.
|
sentieon/bwamem docker NF latest-everything
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/
|
pipeline_sarek docker NF latest-everything
Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: actions/setup-java@v3, nf-core/setup-nextflow@v1, actions/cache@v3, conda-incubator/setup-miniconda@v2. For more information see: https://github.blog/changelog/2023-09-22-github-actions-transitioning-from-node-16-to-node-20/.
|
pipeline_sarek docker NF 23.04.0
Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: actions/setup-java@v3, nf-core/setup-nextflow@v1, actions/cache@v3, conda-incubator/setup-miniconda@v2. For more information see: https://github.blog/changelog/2023-09-22-github-actions-transitioning-from-node-16-to-node-20/.
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Artifacts
Produced during runtime
Name | Size | |
---|---|---|
logs-docker
Expired
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4.24 GB |
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