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Ngscheckmate fix

Ngscheckmate fix #5575

Triggered via pull request January 24, 2024 17:59
Status Failure
Total duration 5h 26m 33s
Artifacts 1

ci.yml

on: pull_request
Check for changes (nf-test)
5s
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Check for changes (pytest)
6s
Check for changes (pytest)
Matrix: nftest
Matrix: pytest
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19 errors and 91 warnings
joint_germline docker NF latest-everything
Process returned exit code 1 Launched as "TMPDIR=~ PROFILE=docker pytest --tag joint_germline --symlink --kwdof --git-aware --color=yes" Launched at "/home/runner/work/sarek/sarek" Attempts exhausted, made 3 attempts : Attempt #1 started at : 18:00:56 GMT+0000 (Coordinated Universal Time) Attempt #2 started at : 18:04:35 GMT+0000 (Coordinated Universal Time) Attempt #3 started at : 18:07:30 GMT+0000 (Coordinated Universal Time)
joint_germline docker NF latest-everything
EACCES: permission denied, scandir '/home/runner/pytest_workflow__xjyxnan/Run_joint_germline_variant_calling_with_haplotypecaller/work/73/1dc06e55aa4245e427126e283d6065/chr22_2-15000.joint'
sentieon_dnascope_skip_filter docker NF latest-everything
Process returned exit code 1 Launched as "TMPDIR=~ PROFILE=docker pytest --tag sentieon_dnascope_skip_filter --symlink --kwdof --git-aware --color=yes" Launched at "/home/runner/work/sarek/sarek" Attempts exhausted, made 3 attempts : Attempt #1 started at : 18:03:42 GMT+0000 (Coordinated Universal Time) Attempt #2 started at : 18:27:02 GMT+0000 (Coordinated Universal Time) Attempt #3 started at : 18:50:05 GMT+0000 (Coordinated Universal Time)
sentieon_dnascope_skip_filter docker NF 23.04.0
Process returned exit code 1 Launched as "TMPDIR=~ PROFILE=docker pytest --tag sentieon_dnascope_skip_filter --symlink --kwdof --git-aware --color=yes" Launched at "/home/runner/work/sarek/sarek" Attempts exhausted, made 3 attempts : Attempt #1 started at : 18:03:38 GMT+0000 (Coordinated Universal Time) Attempt #2 started at : 18:27:04 GMT+0000 (Coordinated Universal Time) Attempt #3 started at : 18:50:12 GMT+0000 (Coordinated Universal Time)
sentieon/dedup docker NF latest-everything
Process returned exit code 1 Launched as "TMPDIR=~ PROFILE=docker pytest --tag sentieon/dedup --symlink --kwdof --git-aware --color=yes" Launched at "/home/runner/work/sarek/sarek" Attempts exhausted, made 3 attempts : Attempt #1 started at : 18:03:10 GMT+0000 (Coordinated Universal Time) Attempt #2 started at : 18:26:44 GMT+0000 (Coordinated Universal Time) Attempt #3 started at : 18:49:47 GMT+0000 (Coordinated Universal Time)
sentieon/dedup docker NF 23.04.0
Process returned exit code 1 Launched as "TMPDIR=~ PROFILE=docker pytest --tag sentieon/dedup --symlink --kwdof --git-aware --color=yes" Launched at "/home/runner/work/sarek/sarek" Attempts exhausted, made 3 attempts : Attempt #1 started at : 18:03:07 GMT+0000 (Coordinated Universal Time) Attempt #2 started at : 18:26:44 GMT+0000 (Coordinated Universal Time) Attempt #3 started at : 18:49:52 GMT+0000 (Coordinated Universal Time)
sentieon_haplotyper_skip_filter docker NF latest-everything
Process returned exit code 1 Launched as "TMPDIR=~ PROFILE=docker pytest --tag sentieon_haplotyper_skip_filter --symlink --kwdof --git-aware --color=yes" Launched at "/home/runner/work/sarek/sarek" Attempts exhausted, made 3 attempts : Attempt #1 started at : 18:03:59 GMT+0000 (Coordinated Universal Time) Attempt #2 started at : 18:27:21 GMT+0000 (Coordinated Universal Time) Attempt #3 started at : 18:50:21 GMT+0000 (Coordinated Universal Time)
sentieon_haplotyper_skip_filter docker NF 23.04.0
Process returned exit code 1 Launched as "TMPDIR=~ PROFILE=docker pytest --tag sentieon_haplotyper_skip_filter --symlink --kwdof --git-aware --color=yes" Launched at "/home/runner/work/sarek/sarek" Attempts exhausted, made 3 attempts : Attempt #1 started at : 18:04:04 GMT+0000 (Coordinated Universal Time) Attempt #2 started at : 18:27:28 GMT+0000 (Coordinated Universal Time) Attempt #3 started at : 18:50:29 GMT+0000 (Coordinated Universal Time)
sentieon_dnascope_joint_germline docker NF latest-everything
Process returned exit code 1 Launched as "TMPDIR=~ PROFILE=docker pytest --tag sentieon_dnascope_joint_germline --symlink --kwdof --git-aware --color=yes" Launched at "/home/runner/work/sarek/sarek" Attempts exhausted, made 3 attempts : Attempt #1 started at : 18:03:20 GMT+0000 (Coordinated Universal Time) Attempt #2 started at : 18:26:43 GMT+0000 (Coordinated Universal Time) Attempt #3 started at : 18:49:51 GMT+0000 (Coordinated Universal Time)
sentieon_dnascope_joint_germline docker NF 23.04.0
Process returned exit code 1 Launched as "TMPDIR=~ PROFILE=docker pytest --tag sentieon_dnascope_joint_germline --symlink --kwdof --git-aware --color=yes" Launched at "/home/runner/work/sarek/sarek" Attempts exhausted, made 3 attempts : Attempt #1 started at : 18:03:18 GMT+0000 (Coordinated Universal Time) Attempt #2 started at : 18:26:48 GMT+0000 (Coordinated Universal Time) Attempt #3 started at : 18:49:55 GMT+0000 (Coordinated Universal Time)
sentieon_haplotyper_joint_germline docker NF 23.04.0
Process returned exit code 1 Launched as "TMPDIR=~ PROFILE=docker pytest --tag sentieon_haplotyper_joint_germline --symlink --kwdof --git-aware --color=yes" Launched at "/home/runner/work/sarek/sarek" Attempts exhausted, made 3 attempts : Attempt #1 started at : 18:03:56 GMT+0000 (Coordinated Universal Time) Attempt #2 started at : 18:28:29 GMT+0000 (Coordinated Universal Time) Attempt #3 started at : 18:52:25 GMT+0000 (Coordinated Universal Time)
sentieon_haplotyper_joint_germline docker NF latest-everything
Process returned exit code 1 Launched as "TMPDIR=~ PROFILE=docker pytest --tag sentieon_haplotyper_joint_germline --symlink --kwdof --git-aware --color=yes" Launched at "/home/runner/work/sarek/sarek" Attempts exhausted, made 3 attempts : Attempt #1 started at : 18:04:11 GMT+0000 (Coordinated Universal Time) Attempt #2 started at : 18:29:07 GMT+0000 (Coordinated Universal Time) Attempt #3 started at : 18:53:08 GMT+0000 (Coordinated Universal Time)
sentieon/bwamem docker NF 23.04.0
Process returned exit code 1 Launched as "TMPDIR=~ PROFILE=docker pytest --tag sentieon/bwamem --symlink --kwdof --git-aware --color=yes" Launched at "/home/runner/work/sarek/sarek" Attempts exhausted, made 3 attempts : Attempt #1 started at : 18:03:06 GMT+0000 (Coordinated Universal Time) Attempt #2 started at : 18:39:55 GMT+0000 (Coordinated Universal Time) Attempt #3 started at : 19:15:37 GMT+0000 (Coordinated Universal Time)
sentieon/bwamem docker NF latest-everything
Process returned exit code 1 Launched as "TMPDIR=~ PROFILE=docker pytest --tag sentieon/bwamem --symlink --kwdof --git-aware --color=yes" Launched at "/home/runner/work/sarek/sarek" Attempts exhausted, made 3 attempts : Attempt #1 started at : 18:02:52 GMT+0000 (Coordinated Universal Time) Attempt #2 started at : 18:39:29 GMT+0000 (Coordinated Universal Time) Attempt #3 started at : 19:15:09 GMT+0000 (Coordinated Universal Time)
sentieon/dnascope docker NF latest-everything
Process returned exit code 1 Launched as "TMPDIR=~ PROFILE=docker pytest --tag sentieon/dnascope --symlink --kwdof --git-aware --color=yes" Launched at "/home/runner/work/sarek/sarek" Attempts exhausted, made 3 attempts : Attempt #1 started at : 18:03:33 GMT+0000 (Coordinated Universal Time) Attempt #2 started at : 18:50:06 GMT+0000 (Coordinated Universal Time) Attempt #3 started at : 19:36:17 GMT+0000 (Coordinated Universal Time)
sentieon/dnascope docker NF 23.04.0
Process returned exit code 1 Launched as "TMPDIR=~ PROFILE=docker pytest --tag sentieon/dnascope --symlink --kwdof --git-aware --color=yes" Launched at "/home/runner/work/sarek/sarek" Attempts exhausted, made 3 attempts : Attempt #1 started at : 18:03:51 GMT+0000 (Coordinated Universal Time) Attempt #2 started at : 18:50:33 GMT+0000 (Coordinated Universal Time) Attempt #3 started at : 19:36:46 GMT+0000 (Coordinated Universal Time)
sentieon/haplotyper docker NF 23.04.0
Process returned exit code 1 Launched as "TMPDIR=~ PROFILE=docker pytest --tag sentieon/haplotyper --symlink --kwdof --git-aware --color=yes" Launched at "/home/runner/work/sarek/sarek" Attempts exhausted, made 3 attempts : Attempt #1 started at : 18:03:53 GMT+0000 (Coordinated Universal Time) Attempt #2 started at : 19:47:58 GMT+0000 (Coordinated Universal Time) Attempt #3 started at : 21:31:46 GMT+0000 (Coordinated Universal Time)
sentieon/haplotyper docker NF latest-everything
Process returned exit code 1 Launched as "TMPDIR=~ PROFILE=docker pytest --tag sentieon/haplotyper --symlink --kwdof --git-aware --color=yes" Launched at "/home/runner/work/sarek/sarek" Attempts exhausted, made 3 attempts : Attempt #1 started at : 18:03:52 GMT+0000 (Coordinated Universal Time) Attempt #2 started at : 19:48:07 GMT+0000 (Coordinated Universal Time) Attempt #3 started at : 21:31:57 GMT+0000 (Coordinated Universal Time)
confirm-pass
Process completed with exit code 1.
Check for changes (pytest)
Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: frouioui/paths-filter@main. For more information see: https://github.blog/changelog/2023-09-22-github-actions-transitioning-from-node-16-to-node-20/.
Check for changes (nf-test)
Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: frouioui/paths-filter@main. For more information see: https://github.blog/changelog/2023-09-22-github-actions-transitioning-from-node-16-to-node-20/.
msisensorpro docker NF latest-everything
Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: Wandalen/wretry.action@v1.2.0_js_action, 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/.
haplotypecaller_skip_filter docker NF 23.04.0
Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: Wandalen/wretry.action@v1.2.0_js_action, 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/.
msisensorpro docker NF 23.04.0
Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: Wandalen/wretry.action@v1.2.0_js_action, 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/.
haplotypecaller_skip_filter docker NF latest-everything
Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: Wandalen/wretry.action@v1.2.0_js_action, 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: Wandalen/wretry.action@v1.2.0_js_action, 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 23.04.0
Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: Wandalen/wretry.action@v1.2.0_js_action, 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/.
ngscheckmate docker NF 23.04.0
Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: Wandalen/wretry.action@v1.2.0_js_action, 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: Wandalen/wretry.action@v1.2.0_js_action, 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/.
ngscheckmate docker NF latest-everything
Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: Wandalen/wretry.action@v1.2.0_js_action, 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/.
joint_germline docker NF 23.04.0
Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: Wandalen/wretry.action@v1.2.0_js_action, 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: Wandalen/wretry.action@v1.2.0_js_action, 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/.
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/.
save_mapped_only docker NF 23.04.0
Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: Wandalen/wretry.action@v1.2.0_js_action, 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/.
haplotypecaller docker NF latest-everything
Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: Wandalen/wretry.action@v1.2.0_js_action, 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: Wandalen/wretry.action@v1.2.0_js_action, 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/.
fastp docker NF latest-everything
Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: Wandalen/wretry.action@v1.2.0_js_action, 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: Wandalen/wretry.action@v1.2.0_js_action, 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/.
fastp docker NF 23.04.0
Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: Wandalen/wretry.action@v1.2.0_js_action, 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: Wandalen/wretry.action@v1.2.0_js_action, 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: Wandalen/wretry.action@v1.2.0_js_action, 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: Wandalen/wretry.action@v1.2.0_js_action, 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/.
controlfreec docker NF 23.04.0
Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: Wandalen/wretry.action@v1.2.0_js_action, 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/.
concatenate_vcfs docker NF latest-everything
Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: Wandalen/wretry.action@v1.2.0_js_action, 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/.
controlfreec docker NF latest-everything
Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: Wandalen/wretry.action@v1.2.0_js_action, 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/.
mpileup docker NF latest-everything
Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: Wandalen/wretry.action@v1.2.0_js_action, 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: Wandalen/wretry.action@v1.2.0_js_action, 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/.
manta docker NF latest-everything
Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: Wandalen/wretry.action@v1.2.0_js_action, 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/.
mpileup docker NF 23.04.0
Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: Wandalen/wretry.action@v1.2.0_js_action, 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: Wandalen/wretry.action@v1.2.0_js_action, 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/.
manta docker NF 23.04.0
Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: Wandalen/wretry.action@v1.2.0_js_action, 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/.
haplotypecaller docker NF 23.04.0
Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: Wandalen/wretry.action@v1.2.0_js_action, 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/.
intervals docker NF 23.04.0
Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: Wandalen/wretry.action@v1.2.0_js_action, 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/.
tumor_normal_pair docker NF latest-everything
Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: Wandalen/wretry.action@v1.2.0_js_action, 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/.
tiddit docker NF latest-everything
Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: Wandalen/wretry.action@v1.2.0_js_action, 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/.
cnvkit docker NF 23.04.0
Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: Wandalen/wretry.action@v1.2.0_js_action, 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/.
concatenate_vcfs docker NF 23.04.0
Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: Wandalen/wretry.action@v1.2.0_js_action, 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/.
tiddit docker NF 23.04.0
Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: Wandalen/wretry.action@v1.2.0_js_action, 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/.
intervals docker NF latest-everything
Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: Wandalen/wretry.action@v1.2.0_js_action, 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/.
tumor_normal_pair docker NF 23.04.0
Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: Wandalen/wretry.action@v1.2.0_js_action, 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/.
strelka_bp docker NF 23.04.0
Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: Wandalen/wretry.action@v1.2.0_js_action, 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: Wandalen/wretry.action@v1.2.0_js_action, 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/.
strelka_bp docker NF latest-everything
Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: Wandalen/wretry.action@v1.2.0_js_action, 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/.
joint_germline docker NF latest-everything
Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: Wandalen/wretry.action@v1.2.0_js_action, 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/.
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/
umi docker NF 23.04.0
Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: Wandalen/wretry.action@v1.2.0_js_action, 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/.
cnvkit docker NF latest-everything
Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: Wandalen/wretry.action@v1.2.0_js_action, 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_markduplicates docker NF latest-everything
Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: Wandalen/wretry.action@v1.2.0_js_action, 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_markduplicates docker NF 23.04.0
Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: Wandalen/wretry.action@v1.2.0_js_action, 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/.
mutect2 docker NF latest-everything
Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: Wandalen/wretry.action@v1.2.0_js_action, 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/.
freebayes docker NF latest-everything
Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: Wandalen/wretry.action@v1.2.0_js_action, 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/.
freebayes docker NF 23.04.0
Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: Wandalen/wretry.action@v1.2.0_js_action, 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/.
mutect2 docker NF 23.04.0
Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: Wandalen/wretry.action@v1.2.0_js_action, 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/.
strelka docker NF latest-everything
Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: Wandalen/wretry.action@v1.2.0_js_action, 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/.
strelka docker NF 23.04.0
Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: Wandalen/wretry.action@v1.2.0_js_action, 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/.
deepvariant docker NF latest-everything
Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: Wandalen/wretry.action@v1.2.0_js_action, 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/.
deepvariant docker NF 23.04.0
Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: Wandalen/wretry.action@v1.2.0_js_action, 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_skip_filter docker NF latest-everything
Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: Wandalen/wretry.action@v1.2.0_js_action, 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_skip_filter 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/
sentieon_dnascope_skip_filter docker NF 23.04.0
Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: Wandalen/wretry.action@v1.2.0_js_action, 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_skip_filter 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/dedup docker NF latest-everything
Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: Wandalen/wretry.action@v1.2.0_js_action, 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/dedup 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/
sentieon/dedup docker NF 23.04.0
Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: Wandalen/wretry.action@v1.2.0_js_action, 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/dedup 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_haplotyper_skip_filter docker NF latest-everything
Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: Wandalen/wretry.action@v1.2.0_js_action, 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_skip_filter 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/
sentieon_haplotyper_skip_filter docker NF 23.04.0
Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: Wandalen/wretry.action@v1.2.0_js_action, 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_skip_filter 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: Wandalen/wretry.action@v1.2.0_js_action, 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/
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: Wandalen/wretry.action@v1.2.0_js_action, 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_haplotyper_joint_germline docker NF 23.04.0
Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: Wandalen/wretry.action@v1.2.0_js_action, 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/
sentieon_haplotyper_joint_germline docker NF latest-everything
Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: Wandalen/wretry.action@v1.2.0_js_action, 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/
sentieon/bwamem docker NF 23.04.0
Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: Wandalen/wretry.action@v1.2.0_js_action, 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/
sentieon/bwamem docker NF latest-everything
Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: Wandalen/wretry.action@v1.2.0_js_action, 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/
sentieon/dnascope docker NF latest-everything
Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: Wandalen/wretry.action@v1.2.0_js_action, 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 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/
sentieon/dnascope docker NF 23.04.0
Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: Wandalen/wretry.action@v1.2.0_js_action, 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 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/haplotyper docker NF 23.04.0
Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: Wandalen/wretry.action@v1.2.0_js_action, 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 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/haplotyper docker NF latest-everything
Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: Wandalen/wretry.action@v1.2.0_js_action, 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 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/

Artifacts

Produced during runtime
Name Size
logs-docker Expired
13.8 GB