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Support for PureCN #95

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Support for PureCN

Support for PureCN #95

Triggered via pull request October 29, 2024 15:23
@lbeltramelbeltrame
synchronize #1710
DIncalciLab:purecn-support
Status Cancelled
Total duration 9m 22s
Artifacts –

pytest.yml

on: pull_request
Check for changes (pytest)
3s
Check for changes (pytest)
Matrix: pytest
confirm-pass
0s
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22 errors and 11 warnings
concatenate_vcfs docker NF latest-everything
Process returned exit code 1 Launched as "bash --noprofile --norc -eo pipefail /home/runner/work/_actions/Wandalen/wretry.action/v1.4.10_js_action/src/script.sh" Launched at "/home/runner/work/sarek/sarek" Attempts exhausted, made 3 attempts : Attempt #1 started at : 15:26:55 GMT+0000 (Coordinated Universal Time) Attempt #2 started at : 15:27:17 GMT+0000 (Coordinated Universal Time) Attempt #3 started at : 15:27:39 GMT+0000 (Coordinated Universal Time)
concatenate_vcfs docker NF 24.04.2
Process returned exit code 1 Launched as "bash --noprofile --norc -eo pipefail /home/runner/work/_actions/Wandalen/wretry.action/v1.4.10_js_action/src/script.sh" Launched at "/home/runner/work/sarek/sarek" Attempts exhausted, made 3 attempts : Attempt #1 started at : 15:26:59 GMT+0000 (Coordinated Universal Time) Attempt #2 started at : 15:27:26 GMT+0000 (Coordinated Universal Time) Attempt #3 started at : 15:27:51 GMT+0000 (Coordinated Universal Time)
msisensorpro docker NF latest-everything
Process returned exit code 1 Launched as "bash --noprofile --norc -eo pipefail /home/runner/work/_actions/Wandalen/wretry.action/v1.4.10_js_action/src/script.sh" Launched at "/home/runner/work/sarek/sarek" Attempts exhausted, made 3 attempts : Attempt #1 started at : 15:27:53 GMT+0000 (Coordinated Universal Time) Attempt #2 started at : 15:28:39 GMT+0000 (Coordinated Universal Time) Attempt #3 started at : 15:29:21 GMT+0000 (Coordinated Universal Time)
msisensorpro docker NF 24.04.2
Process returned exit code 1 Launched as "bash --noprofile --norc -eo pipefail /home/runner/work/_actions/Wandalen/wretry.action/v1.4.10_js_action/src/script.sh" Launched at "/home/runner/work/sarek/sarek" Attempts exhausted, made 3 attempts : Attempt #1 started at : 15:28:04 GMT+0000 (Coordinated Universal Time) Attempt #2 started at : 15:28:56 GMT+0000 (Coordinated Universal Time) Attempt #3 started at : 15:29:46 GMT+0000 (Coordinated Universal Time)
cnvkit docker NF latest-everything
Process returned exit code 1 Launched as "bash --noprofile --norc -eo pipefail /home/runner/work/_actions/Wandalen/wretry.action/v1.4.10_js_action/src/script.sh" Launched at "/home/runner/work/sarek/sarek" Attempts exhausted, made 3 attempts : Attempt #1 started at : 15:26:52 GMT+0000 (Coordinated Universal Time) Attempt #2 started at : 15:28:16 GMT+0000 (Coordinated Universal Time) Attempt #3 started at : 15:29:40 GMT+0000 (Coordinated Universal Time)
mpileup docker NF latest-everything
Process returned exit code 1 Launched as "bash --noprofile --norc -eo pipefail /home/runner/work/_actions/Wandalen/wretry.action/v1.4.10_js_action/src/script.sh" Launched at "/home/runner/work/sarek/sarek" Attempts exhausted, made 3 attempts : Attempt #1 started at : 15:27:09 GMT+0000 (Coordinated Universal Time) Attempt #2 started at : 15:28:37 GMT+0000 (Coordinated Universal Time) Attempt #3 started at : 15:30:01 GMT+0000 (Coordinated Universal Time)
strelka_bp docker NF latest-everything
Process returned exit code 1 Launched as "bash --noprofile --norc -eo pipefail /home/runner/work/_actions/Wandalen/wretry.action/v1.4.10_js_action/src/script.sh" Launched at "/home/runner/work/sarek/sarek" Attempts exhausted, made 3 attempts : Attempt #1 started at : 15:29:37 GMT+0000 (Coordinated Universal Time) Attempt #2 started at : 15:30:21 GMT+0000 (Coordinated Universal Time) Attempt #3 started at : 15:31:05 GMT+0000 (Coordinated Universal Time)
controlfreec docker NF latest-everything
Process returned exit code 1 Launched as "bash --noprofile --norc -eo pipefail /home/runner/work/_actions/Wandalen/wretry.action/v1.4.10_js_action/src/script.sh" Launched at "/home/runner/work/sarek/sarek" Attempts exhausted, made 3 attempts : Attempt #1 started at : 15:28:55 GMT+0000 (Coordinated Universal Time) Attempt #2 started at : 15:30:01 GMT+0000 (Coordinated Universal Time) Attempt #3 started at : 15:31:06 GMT+0000 (Coordinated Universal Time)
strelka_bp docker NF 24.04.2
Process returned exit code 1 Launched as "bash --noprofile --norc -eo pipefail /home/runner/work/_actions/Wandalen/wretry.action/v1.4.10_js_action/src/script.sh" Launched at "/home/runner/work/sarek/sarek" Attempts exhausted, made 3 attempts : Attempt #1 started at : 15:29:43 GMT+0000 (Coordinated Universal Time) Attempt #2 started at : 15:30:35 GMT+0000 (Coordinated Universal Time) Attempt #3 started at : 15:31:26 GMT+0000 (Coordinated Universal Time)
mutect2 docker NF 24.04.2
Process returned exit code 1 Launched as "bash --noprofile --norc -eo pipefail /home/runner/work/_actions/Wandalen/wretry.action/v1.4.10_js_action/src/script.sh" Launched at "/home/runner/work/sarek/sarek" Attempts exhausted, made 3 attempts : Attempt #1 started at : 15:29:42 GMT+0000 (Coordinated Universal Time) Attempt #2 started at : 15:30:34 GMT+0000 (Coordinated Universal Time) Attempt #3 started at : 15:31:25 GMT+0000 (Coordinated Universal Time)
mutect2 docker NF latest-everything
Process returned exit code 1 Launched as "bash --noprofile --norc -eo pipefail /home/runner/work/_actions/Wandalen/wretry.action/v1.4.10_js_action/src/script.sh" Launched at "/home/runner/work/sarek/sarek" Attempts exhausted, made 3 attempts : Attempt #1 started at : 15:30:22 GMT+0000 (Coordinated Universal Time) Attempt #2 started at : 15:31:07 GMT+0000 (Coordinated Universal Time) Attempt #3 started at : 15:31:49 GMT+0000 (Coordinated Universal Time)
tiddit docker NF 24.04.2
Canceling since a higher priority waiting request for 'pytest-workflow-1710' exists
cnvkit docker NF 24.04.2
Canceling since a higher priority waiting request for 'pytest-workflow-1710' exists
strelka docker NF latest-everything
Canceling since a higher priority waiting request for 'pytest-workflow-1710' exists
freebayes docker NF 24.04.2
Canceling since a higher priority waiting request for 'pytest-workflow-1710' exists
controlfreec docker NF 24.04.2
Canceling since a higher priority waiting request for 'pytest-workflow-1710' exists
strelka docker NF 24.04.2
Canceling since a higher priority waiting request for 'pytest-workflow-1710' exists
freebayes docker NF latest-everything
Canceling since a higher priority waiting request for 'pytest-workflow-1710' exists
manta docker NF 24.04.2
Canceling since a higher priority waiting request for 'pytest-workflow-1710' exists
manta docker NF latest-everything
Canceling since a higher priority waiting request for 'pytest-workflow-1710' exists
tiddit docker NF latest-everything
Canceling since a higher priority waiting request for 'pytest-workflow-1710' exists
mpileup docker NF 24.04.2
Canceling since a higher priority waiting request for 'pytest-workflow-1710' exists
concatenate_vcfs docker NF latest-everything
No files were found with the provided path: /home/ubuntu/pytest_workflow_*/*/.nextflow.log /home/ubuntu/pytest_workflow_*/*/log.out /home/ubuntu/pytest_workflow_*/*/log.err /home/ubuntu/pytest_workflow_*/*/work !/home/ubuntu/pytest_workflow_*/*/work/conda !/home/ubuntu/pytest_workflow_*/*/work/singularity !/home/runner/work/sarek/sarek/.singularity. No artifacts will be uploaded.
concatenate_vcfs docker NF 24.04.2
No files were found with the provided path: /home/ubuntu/pytest_workflow_*/*/.nextflow.log /home/ubuntu/pytest_workflow_*/*/log.out /home/ubuntu/pytest_workflow_*/*/log.err /home/ubuntu/pytest_workflow_*/*/work !/home/ubuntu/pytest_workflow_*/*/work/conda !/home/ubuntu/pytest_workflow_*/*/work/singularity !/home/runner/work/sarek/sarek/.singularity. No artifacts will be uploaded.
msisensorpro docker NF latest-everything
No files were found with the provided path: /home/ubuntu/pytest_workflow_*/*/.nextflow.log /home/ubuntu/pytest_workflow_*/*/log.out /home/ubuntu/pytest_workflow_*/*/log.err /home/ubuntu/pytest_workflow_*/*/work !/home/ubuntu/pytest_workflow_*/*/work/conda !/home/ubuntu/pytest_workflow_*/*/work/singularity !/home/runner/work/sarek/sarek/.singularity. No artifacts will be uploaded.
msisensorpro docker NF 24.04.2
No files were found with the provided path: /home/ubuntu/pytest_workflow_*/*/.nextflow.log /home/ubuntu/pytest_workflow_*/*/log.out /home/ubuntu/pytest_workflow_*/*/log.err /home/ubuntu/pytest_workflow_*/*/work !/home/ubuntu/pytest_workflow_*/*/work/conda !/home/ubuntu/pytest_workflow_*/*/work/singularity !/home/runner/work/sarek/sarek/.singularity. No artifacts will be uploaded.
cnvkit docker NF latest-everything
No files were found with the provided path: /home/ubuntu/pytest_workflow_*/*/.nextflow.log /home/ubuntu/pytest_workflow_*/*/log.out /home/ubuntu/pytest_workflow_*/*/log.err /home/ubuntu/pytest_workflow_*/*/work !/home/ubuntu/pytest_workflow_*/*/work/conda !/home/ubuntu/pytest_workflow_*/*/work/singularity !/home/runner/work/sarek/sarek/.singularity. No artifacts will be uploaded.
mpileup docker NF latest-everything
No files were found with the provided path: /home/ubuntu/pytest_workflow_*/*/.nextflow.log /home/ubuntu/pytest_workflow_*/*/log.out /home/ubuntu/pytest_workflow_*/*/log.err /home/ubuntu/pytest_workflow_*/*/work !/home/ubuntu/pytest_workflow_*/*/work/conda !/home/ubuntu/pytest_workflow_*/*/work/singularity !/home/runner/work/sarek/sarek/.singularity. No artifacts will be uploaded.
strelka_bp docker NF latest-everything
No files were found with the provided path: /home/ubuntu/pytest_workflow_*/*/.nextflow.log /home/ubuntu/pytest_workflow_*/*/log.out /home/ubuntu/pytest_workflow_*/*/log.err /home/ubuntu/pytest_workflow_*/*/work !/home/ubuntu/pytest_workflow_*/*/work/conda !/home/ubuntu/pytest_workflow_*/*/work/singularity !/home/runner/work/sarek/sarek/.singularity. No artifacts will be uploaded.
controlfreec docker NF latest-everything
No files were found with the provided path: /home/ubuntu/pytest_workflow_*/*/.nextflow.log /home/ubuntu/pytest_workflow_*/*/log.out /home/ubuntu/pytest_workflow_*/*/log.err /home/ubuntu/pytest_workflow_*/*/work !/home/ubuntu/pytest_workflow_*/*/work/conda !/home/ubuntu/pytest_workflow_*/*/work/singularity !/home/runner/work/sarek/sarek/.singularity. No artifacts will be uploaded.
strelka_bp docker NF 24.04.2
No files were found with the provided path: /home/ubuntu/pytest_workflow_*/*/.nextflow.log /home/ubuntu/pytest_workflow_*/*/log.out /home/ubuntu/pytest_workflow_*/*/log.err /home/ubuntu/pytest_workflow_*/*/work !/home/ubuntu/pytest_workflow_*/*/work/conda !/home/ubuntu/pytest_workflow_*/*/work/singularity !/home/runner/work/sarek/sarek/.singularity. No artifacts will be uploaded.
mutect2 docker NF 24.04.2
No files were found with the provided path: /home/ubuntu/pytest_workflow_*/*/.nextflow.log /home/ubuntu/pytest_workflow_*/*/log.out /home/ubuntu/pytest_workflow_*/*/log.err /home/ubuntu/pytest_workflow_*/*/work !/home/ubuntu/pytest_workflow_*/*/work/conda !/home/ubuntu/pytest_workflow_*/*/work/singularity !/home/runner/work/sarek/sarek/.singularity. No artifacts will be uploaded.
mutect2 docker NF latest-everything
No files were found with the provided path: /home/ubuntu/pytest_workflow_*/*/.nextflow.log /home/ubuntu/pytest_workflow_*/*/log.out /home/ubuntu/pytest_workflow_*/*/log.err /home/ubuntu/pytest_workflow_*/*/work !/home/ubuntu/pytest_workflow_*/*/work/conda !/home/ubuntu/pytest_workflow_*/*/work/singularity !/home/runner/work/sarek/sarek/.singularity. No artifacts will be uploaded.