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add singularity #636

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add singularity

add singularity #636

Triggered via push July 20, 2023 09:44
@nebfieldnebfield
pushed 20d6196
ci
Status Cancelled
Total duration 6m 58s
Artifacts –

ci.yml

on: push
preload_docker  /  docker
4m 24s
preload_docker / docker
preload_singularity  /  singularity
4m 25s
preload_singularity / singularity
Matrix: pytest_workflow_docker
Matrix: standard_test_docker / docker
Matrix: standard_test_docker / singularity
Matrix: pytest_workflow_singularity
Matrix: standard_test_singularity / docker
Matrix: standard_test_singularity / singularity
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91 errors and 11 warnings
pytest_workflow_singularity (test make compatible subworkflow with vcf) / docker
Failed to restore cache entry. Exiting as fail-on-cache-miss is set. Input key: singularity-20d6196db3f507780a5b42b3478f19fb6072d274
pytest_workflow_singularity (plink2 testsmallscore) / docker
Failed to restore cache entry. Exiting as fail-on-cache-miss is set. Input key: singularity-20d6196db3f507780a5b42b3478f19fb6072d274
pytest_workflow_singularity (test input check subworkflow with liftover 37to38) / docker
Failed to restore cache entry. Exiting as fail-on-cache-miss is set. Input key: singularity-20d6196db3f507780a5b42b3478f19fb6072d274
pytest_workflow_singularity (plink2 testscore) / docker
Failed to restore cache entry. Exiting as fail-on-cache-miss is set. Input key: singularity-20d6196db3f507780a5b42b3478f19fb6072d274
pytest_workflow_singularity (test apply score subworkflow) / docker
FailFast: cancelling since parallel instance has failed
pytest_workflow_singularity (test apply score subworkflow) / docker
The operation was canceled.
pytest_workflow_singularity (pgscatalog test --pgs_id) / docker
Failed to restore cache entry. Exiting as fail-on-cache-miss is set. Input key: singularity-20d6196db3f507780a5b42b3478f19fb6072d274
pytest_workflow_singularity (plink2 testsmallmultiscore) / docker
FailFast: cancelling since parallel instance has failed
pytest_workflow_singularity (plink2 testsmallmultiscore) / docker
The operation was canceled.
pytest_workflow_singularity (plink2 testrelabelbim) / docker
FailFast: cancelling since parallel instance has failed
pytest_workflow_singularity (plink2 testrelabelbim) / docker
The operation was canceled.
pytest_workflow_singularity (pgscatalog test bad accession) / docker
FailFast: cancelling since parallel instance has failed
pytest_workflow_singularity (pgscatalog test bad accession) / docker
The operation was canceled.
pytest_workflow_singularity (test match module) / docker
FailFast: cancelling since parallel instance has failed
pytest_workflow_singularity (test match module) / docker
The operation was canceled.
pytest_workflow_singularity (test make compatible subworkflow with bfile) / docker
FailFast: cancelling since parallel instance has failed
pytest_workflow_singularity (test make compatible subworkflow with bfile) / docker
The operation was canceled.
pytest_workflow_singularity (plink2 testmultiscorefail) / docker
FailFast: cancelling since parallel instance has failed
pytest_workflow_singularity (plink2 testmultiscorefail) / docker
The operation was canceled.
pytest_workflow_singularity (test perfect apply score) / docker
FailFast: cancelling since parallel instance has failed
pytest_workflow_singularity (test perfect apply score) / docker
The operation was canceled.
pytest_workflow_singularity (test input check subworkflow with PGS catalog API) / docker
FailFast: cancelling since parallel instance has failed
pytest_workflow_singularity (test input check subworkflow with PGS catalog API) / docker
The operation was canceled.
pytest_workflow_singularity (test match combine module) / docker
FailFast: cancelling since parallel instance has failed
pytest_workflow_singularity (pgscatalog test --efo_trait --pgp_id and --pgs_id) / docker
Failed to restore cache entry. Exiting as fail-on-cache-miss is set. Input key: singularity-20d6196db3f507780a5b42b3478f19fb6072d274
pytest_workflow_singularity (test match combine module) / docker
The operation was canceled.
pytest_workflow_singularity (pgscatalog test --efo_trait --pgp_id and --pgs_id) / docker
The operation was canceled.
pytest_workflow_singularity (test make compatible subworkflow with pfile) / docker
FailFast: cancelling since parallel instance has failed
pytest_workflow_singularity (test make compatible subworkflow with pfile) / docker
The operation was canceled.
pytest_workflow_singularity (plink2 testrelabelpvar) / docker
FailFast: cancelling since parallel instance has failed
pytest_workflow_singularity (plink2 testrelabelpvar) / docker
The operation was canceled.
pytest_workflow_singularity (test input check subworkflow) / docker
FailFast: cancelling since parallel instance has failed
pytest_workflow_singularity (test input check subworkflow) / docker
The operation was canceled.
pytest_workflow_singularity (pgscatalog test good and bad accessions GRCh38) / docker
FailFast: cancelling since parallel instance has failed
pytest_workflow_singularity (pgscatalog test good and bad accessions GRCh38) / docker
The operation was canceled.
pytest_workflow_singularity (test combine scorefiles module) / docker
FailFast: cancelling since parallel instance has failed
pytest_workflow_singularity (test combine scorefiles module) / docker
The operation was canceled.
pytest_workflow_singularity (test input check subworkflow with liftover 38to37) / docker
FailFast: cancelling since parallel instance has failed
pytest_workflow_singularity (test input check subworkflow with liftover 38to37) / docker
The operation was canceled.
pytest_workflow_singularity (test input check subworkflow with PGS catalog API and whitespace) / docker
FailFast: cancelling since parallel instance has failed
pytest_workflow_singularity (test input check subworkflow with PGS catalog API and whitespace) / docker
The operation was canceled.
pytest_workflow_singularity (plink2 vcf) / docker
FailFast: cancelling since parallel instance has failed
pytest_workflow_singularity (plink2 vcf) / docker
The operation was canceled.
pytest_workflow_singularity (plink2 testmultiscore) / docker
FailFast: cancelling since parallel instance has failed
pytest_workflow_singularity (plink2 testmultiscore) / docker
The operation was canceled.
pytest_workflow_docker (test make compatible subworkflow with vcf) / docker
The run was canceled by @nebfield.
pytest_workflow_docker (plink2 testscore) / docker
The run was canceled by @nebfield.
pytest_workflow_docker (plink2 vcf) / docker
The run was canceled by @nebfield.
pytest_workflow_docker (plink2 vcf) / docker
The operation was canceled.
standard_test_docker / docker (test, docker, latest)
The run was canceled by @nebfield.
standard_test_docker / docker (test, docker, latest)
The operation was canceled.
pytest_workflow_docker (test input check subworkflow with liftover 38to37) / docker
The run was canceled by @nebfield.
pytest_workflow_docker (test input check subworkflow with liftover 38to37) / docker
The operation was canceled.
pytest_workflow_docker (test input check subworkflow) / docker
The run was canceled by @nebfield.
pytest_workflow_docker (test input check subworkflow) / docker
The operation was canceled.
pytest_workflow_docker (pgscatalog test bad accession) / docker
The run was canceled by @nebfield.
pytest_workflow_docker (pgscatalog test bad accession) / docker
The operation was canceled.
pytest_workflow_docker (test match combine module) / docker
The run was canceled by @nebfield.
pytest_workflow_docker (test match combine module) / docker
The operation was canceled.
pytest_workflow_docker (test make compatible subworkflow with pfile) / docker
The run was canceled by @nebfield.
pytest_workflow_docker (test make compatible subworkflow with pfile) / docker
The operation was canceled.
pytest_workflow_docker (pgscatalog test --pgs_id) / docker
The run was canceled by @nebfield.
pytest_workflow_docker (pgscatalog test --pgs_id) / docker
The operation was canceled.
pytest_workflow_docker (plink2 testsmallscore) / docker
The run was canceled by @nebfield.
pytest_workflow_docker (plink2 testsmallscore) / docker
The operation was canceled.
pytest_workflow_docker (test apply score subworkflow) / docker
The run was canceled by @nebfield.
pytest_workflow_docker (test apply score subworkflow) / docker
The operation was canceled.
pytest_workflow_docker (test make compatible subworkflow with bfile) / docker
The run was canceled by @nebfield.
pytest_workflow_docker (test make compatible subworkflow with bfile) / docker
The operation was canceled.
pytest_workflow_docker (test perfect apply score) / docker
The run was canceled by @nebfield.
pytest_workflow_docker (test perfect apply score) / docker
The operation was canceled.
pytest_workflow_docker (test input check subworkflow with PGS catalog API and whitespace) / docker
The run was canceled by @nebfield.
pytest_workflow_docker (test input check subworkflow with PGS catalog API and whitespace) / docker
The operation was canceled.
pytest_workflow_docker (test combine scorefiles module) / docker
The run was canceled by @nebfield.
pytest_workflow_docker (test combine scorefiles module) / docker
The operation was canceled.
pytest_workflow_docker (pgscatalog test good and bad accessions GRCh38) / docker
The run was canceled by @nebfield.
pytest_workflow_docker (pgscatalog test good and bad accessions GRCh38) / docker
The operation was canceled.
pytest_workflow_docker (plink2 testrelabelbim) / docker
The run was canceled by @nebfield.
pytest_workflow_docker (plink2 testrelabelbim) / docker
The operation was canceled.
pytest_workflow_docker (plink2 testmultiscorefail) / docker
The run was canceled by @nebfield.
pytest_workflow_docker (plink2 testmultiscorefail) / docker
The operation was canceled.
pytest_workflow_docker (plink2 testsmallmultiscore) / docker
The run was canceled by @nebfield.
pytest_workflow_docker (plink2 testsmallmultiscore) / docker
The operation was canceled.
pytest_workflow_docker (pgscatalog test --efo_trait --pgp_id and --pgs_id) / docker
The run was canceled by @nebfield.
pytest_workflow_docker (pgscatalog test --efo_trait --pgp_id and --pgs_id) / docker
The operation was canceled.
pytest_workflow_docker (test input check subworkflow with liftover 37to38) / docker
The run was canceled by @nebfield.
pytest_workflow_docker (test input check subworkflow with liftover 37to38) / docker
The operation was canceled.
standard_test_docker / docker (test, docker, 22.10.0)
The run was canceled by @nebfield.
standard_test_docker / docker (test, docker, 22.10.0)
The operation was canceled.
pytest_workflow_docker (test input check subworkflow with PGS catalog API) / docker
The run was canceled by @nebfield.
pytest_workflow_docker (test input check subworkflow with PGS catalog API) / docker
The operation was canceled.
pytest_workflow_singularity (test make compatible subworkflow with vcf) / docker
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/
pytest_workflow_singularity (plink2 testsmallscore) / docker
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/
pytest_workflow_singularity (test make compatible subworkflow with vcf) / docker
No files were found with the provided path: /home/runner/pytest_workflow_*/*/.nextflow.log /home/runner/pytest_workflow_*/*/log.out /home/runner/pytest_workflow_*/*/log.err /home/runner/pytest_workflow_*/*/work !/home/runner/pytest_workflow_*/*/work/conda !/home/runner/pytest_workflow_*/*/work/singularity. No artifacts will be uploaded.
pytest_workflow_singularity (test input check subworkflow with liftover 37to38) / docker
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/
pytest_workflow_singularity (plink2 testsmallscore) / docker
No files were found with the provided path: /home/runner/pytest_workflow_*/*/.nextflow.log /home/runner/pytest_workflow_*/*/log.out /home/runner/pytest_workflow_*/*/log.err /home/runner/pytest_workflow_*/*/work !/home/runner/pytest_workflow_*/*/work/conda !/home/runner/pytest_workflow_*/*/work/singularity. No artifacts will be uploaded.
pytest_workflow_singularity (test input check subworkflow with liftover 37to38) / docker
No files were found with the provided path: /home/runner/pytest_workflow_*/*/.nextflow.log /home/runner/pytest_workflow_*/*/log.out /home/runner/pytest_workflow_*/*/log.err /home/runner/pytest_workflow_*/*/work !/home/runner/pytest_workflow_*/*/work/conda !/home/runner/pytest_workflow_*/*/work/singularity. No artifacts will be uploaded.
pytest_workflow_singularity (plink2 testscore) / docker
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/
pytest_workflow_singularity (plink2 testscore) / docker
No files were found with the provided path: /home/runner/pytest_workflow_*/*/.nextflow.log /home/runner/pytest_workflow_*/*/log.out /home/runner/pytest_workflow_*/*/log.err /home/runner/pytest_workflow_*/*/work !/home/runner/pytest_workflow_*/*/work/conda !/home/runner/pytest_workflow_*/*/work/singularity. No artifacts will be uploaded.
pytest_workflow_singularity (pgscatalog test --pgs_id) / docker
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/
pytest_workflow_singularity (pgscatalog test --pgs_id) / docker
No files were found with the provided path: /home/runner/pytest_workflow_*/*/.nextflow.log /home/runner/pytest_workflow_*/*/log.out /home/runner/pytest_workflow_*/*/log.err /home/runner/pytest_workflow_*/*/work !/home/runner/pytest_workflow_*/*/work/conda !/home/runner/pytest_workflow_*/*/work/singularity. No artifacts will be uploaded.
pytest_workflow_singularity (pgscatalog test --efo_trait --pgp_id and --pgs_id) / docker
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/