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refact: Use same org_path as modulesrepo first #132

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refact: Use same org_path as modulesrepo first

refact: Use same org_path as modulesrepo first #132

Triggered via pull request December 16, 2024 12:27
@jvfejvfe
synchronize #22
org_path_fix
Status Cancelled
Total duration 4m 27s
Artifacts 17

pytest.yml

on: pull_request
Matrix: setup
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Matrix: test
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56 errors and 90 warnings
Run pipelines/lint/test_multiqc_config.py with Python 3.8 on ubuntu-20.04
Process completed with exit code 1.
Run pipelines/lint/test_actions_ci.py with Python 3.8 on ubuntu-20.04
Process completed with exit code 1.
Run pipelines/lint/test_actions_awsfulltest.py with Python 3.8 on ubuntu-20.04
Process completed with exit code 1.
Run pipelines/lint/test_actions_schema_validation.py with Python 3.8 on ubuntu-20.04
Process completed with exit code 1.
Run pipelines/lint/test_configs.py with Python 3.8 on ubuntu-20.04
Process completed with exit code 1.
Run pipelines/lint/test_template_strings.py with Python 3.8 on ubuntu-20.04
Process completed with exit code 1.
Run pipelines/lint/test_nfcore_yml.py with Python 3.8 on ubuntu-20.04
Process completed with exit code 1.
Run pipelines/lint/test_plugin_includes.py with Python 3.8 on ubuntu-20.04
Process completed with exit code 1.
Run pipelines/lint/test_merge_markers.py with Python 3.8 on ubuntu-20.04
Process completed with exit code 1.
Run pipelines/lint/test_nextflow_config.py with Python 3.8 on ubuntu-20.04
Process completed with exit code 1.
Run pipelines/lint/test_actions_awstest.py with Python 3.8 on ubuntu-20.04
Process completed with exit code 1.
Run pipelines/lint/test_files_unchanged.py with Python 3.8 on ubuntu-20.04
Process completed with exit code 1.
Run pipelines/lint/test_files_exist.py with Python 3.8 on ubuntu-20.04
Process completed with exit code 1.
Run pipelines/lint/test_version_consistency.py with Python 3.8 on ubuntu-20.04
Process completed with exit code 1.
Run pipelines/lint/test_modules_json.py with Python 3.8 on ubuntu-20.04
Process completed with exit code 1.
Run pipelines/test_lint.py with Python 3.8 on ubuntu-20.04
Process completed with exit code 1.
Run modules/test_lint.py with Python 3.8 on ubuntu-20.04
Process completed with exit code 1.
Run modules/test_bump_versions.py with Python 3.8 on ubuntu-20.04
Process completed with exit code 1.
Run test_subworkflows.py with Python 3.8 on ubuntu-20.04
Canceling since a higher priority waiting request for 'Python tests-22' exists
Run test_components.py with Python 3.8 on ubuntu-20.04
Canceling since a higher priority waiting request for 'Python tests-22' exists
Run modules/test_create.py with Python 3.8 on ubuntu-20.04
Canceling since a higher priority waiting request for 'Python tests-22' exists
Run test_cli.py with Python 3.8 on ubuntu-20.04
Canceling since a higher priority waiting request for 'Python tests-22' exists
Run subworkflows/test_info.py with Python 3.8 on ubuntu-20.04
Canceling since a higher priority waiting request for 'Python tests-22' exists
Run subworkflows/test_info.py with Python 3.8 on ubuntu-20.04
The operation was canceled.
Run subworkflows/test_create.py with Python 3.8 on ubuntu-20.04
Canceling since a higher priority waiting request for 'Python tests-22' exists
Run subworkflows/test_create.py with Python 3.8 on ubuntu-20.04
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Run pipelines/test_rocrate.py with Python 3.8 on ubuntu-20.04
Canceling since a higher priority waiting request for 'Python tests-22' exists
Run pipelines/test_rocrate.py with Python 3.8 on ubuntu-20.04
The operation was canceled.
Run subworkflows/test_patch.py with Python 3.8 on ubuntu-20.04
Canceling since a higher priority waiting request for 'Python tests-22' exists
Run subworkflows/test_patch.py with Python 3.8 on ubuntu-20.04
The operation was canceled.
Run modules/test_modules_json.py with Python 3.8 on ubuntu-20.04
Canceling since a higher priority waiting request for 'Python tests-22' exists
Run modules/test_modules_json.py with Python 3.8 on ubuntu-20.04
The operation was canceled.
Run test_utils.py with Python 3.8 on ubuntu-20.04
Canceling since a higher priority waiting request for 'Python tests-22' exists
Run test_utils.py with Python 3.8 on ubuntu-20.04
The operation was canceled.
Run modules/test_update.py with Python 3.8 on ubuntu-20.04
Canceling since a higher priority waiting request for 'Python tests-22' exists
Run modules/test_update.py with Python 3.8 on ubuntu-20.04
The operation was canceled.
Run pipelines/test_schema.py with Python 3.8 on ubuntu-20.04
Canceling since a higher priority waiting request for 'Python tests-22' exists
Run pipelines/test_schema.py with Python 3.8 on ubuntu-20.04
The operation was canceled.
Run modules/test_patch.py with Python 3.8 on ubuntu-20.04
Canceling since a higher priority waiting request for 'Python tests-22' exists
Run modules/test_patch.py with Python 3.8 on ubuntu-20.04
The operation was canceled.
Run subworkflows/test_list.py with Python 3.8 on ubuntu-20.04
Canceling since a higher priority waiting request for 'Python tests-22' exists
Run subworkflows/test_lint.py with Python 3.8 on ubuntu-20.04
Canceling since a higher priority waiting request for 'Python tests-22' exists
Run subworkflows/test_lint.py with Python 3.8 on ubuntu-20.04
The operation was canceled.
Run subworkflows/test_list.py with Python 3.8 on ubuntu-20.04
The operation was canceled.
Run modules/test_list.py with Python 3.8 on ubuntu-20.04
Canceling since a higher priority waiting request for 'Python tests-22' exists
Run modules/test_list.py with Python 3.8 on ubuntu-20.04
The operation was canceled.
Run subworkflows/test_update.py with Python 3.8 on ubuntu-20.04
Canceling since a higher priority waiting request for 'Python tests-22' exists
Run subworkflows/test_update.py with Python 3.8 on ubuntu-20.04
The operation was canceled.
Run pipelines/test_sync.py with Python 3.8 on ubuntu-20.04
Canceling since a higher priority waiting request for 'Python tests-22' exists
Run pipelines/test_sync.py with Python 3.8 on ubuntu-20.04
The operation was canceled.
Run subworkflows/test_remove.py with Python 3.8 on ubuntu-20.04
Canceling since a higher priority waiting request for 'Python tests-22' exists
Run subworkflows/test_remove.py with Python 3.8 on ubuntu-20.04
The operation was canceled.
Run subworkflows/test_install.py with Python 3.8 on ubuntu-20.04
Canceling since a higher priority waiting request for 'Python tests-22' exists
Run subworkflows/test_install.py with Python 3.8 on ubuntu-20.04
The operation was canceled.
Run modules/test_install.py with Python 3.8 on ubuntu-20.04
Canceling since a higher priority waiting request for 'Python tests-22' exists
Run modules/test_install.py with Python 3.8 on ubuntu-20.04
The operation was canceled.
setup (3.12, ubuntu-latest)
ubuntu-latest pipelines will use ubuntu-24.04 soon. For more details, see https://github.com/actions/runner-images/issues/10636
setup (3.8, ubuntu-latest)
ubuntu-latest pipelines will use ubuntu-24.04 soon. For more details, see https://github.com/actions/runner-images/issues/10636
setup (3.8, ubuntu-20.04)
ubuntu-latest pipelines will use ubuntu-24.04 soon. For more details, see https://github.com/actions/runner-images/issues/10636
Get test file matrix
ubuntu-latest pipelines will use ubuntu-24.04 soon. For more details, see https://github.com/actions/runner-images/issues/10636
Run pipelines/lint/test_multiqc_config.py with Python 3.8 on ubuntu-20.04
ubuntu-latest pipelines will use ubuntu-24.04 soon. For more details, see https://github.com/actions/runner-images/issues/10636
Run pipelines/lint/test_multiqc_config.py with Python 3.8 on ubuntu-20.04
No files were found with the provided path: ./snapshot_report.html. No artifacts will be uploaded.
Run pipelines/lint/test_actions_ci.py with Python 3.8 on ubuntu-20.04
ubuntu-latest pipelines will use ubuntu-24.04 soon. For more details, see https://github.com/actions/runner-images/issues/10636
Run pipelines/lint/test_actions_ci.py with Python 3.8 on ubuntu-20.04
No files were found with the provided path: ./snapshot_report.html. No artifacts will be uploaded.
Run pipelines/lint/test_actions_awsfulltest.py with Python 3.8 on ubuntu-20.04
ubuntu-latest pipelines will use ubuntu-24.04 soon. For more details, see https://github.com/actions/runner-images/issues/10636
Run pipelines/lint/test_actions_awsfulltest.py with Python 3.8 on ubuntu-20.04
No files were found with the provided path: ./snapshot_report.html. No artifacts will be uploaded.
Run pipelines/lint/test_actions_schema_validation.py with Python 3.8 on ubuntu-20.04
ubuntu-latest pipelines will use ubuntu-24.04 soon. For more details, see https://github.com/actions/runner-images/issues/10636
Run pipelines/lint/test_actions_schema_validation.py with Python 3.8 on ubuntu-20.04
No files were found with the provided path: ./snapshot_report.html. No artifacts will be uploaded.
Run pipelines/lint/test_configs.py with Python 3.8 on ubuntu-20.04
ubuntu-latest pipelines will use ubuntu-24.04 soon. For more details, see https://github.com/actions/runner-images/issues/10636
Run pipelines/lint/test_configs.py with Python 3.8 on ubuntu-20.04
No files were found with the provided path: ./snapshot_report.html. No artifacts will be uploaded.
Run pipelines/lint/test_template_strings.py with Python 3.8 on ubuntu-20.04
ubuntu-latest pipelines will use ubuntu-24.04 soon. For more details, see https://github.com/actions/runner-images/issues/10636
Run pipelines/lint/test_template_strings.py with Python 3.8 on ubuntu-20.04
No files were found with the provided path: ./snapshot_report.html. No artifacts will be uploaded.
Run pipelines/lint/test_nfcore_yml.py with Python 3.8 on ubuntu-20.04
ubuntu-latest pipelines will use ubuntu-24.04 soon. For more details, see https://github.com/actions/runner-images/issues/10636
Run pipelines/lint/test_nfcore_yml.py with Python 3.8 on ubuntu-20.04
No files were found with the provided path: ./snapshot_report.html. No artifacts will be uploaded.
Run pipelines/lint/test_plugin_includes.py with Python 3.8 on ubuntu-20.04
ubuntu-latest pipelines will use ubuntu-24.04 soon. For more details, see https://github.com/actions/runner-images/issues/10636
Run pipelines/lint/test_plugin_includes.py with Python 3.8 on ubuntu-20.04
No files were found with the provided path: ./snapshot_report.html. No artifacts will be uploaded.
Run pipelines/lint/test_merge_markers.py with Python 3.8 on ubuntu-20.04
ubuntu-latest pipelines will use ubuntu-24.04 soon. For more details, see https://github.com/actions/runner-images/issues/10636
Run pipelines/lint/test_merge_markers.py with Python 3.8 on ubuntu-20.04
No files were found with the provided path: ./snapshot_report.html. No artifacts will be uploaded.
Run pipelines/lint/test_nextflow_config.py with Python 3.8 on ubuntu-20.04
ubuntu-latest pipelines will use ubuntu-24.04 soon. For more details, see https://github.com/actions/runner-images/issues/10636
Run pipelines/lint/test_nextflow_config.py with Python 3.8 on ubuntu-20.04
No files were found with the provided path: ./snapshot_report.html. No artifacts will be uploaded.
Run pipelines/lint/test_actions_awstest.py with Python 3.8 on ubuntu-20.04
ubuntu-latest pipelines will use ubuntu-24.04 soon. For more details, see https://github.com/actions/runner-images/issues/10636
Run pipelines/lint/test_actions_awstest.py with Python 3.8 on ubuntu-20.04
No files were found with the provided path: ./snapshot_report.html. No artifacts will be uploaded.
Run pipelines/lint/test_files_unchanged.py with Python 3.8 on ubuntu-20.04
ubuntu-latest pipelines will use ubuntu-24.04 soon. For more details, see https://github.com/actions/runner-images/issues/10636
Run pipelines/lint/test_files_unchanged.py with Python 3.8 on ubuntu-20.04
No files were found with the provided path: ./snapshot_report.html. No artifacts will be uploaded.
Run pipelines/lint/test_files_exist.py with Python 3.8 on ubuntu-20.04
ubuntu-latest pipelines will use ubuntu-24.04 soon. For more details, see https://github.com/actions/runner-images/issues/10636
Run pipelines/lint/test_files_exist.py with Python 3.8 on ubuntu-20.04
No files were found with the provided path: ./snapshot_report.html. No artifacts will be uploaded.
Run pipelines/lint/test_version_consistency.py with Python 3.8 on ubuntu-20.04
ubuntu-latest pipelines will use ubuntu-24.04 soon. For more details, see https://github.com/actions/runner-images/issues/10636
Run pipelines/lint/test_version_consistency.py with Python 3.8 on ubuntu-20.04
No files were found with the provided path: ./snapshot_report.html. No artifacts will be uploaded.
Run pipelines/lint/test_modules_json.py with Python 3.8 on ubuntu-20.04
ubuntu-latest pipelines will use ubuntu-24.04 soon. For more details, see https://github.com/actions/runner-images/issues/10636
Run pipelines/lint/test_modules_json.py with Python 3.8 on ubuntu-20.04
No files were found with the provided path: ./snapshot_report.html. No artifacts will be uploaded.
Run pipelines/test_create_logo.py with Python 3.8 on ubuntu-20.04
ubuntu-latest pipelines will use ubuntu-24.04 soon. For more details, see https://github.com/actions/runner-images/issues/10636
Run pipelines/test_create_logo.py with Python 3.8 on ubuntu-20.04
No files were found with the provided path: ./snapshot_report.html. No artifacts will be uploaded.
Run pipelines/test_lint.py with Python 3.8 on ubuntu-20.04
ubuntu-latest pipelines will use ubuntu-24.04 soon. For more details, see https://github.com/actions/runner-images/issues/10636
Run pipelines/test_lint.py with Python 3.8 on ubuntu-20.04
No files were found with the provided path: ./snapshot_report.html. No artifacts will be uploaded.
Run pipelines/test_bump_version.py with Python 3.8 on ubuntu-20.04
ubuntu-latest pipelines will use ubuntu-24.04 soon. For more details, see https://github.com/actions/runner-images/issues/10636
Run pipelines/test_bump_version.py with Python 3.8 on ubuntu-20.04
No files were found with the provided path: ./snapshot_report.html. No artifacts will be uploaded.
Run pipelines/test_create.py with Python 3.8 on ubuntu-20.04
ubuntu-latest pipelines will use ubuntu-24.04 soon. For more details, see https://github.com/actions/runner-images/issues/10636
Run pipelines/test_create.py with Python 3.8 on ubuntu-20.04
No files were found with the provided path: ./snapshot_report.html. No artifacts will be uploaded.
Run modules/test_lint.py with Python 3.8 on ubuntu-20.04
ubuntu-latest pipelines will use ubuntu-24.04 soon. For more details, see https://github.com/actions/runner-images/issues/10636
Run modules/test_lint.py with Python 3.8 on ubuntu-20.04
No files were found with the provided path: ./snapshot_report.html. No artifacts will be uploaded.
Run pipelines/test_download.py with Python 3.8 on ubuntu-20.04
ubuntu-latest pipelines will use ubuntu-24.04 soon. For more details, see https://github.com/actions/runner-images/issues/10636
Run pipelines/test_download.py with Python 3.8 on ubuntu-20.04
No files were found with the provided path: ./snapshot_report.html. No artifacts will be uploaded.
Run modules/test_remove.py with Python 3.8 on ubuntu-20.04
ubuntu-latest pipelines will use ubuntu-24.04 soon. For more details, see https://github.com/actions/runner-images/issues/10636
Run modules/test_remove.py with Python 3.8 on ubuntu-20.04
No files were found with the provided path: ./snapshot_report.html. No artifacts will be uploaded.
Run pipelines/test_create_app.py with Python 3.8 on ubuntu-20.04
ubuntu-latest pipelines will use ubuntu-24.04 soon. For more details, see https://github.com/actions/runner-images/issues/10636
Run pipelines/test_create_app.py with Python 3.8 on ubuntu-20.04
No files were found with the provided path: ./snapshot_report.html. No artifacts will be uploaded.
Run pipelines/test_list.py with Python 3.8 on ubuntu-20.04
ubuntu-latest pipelines will use ubuntu-24.04 soon. For more details, see https://github.com/actions/runner-images/issues/10636
Run pipelines/test_list.py with Python 3.8 on ubuntu-20.04
No files were found with the provided path: ./snapshot_report.html. No artifacts will be uploaded.
Run test_pipelines.py with Python 3.8 on ubuntu-20.04
ubuntu-latest pipelines will use ubuntu-24.04 soon. For more details, see https://github.com/actions/runner-images/issues/10636
Run test_pipelines.py with Python 3.8 on ubuntu-20.04
No files were found with the provided path: ./snapshot_report.html. No artifacts will be uploaded.
Run pipelines/test_refgenie.py with Python 3.8 on ubuntu-20.04
ubuntu-latest pipelines will use ubuntu-24.04 soon. For more details, see https://github.com/actions/runner-images/issues/10636
Run pipelines/test_refgenie.py with Python 3.8 on ubuntu-20.04
No files were found with the provided path: ./snapshot_report.html. No artifacts will be uploaded.
Run test_lint_utils.py with Python 3.8 on ubuntu-20.04
ubuntu-latest pipelines will use ubuntu-24.04 soon. For more details, see https://github.com/actions/runner-images/issues/10636
Run test_lint_utils.py with Python 3.8 on ubuntu-20.04
No files were found with the provided path: ./snapshot_report.html. No artifacts will be uploaded.
Run pipelines/test_params_file.py with Python 3.8 on ubuntu-20.04
ubuntu-latest pipelines will use ubuntu-24.04 soon. For more details, see https://github.com/actions/runner-images/issues/10636
Run pipelines/test_params_file.py with Python 3.8 on ubuntu-20.04
No files were found with the provided path: ./snapshot_report.html. No artifacts will be uploaded.
Run modules/test_info.py with Python 3.8 on ubuntu-20.04
ubuntu-latest pipelines will use ubuntu-24.04 soon. For more details, see https://github.com/actions/runner-images/issues/10636
Run modules/test_info.py with Python 3.8 on ubuntu-20.04
No files were found with the provided path: ./snapshot_report.html. No artifacts will be uploaded.
Run test_test_utils.py with Python 3.8 on ubuntu-20.04
ubuntu-latest pipelines will use ubuntu-24.04 soon. For more details, see https://github.com/actions/runner-images/issues/10636
Run test_test_utils.py with Python 3.8 on ubuntu-20.04
No files were found with the provided path: ./snapshot_report.html. No artifacts will be uploaded.
Run pipelines/test_launch.py with Python 3.8 on ubuntu-20.04
ubuntu-latest pipelines will use ubuntu-24.04 soon. For more details, see https://github.com/actions/runner-images/issues/10636
Run pipelines/test_launch.py with Python 3.8 on ubuntu-20.04
No files were found with the provided path: ./snapshot_report.html. No artifacts will be uploaded.
Run modules/test_bump_versions.py with Python 3.8 on ubuntu-20.04
ubuntu-latest pipelines will use ubuntu-24.04 soon. For more details, see https://github.com/actions/runner-images/issues/10636
Run modules/test_bump_versions.py with Python 3.8 on ubuntu-20.04
No files were found with the provided path: ./snapshot_report.html. No artifacts will be uploaded.
Run test_modules.py with Python 3.8 on ubuntu-20.04
ubuntu-latest pipelines will use ubuntu-24.04 soon. For more details, see https://github.com/actions/runner-images/issues/10636
Run test_modules.py with Python 3.8 on ubuntu-20.04
No files were found with the provided path: ./snapshot_report.html. No artifacts will be uploaded.
Run test_subworkflows.py with Python 3.8 on ubuntu-20.04
No files were found with the provided path: ./snapshot_report.html. No artifacts will be uploaded.
Run modules/test_create.py with Python 3.8 on ubuntu-20.04
No files were found with the provided path: ./snapshot_report.html. No artifacts will be uploaded.
Run test_cli.py with Python 3.8 on ubuntu-20.04
No files were found with the provided path: ./snapshot_report.html. No artifacts will be uploaded.
Run subworkflows/test_info.py with Python 3.8 on ubuntu-20.04
No files were found with the provided path: ./snapshot_report.html. No artifacts will be uploaded.
Run subworkflows/test_create.py with Python 3.8 on ubuntu-20.04
No files were found with the provided path: ./snapshot_report.html. No artifacts will be uploaded.
Run pipelines/test_rocrate.py with Python 3.8 on ubuntu-20.04
No files were found with the provided path: ./snapshot_report.html. No artifacts will be uploaded.
Run subworkflows/test_patch.py with Python 3.8 on ubuntu-20.04
No files were found with the provided path: ./snapshot_report.html. No artifacts will be uploaded.
Run modules/test_modules_json.py with Python 3.8 on ubuntu-20.04
No files were found with the provided path: ./snapshot_report.html. No artifacts will be uploaded.
Run test_utils.py with Python 3.8 on ubuntu-20.04
No files were found with the provided path: ./snapshot_report.html. No artifacts will be uploaded.
Run modules/test_update.py with Python 3.8 on ubuntu-20.04
No files were found with the provided path: ./snapshot_report.html. No artifacts will be uploaded.
Run pipelines/test_schema.py with Python 3.8 on ubuntu-20.04
No files were found with the provided path: ./snapshot_report.html. No artifacts will be uploaded.
Run modules/test_patch.py with Python 3.8 on ubuntu-20.04
No files were found with the provided path: ./snapshot_report.html. No artifacts will be uploaded.
Run subworkflows/test_list.py with Python 3.8 on ubuntu-20.04
No files were found with the provided path: ./snapshot_report.html. No artifacts will be uploaded.
Run subworkflows/test_lint.py with Python 3.8 on ubuntu-20.04
No files were found with the provided path: ./snapshot_report.html. No artifacts will be uploaded.
Run modules/test_list.py with Python 3.8 on ubuntu-20.04
No files were found with the provided path: ./snapshot_report.html. No artifacts will be uploaded.
Run subworkflows/test_update.py with Python 3.8 on ubuntu-20.04
No files were found with the provided path: ./snapshot_report.html. No artifacts will be uploaded.
Run pipelines/test_sync.py with Python 3.8 on ubuntu-20.04
No files were found with the provided path: ./snapshot_report.html. No artifacts will be uploaded.
Run subworkflows/test_remove.py with Python 3.8 on ubuntu-20.04
No files were found with the provided path: ./snapshot_report.html. No artifacts will be uploaded.
Run subworkflows/test_install.py with Python 3.8 on ubuntu-20.04
No files were found with the provided path: ./snapshot_report.html. No artifacts will be uploaded.
Run modules/test_install.py with Python 3.8 on ubuntu-20.04
No files were found with the provided path: ./snapshot_report.html. No artifacts will be uploaded.

Artifacts

Produced during runtime
Name Size
coverage_modules__test_create.py
5.86 KB
coverage_modules__test_info.py
6 KB
coverage_modules__test_remove.py
5.91 KB
coverage_pipelines__test_bump_version.py
5.37 KB
coverage_pipelines__test_create.py
5.32 KB
coverage_pipelines__test_create_app.py
5.34 KB
coverage_pipelines__test_create_logo.py
5.32 KB
coverage_pipelines__test_download.py
5.68 KB
coverage_pipelines__test_launch.py
5.49 KB
coverage_pipelines__test_list.py
5.2 KB
coverage_pipelines__test_params_file.py
5.42 KB
coverage_pipelines__test_refgenie.py
5.21 KB
coverage_test_lint_utils.py
5.17 KB
coverage_test_modules.py
5.81 KB
coverage_test_pipelines.py
5.17 KB
coverage_test_subworkflows.py
6.51 KB
coverage_test_test_utils.py
5.17 KB