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Fix atlas handling and transform file issues in bundle_seg #265

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Fix atlas handling and transform file issues in bundle_seg

Fix atlas handling and transform file issues in bundle_seg #265

Triggered via pull request December 19, 2024 01:30
@AlexVCaronAlexVCaron
synchronize #80
gagnonanthony:fix/atlasbundleseg
Status Cancelled
Total duration 1m 32s
Artifacts –

update_pr.yml

on: pull_request
checks  /  compute - changes
15s
checks / compute - changes
checks  /  prettier
18s
checks / prettier
checks  /  editorconfig
17s
checks / editorconfig
checks  /  pre-commit
15s
checks / pre-commit
Matrix: checks / test
Matrix: checks / lint - modules
Matrix: checks / lint - subworkflows
checks  /  report
0s
checks / report
checks  /  status
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checks / status
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47 errors and 13 warnings
checks / test (modules/nf-neuro/registration/anattodwi) / test - modules/nf-neuro/registration/anattodwi
EACCES: permission denied, mkdir '/__w/_actions/Wandalen/setup-python'
checks / test (modules/nf-neuro/registration/anattodwi) / test - modules/nf-neuro/registration/anattodwi
EACCES: permission denied, mkdir '/__w/_actions/Wandalen/setup-java'
checks / test (modules/nf-neuro/registration/anattodwi) / test - modules/nf-neuro/registration/anattodwi
EACCES: permission denied, mkdir '/__w/_actions/Wandalen/setup-nextflow'
checks / test (modules/nf-neuro/registration/anattodwi) / test - modules/nf-neuro/registration/anattodwi
EACCES: permission denied, mkdir '/__w/_actions/Wandalen/setup-nextflow'
checks / test (modules/nf-neuro/registration/anattodwi) / test - modules/nf-neuro/registration/anattodwi
EACCES: permission denied, mkdir '/__w/_actions/Wandalen/setup-java'
checks / test (modules/nf-neuro/registration/anattodwi) / test - modules/nf-neuro/registration/anattodwi
EACCES: permission denied, mkdir '/__w/_actions/Wandalen/setup-python'
checks / test (modules/nf-neuro/registration/anattodwi) / test - modules/nf-neuro/registration/anattodwi
Process completed with exit code 1.
checks / test (modules/nf-neuro/registration/anattodwi) / test - modules/nf-neuro/registration/anattodwi
Process completed with exit code 127.
checks / test (modules/nf-neuro/registration/anattodwi) / test - modules/nf-neuro/registration/anattodwi
Process completed with exit code 127.
checks / test (modules/nf-neuro/registration/anattodwi) / test - modules/nf-neuro/registration/anattodwi
Process completed with exit code 1.
checks / test (modules/nf-neuro/registration/synthregistration) / test - modules/nf-neuro/registration/synthregistration
EACCES: permission denied, mkdir '/__w/_actions/Wandalen/setup-python'
checks / test (modules/nf-neuro/registration/synthregistration) / test - modules/nf-neuro/registration/synthregistration
EACCES: permission denied, mkdir '/__w/_actions/Wandalen/setup-java'
checks / test (modules/nf-neuro/registration/synthregistration) / test - modules/nf-neuro/registration/synthregistration
EACCES: permission denied, mkdir '/__w/_actions/Wandalen/setup-nextflow'
checks / test (modules/nf-neuro/registration/synthregistration) / test - modules/nf-neuro/registration/synthregistration
EACCES: permission denied, mkdir '/__w/_actions/Wandalen/setup-nextflow'
checks / test (modules/nf-neuro/registration/synthregistration) / test - modules/nf-neuro/registration/synthregistration
EACCES: permission denied, mkdir '/__w/_actions/Wandalen/setup-java'
checks / test (modules/nf-neuro/registration/synthregistration) / test - modules/nf-neuro/registration/synthregistration
EACCES: permission denied, mkdir '/__w/_actions/Wandalen/setup-python'
checks / test (modules/nf-neuro/registration/synthregistration) / test - modules/nf-neuro/registration/synthregistration
Process completed with exit code 127.
checks / test (modules/nf-neuro/registration/synthregistration) / test - modules/nf-neuro/registration/synthregistration
Process completed with exit code 1.
checks / test (modules/nf-neuro/registration/synthregistration) / test - modules/nf-neuro/registration/synthregistration
Process completed with exit code 1.
checks / test (modules/nf-neuro/registration/synthregistration) / test - modules/nf-neuro/registration/synthregistration
Process completed with exit code 127.
checks / test (subworkflows/nf-neuro/bundle_seg) / test - subworkflows/nf-neuro/bundle_seg
EACCES: permission denied, mkdir '/__w/_actions/Wandalen/setup-python'
checks / test (subworkflows/nf-neuro/bundle_seg) / test - subworkflows/nf-neuro/bundle_seg
EACCES: permission denied, mkdir '/__w/_actions/Wandalen/setup-java'
checks / test (subworkflows/nf-neuro/bundle_seg) / test - subworkflows/nf-neuro/bundle_seg
EACCES: permission denied, mkdir '/__w/_actions/Wandalen/setup-nextflow'
checks / test (subworkflows/nf-neuro/bundle_seg) / test - subworkflows/nf-neuro/bundle_seg
EACCES: permission denied, mkdir '/__w/_actions/Wandalen/setup-nextflow'
checks / test (subworkflows/nf-neuro/bundle_seg) / test - subworkflows/nf-neuro/bundle_seg
EACCES: permission denied, mkdir '/__w/_actions/Wandalen/setup-java'
checks / test (subworkflows/nf-neuro/bundle_seg) / test - subworkflows/nf-neuro/bundle_seg
EACCES: permission denied, mkdir '/__w/_actions/Wandalen/setup-python'
checks / test (subworkflows/nf-neuro/bundle_seg) / test - subworkflows/nf-neuro/bundle_seg
Process completed with exit code 127.
checks / test (subworkflows/nf-neuro/bundle_seg) / test - subworkflows/nf-neuro/bundle_seg
Process completed with exit code 127.
checks / test (subworkflows/nf-neuro/bundle_seg) / test - subworkflows/nf-neuro/bundle_seg
Process completed with exit code 1.
checks / test (subworkflows/nf-neuro/bundle_seg) / test - subworkflows/nf-neuro/bundle_seg
Process completed with exit code 1.
checks / test (modules/nf-neuro/registration/ants) / test - modules/nf-neuro/registration/ants
EACCES: permission denied, mkdir '/__w/_actions/Wandalen/setup-python'
checks / test (modules/nf-neuro/registration/ants) / test - modules/nf-neuro/registration/ants
EACCES: permission denied, mkdir '/__w/_actions/Wandalen/setup-java'
checks / test (modules/nf-neuro/registration/ants) / test - modules/nf-neuro/registration/ants
EACCES: permission denied, mkdir '/__w/_actions/Wandalen/setup-nextflow'
checks / test (modules/nf-neuro/registration/ants) / test - modules/nf-neuro/registration/ants
EACCES: permission denied, mkdir '/__w/_actions/Wandalen/setup-nextflow'
checks / test (modules/nf-neuro/registration/ants) / test - modules/nf-neuro/registration/ants
EACCES: permission denied, mkdir '/__w/_actions/Wandalen/setup-java'
checks / test (modules/nf-neuro/registration/ants) / test - modules/nf-neuro/registration/ants
EACCES: permission denied, mkdir '/__w/_actions/Wandalen/setup-python'
checks / test (modules/nf-neuro/registration/ants) / test - modules/nf-neuro/registration/ants
Process completed with exit code 1.
checks / test (modules/nf-neuro/registration/ants) / test - modules/nf-neuro/registration/ants
Process completed with exit code 127.
checks / test (modules/nf-neuro/registration/ants) / test - modules/nf-neuro/registration/ants
Process completed with exit code 127.
checks / test (modules/nf-neuro/registration/ants) / test - modules/nf-neuro/registration/ants
Process completed with exit code 1.
checks / lint - modules (registration/ants) / lint - registration/ants
The run was canceled by @AlexVCaron.
checks / lint - modules (registration/synthregistration) / lint - registration/synthregistration
The run was canceled by @AlexVCaron.
checks / lint - modules (registration/anattodwi) / lint - registration/anattodwi
The run was canceled by @AlexVCaron.
checks / test (subworkflows/nf-neuro/registration) / test - subworkflows/nf-neuro/registration
The run was canceled by @AlexVCaron.
checks / test (subworkflows/nf-neuro/registration) / test - subworkflows/nf-neuro/registration
A task was canceled.
checks / lint - subworkflows (registration) / lint - registration
The run was canceled by @AlexVCaron.
checks / lint - subworkflows (registration) / lint - registration
The operation was canceled.
checks / compute - changes
ubuntu-latest pipelines will use ubuntu-24.04 soon. For more details, see https://github.com/actions/runner-images/issues/10636
checks / pre-commit
ubuntu-latest pipelines will use ubuntu-24.04 soon. For more details, see https://github.com/actions/runner-images/issues/10636
checks / editorconfig
ubuntu-latest pipelines will use ubuntu-24.04 soon. For more details, see https://github.com/actions/runner-images/issues/10636
checks / prettier
ubuntu-latest pipelines will use ubuntu-24.04 soon. For more details, see https://github.com/actions/runner-images/issues/10636
checks / test (modules/nf-neuro/registration/anattodwi) / test - modules/nf-neuro/registration/anattodwi
No files were found with the provided path: tests_workdir/. No artifacts will be uploaded.
checks / test (modules/nf-neuro/registration/anattodwi) / test - modules/nf-neuro/registration/anattodwi
No files were found with the provided path: tests_reports/. No artifacts will be uploaded.
checks / test (modules/nf-neuro/registration/synthregistration) / test - modules/nf-neuro/registration/synthregistration
No files were found with the provided path: tests_reports/. No artifacts will be uploaded.
checks / test (modules/nf-neuro/registration/synthregistration) / test - modules/nf-neuro/registration/synthregistration
No files were found with the provided path: tests_workdir/. No artifacts will be uploaded.
checks / test (subworkflows/nf-neuro/bundle_seg) / test - subworkflows/nf-neuro/bundle_seg
No files were found with the provided path: tests_reports/. No artifacts will be uploaded.
checks / test (subworkflows/nf-neuro/bundle_seg) / test - subworkflows/nf-neuro/bundle_seg
No files were found with the provided path: tests_workdir/. No artifacts will be uploaded.
checks / test (modules/nf-neuro/registration/ants) / test - modules/nf-neuro/registration/ants
No files were found with the provided path: tests_reports/. No artifacts will be uploaded.
checks / test (modules/nf-neuro/registration/ants) / test - modules/nf-neuro/registration/ants
No files were found with the provided path: tests_workdir/. No artifacts will be uploaded.
checks / lint - subworkflows (bundle_seg) / lint - bundle_seg
ubuntu-latest pipelines will use ubuntu-24.04 soon. For more details, see https://github.com/actions/runner-images/issues/10636