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Add PhILR transformation #1195

Add PhILR transformation

Add PhILR transformation #1195

Triggered via pull request January 21, 2025 14:41
Status Failure
Total duration 43m 18s
Artifacts 3

rworkflows.yml

on: pull_request
Matrix: rworkflows
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12 errors and 21 warnings
ubuntu-latest (auto)
Process completed with exit code 1.
ubuntu-latest (auto)
[Workflow Telemetry] Unable to finish stat collector
ubuntu-latest (auto)
[Workflow Telemetry] Error
ubuntu-latest (auto)
Error: connect ECONNREFUSED 127.0.0.1:7777
ubuntu-latest (auto)
[Workflow Telemetry] Unable to report stat collector result
ubuntu-latest (auto)
[Workflow Telemetry] Error
ubuntu-latest (auto)
Error: connect ECONNREFUSED 127.0.0.1:7777
windows-latest (auto)
R CMD check found WARNINGs
windows-latest (auto)
Process completed with exit code 1.
macOS-latest (auto)
No such keg: /opt/homebrew/Cellar/pkg-config@0.29.2
macOS-latest (auto)
R CMD check found WARNINGs
macOS-latest (auto)
Process completed with exit code 1.
windows-latest (auto)
unable to access index for repository https://www.bioconductor.org/packages/3.21/workflows/bin/windows/contrib/4.5:
windows-latest (auto)
C:/Users/runneradmin/AppData/Local/Temp/RtmpE5ZX02/Rbuild13f0b2e5288/mia/man/transformAssay.Rd:111: unexpected '{', expecting ']'
windows-latest (auto)
C:/Users/runneradmin/AppData/Local/Temp/RtmpE5ZX02/Rbuild13f0b2e5288/mia/man/transformAssay.Rd:111: unexpected '}', expecting '{'
windows-latest (auto)
C:/Users/runneradmin/AppData/Local/Temp/RtmpSYi74i/R.INSTALLe101b421a4/mia/man/transformAssay.Rd:111: unexpected '{', expecting ']'
windows-latest (auto)
C:/Users/runneradmin/AppData/Local/Temp/RtmpSYi74i/R.INSTALLe101b421a4/mia/man/transformAssay.Rd:111: unexpected '}', expecting '{'
windows-latest (auto)
C:/Users/runneradmin/AppData/Local/Temp/Rtmpi29s12/Rbuild19906db244b6/mia/man/transformAssay.Rd:111: unexpected '{', expecting ']'
windows-latest (auto)
C:/Users/runneradmin/AppData/Local/Temp/Rtmpi29s12/Rbuild19906db244b6/mia/man/transformAssay.Rd:111: unexpected '}', expecting '{'
windows-latest (auto)
'::' or ':::' import not declared from: 'philr'
windows-latest (auto)
prepare_Rd: ./man/transformAssay.Rd:111: unexpected '{', expecting ']'
windows-latest (auto)
Package unavailable to check Rd xrefs: 'philr'
Deprecation notice: v1, v2, and v3 of the artifact actions
The following artifacts were uploaded using a version of actions/upload-artifact that is scheduled for deprecation: "Linux-biocversion-devel-r-auto-results", "macOS-biocversion-devel-r-auto-results", "Windows-biocversion-devel-r-auto-results". Please update your workflow to use v4 of the artifact actions. Learn more: https://github.blog/changelog/2024-04-16-deprecation-notice-v3-of-the-artifact-actions/
macOS-latest (auto)
pkgconf 2.3.0_1 is already installed and up-to-date. To reinstall 2.3.0_1, run: brew reinstall pkgconf
macOS-latest (auto)
HOMEBREW_NO_INSTALLED_DEPENDENTS_CHECK is set: not checking for outdated dependents or dependents with broken linkage!
macOS-latest (auto)
harfbuzz 10.2.0 is already installed and up-to-date. To reinstall 10.2.0, run: brew reinstall harfbuzz
macOS-latest (auto)
fribidi 1.0.16 is already installed and up-to-date. To reinstall 1.0.16, run: brew reinstall fribidi
macOS-latest (auto)
dependencies ‘BiocVersion’, ‘BiocStyle’ are not available
macOS-latest (auto)
unable to access index for repository https://www.bioconductor.org/packages/3.21/workflows/bin/macosx/big-sur-arm64/contrib/4.5:
macOS-latest (auto)
unable to access index for repository https://www.bioconductor.org/packages/3.21/workflows/bin/macosx/big-sur-arm64/contrib/4.5:
macOS-latest (auto)
/private/var/folders/84/5079cppj57s0lzywhyzcxkjc0000gn/T/Rtmpfa9Y3o/Rbuild49bd78afd8b7/mia/man/transformAssay.Rd:111: unexpected '{', expecting ']'
macOS-latest (auto)
/private/var/folders/84/5079cppj57s0lzywhyzcxkjc0000gn/T/Rtmpfa9Y3o/Rbuild49bd78afd8b7/mia/man/transformAssay.Rd:111: unexpected '}', expecting '{'
macOS-latest (auto)
/private/var/folders/84/5079cppj57s0lzywhyzcxkjc0000gn/T/RtmpZeb3cm/R.INSTALL49d2424cbfda/mia/man/transformAssay.Rd:111: unexpected '{', expecting ']'

Artifacts

Produced during runtime
Name Size
Linux-biocversion-devel-r-auto-results
12.7 MB
Windows-biocversion-devel-r-auto-results
13.2 MB
macOS-biocversion-devel-r-auto-results
13.2 MB