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dependency fixes

dependency fixes #562

Triggered via push June 5, 2024 07:22
Status Failure
Total duration 1h 10m 57s
Artifacts 1

check-bioc.yml

on: push
Matrix: build-check
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18 errors and 18 warnings
macOS-latest (4.4)
Failed to install 'xcms' from local:
macOS-latest (4.4)
Process completed with exit code 1.
macOS-latest (4.4)
package or namespace load failed for ‘matrixStats’ in dyn.load(file, DLLpath = DLLpath, ...):
macOS-latest (4.4)
Failed to install 'xcms' from local:
macOS-latest (4.4)
Process completed with exit code 1.
macOS-latest (4.4)
No such keg: /opt/homebrew/Cellar/r
macOS-latest (4.4)
package or namespace load failed for ‘matrixStats’ in dyn.load(file, DLLpath = DLLpath, ...):
macOS-latest (4.4)
.onLoad failed in loadNamespace() for 'XML', details:
macOS-latest (4.4)
package or namespace load failed for ‘dbplyr’ in dyn.load(file, DLLpath = DLLpath, ...):
macOS-latest (4.4)
package or namespace load failed for ‘Rcpp’ in dyn.load(file, DLLpath = DLLpath, ...):
macOS-latest (4.4)
.onLoad failed in loadNamespace() for 'XML', details:
macOS-latest (4.4)
.onLoad failed in loadNamespace() for 'XML', details:
macOS-latest (4.4)
package or namespace load failed for ‘GenomeInfoDb’ in dyn.load(file, DLLpath = DLLpath, ...):
macOS-latest (4.4)
package or namespace load failed for ‘matrixStats’ in dyn.load(file, DLLpath = DLLpath, ...):
macOS-latest (4.4)
package or namespace load failed for ‘matrixStats’ in dyn.load(file, DLLpath = DLLpath, ...):
macOS-latest (4.4)
package or namespace load failed for ‘Spectra’ in dyn.load(file, DLLpath = DLLpath, ...):
windows-latest (4.4)
R CMD check found WARNINGs
windows-latest (4.4)
Process completed with exit code 1.
macOS-latest (4.4)
Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: actions/checkout@v2, actions/cache@v2. For more information see: https://github.blog/changelog/2023-09-22-github-actions-transitioning-from-node-16-to-node-20/.
macOS-latest (4.4)
The following actions uses node12 which is deprecated and will be forced to run on node16: actions/checkout@v2, actions/cache@v2. For more info: https://github.blog/changelog/2023-06-13-github-actions-all-actions-will-run-on-node16-instead-of-node12-by-default/
macOS-latest (4.4)
No files were found with the provided path: check. No artifacts will be uploaded.
macOS-latest (4.4)
pkg-config 0.29.2_3 is already installed and up-to-date. To reinstall 0.29.2_3, run: brew reinstall pkg-config
macOS-latest (4.4)
HOMEBREW_NO_INSTALLED_DEPENDENTS_CHECK is set: not checking for outdated dependents or dependents with broken linkage!
macOS-latest (4.4)
Fortran 2018 deleted feature: DO termination statement which is not END DO or CONTINUE with label 20 at (1)
macOS-latest (4.4)
Fortran 2018 deleted feature: DO termination statement which is not END DO or CONTINUE with label 35 at (1)
macOS-latest (4.4)
‘dold’ may be used uninitialized [-Wmaybe-uninitialized]
macOS-latest (4.4)
harfbuzz 8.4.0 is already installed and up-to-date. To reinstall 8.4.0, run: brew reinstall harfbuzz
ubuntu-latest (devel)
Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: actions/checkout@v2, actions/cache@v2. For more information see: https://github.blog/changelog/2023-09-22-github-actions-transitioning-from-node-16-to-node-20/.
ubuntu-latest (devel)
The following actions uses node12 which is deprecated and will be forced to run on node16: actions/checkout@v2, actions/cache@v2. For more info: https://github.blog/changelog/2023-06-13-github-actions-all-actions-will-run-on-node16-instead-of-node12-by-default/
windows-latest (4.4)
Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: actions/checkout@v2, actions/cache@v2. For more information see: https://github.blog/changelog/2023-09-22-github-actions-transitioning-from-node-16-to-node-20/.
windows-latest (4.4)
The following actions uses node12 which is deprecated and will be forced to run on node16: actions/checkout@v2, actions/cache@v2. For more info: https://github.blog/changelog/2023-06-13-github-actions-all-actions-will-run-on-node16-instead-of-node12-by-default/
windows-latest (4.4)
Found the following significant warnings:
windows-latest (4.4)
See below...
windows-latest (4.4)
Fortran 2018 deleted feature: DO termination statement which is not END DO or CONTINUE with label 20 at (1)
windows-latest (4.4)
Fortran 2018 deleted feature: DO termination statement which is not END DO or CONTINUE with label 35 at (1)
windows-latest (4.4)
Fortran 2018 deleted feature: Arithmetic IF statement at (1)

Artifacts

Produced during runtime
Name Size
Windows-biocversion-devel-r-devel-results
24.4 MB