| Back to Multiple platform build/check report for BioC 3.21: simplified long |
|
This page was generated on 2025-03-03 11:46 -0500 (Mon, 03 Mar 2025).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| nebbiolo1 | Linux (Ubuntu 24.04.1 LTS) | x86_64 | R Under development (unstable) (2025-02-19 r87757) -- "Unsuffered Consequences" | 4708 |
| palomino7 | Windows Server 2022 Datacenter | x64 | R Under development (unstable) (2025-01-21 r87610 ucrt) -- "Unsuffered Consequences" | 4495 |
| lconway | macOS 12.7.1 Monterey | x86_64 | R Under development (unstable) (2025-01-22 r87618) -- "Unsuffered Consequences" | 4506 |
| kjohnson3 | macOS 13.7.1 Ventura | arm64 | R Under development (unstable) (2025-01-20 r87609) -- "Unsuffered Consequences" | 4460 |
| kunpeng2 | Linux (openEuler 24.03 LTS) | aarch64 | R Under development (unstable) (2025-02-19 r87757) -- "Unsuffered Consequences" | 4363 |
| Click on any hostname to see more info about the system (e.g. compilers) (*) as reported by 'uname -p', except on Windows and Mac OS X | ||||
| Package 1473/2302 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| ontoProc 2.1.4 (landing page) Vincent Carey
| nebbiolo1 | Linux (Ubuntu 24.04.1 LTS) / x86_64 | OK | ERROR | skipped | |||||||||
| palomino7 | Windows Server 2022 Datacenter / x64 | OK | ERROR | skipped | skipped | |||||||||
| lconway | macOS 12.7.1 Monterey / x86_64 | OK | ERROR | skipped | skipped | |||||||||
| kjohnson3 | macOS 13.7.1 Ventura / arm64 | OK | ERROR | skipped | skipped | |||||||||
| kunpeng2 | Linux (openEuler 24.03 LTS) / aarch64 | OK | ERROR | skipped | ||||||||||
|
To the developers/maintainers of the ontoProc package: - Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/ontoProc.git to reflect on this report. See Troubleshooting Build Report for more information. - Use the following Renviron settings to reproduce errors and warnings. - If 'R CMD check' started to fail recently on the Linux builder(s) over a missing dependency, add the missing dependency to 'Suggests:' in your DESCRIPTION file. See Renviron.bioc for more information. |
| Package: ontoProc |
| Version: 2.1.4 |
| Command: /Library/Frameworks/R.framework/Resources/bin/R CMD build --keep-empty-dirs --no-resave-data ontoProc |
| StartedAt: 2025-03-02 17:08:12 -0500 (Sun, 02 Mar 2025) |
| EndedAt: 2025-03-02 17:09:21 -0500 (Sun, 02 Mar 2025) |
| EllapsedTime: 68.8 seconds |
| RetCode: 1 |
| Status: ERROR |
| PackageFile: None |
| PackageFileSize: NA |
##############################################################################
##############################################################################
###
### Running command:
###
### /Library/Frameworks/R.framework/Resources/bin/R CMD build --keep-empty-dirs --no-resave-data ontoProc
###
##############################################################################
##############################################################################
* checking for file ‘ontoProc/DESCRIPTION’ ... OK
* preparing ‘ontoProc’:
* checking DESCRIPTION meta-information ... OK
* installing the package to build vignettes
* creating vignettes ... ERROR
--- re-building ‘ontoProc.Rmd’ using rmarkdown
Channels:
- conda-forge
Platform: osx-arm64
Collecting package metadata (repodata.json): ...working... done
Solving environment: ...working... done
## Package Plan ##
environment location: /Users/biocbuild/Library/Caches/org.R-project.R/R/basilisk/1.19.1/ontoProc/2.1.4/bsklenv
added / updated specs:
- python=3.12.8
The following NEW packages will be INSTALLED:
bzip2 conda-forge/osx-arm64::bzip2-1.0.8-h99b78c6_7
ca-certificates conda-forge/osx-arm64::ca-certificates-2025.1.31-hf0a4a13_0
libexpat conda-forge/osx-arm64::libexpat-2.6.4-h286801f_0
libffi conda-forge/osx-arm64::libffi-3.4.2-h3422bc3_5
liblzma conda-forge/osx-arm64::liblzma-5.6.4-h39f12f2_0
libsqlite conda-forge/osx-arm64::libsqlite-3.49.1-h3f77e49_1
libzlib conda-forge/osx-arm64::libzlib-1.3.1-h8359307_2
ncurses conda-forge/osx-arm64::ncurses-6.5-h5e97a16_3
openssl conda-forge/osx-arm64::openssl-3.4.1-h81ee809_0
pip conda-forge/noarch::pip-25.0.1-pyh8b19718_0
python conda-forge/osx-arm64::python-3.12.8-hc22306f_1_cpython
readline conda-forge/osx-arm64::readline-8.2-h1d1bf99_2
setuptools conda-forge/noarch::setuptools-75.8.2-pyhff2d567_0
tk conda-forge/osx-arm64::tk-8.6.13-h5083fa2_1
tzdata conda-forge/noarch::tzdata-2025a-h78e105d_0
wheel conda-forge/noarch::wheel-0.45.1-pyhd8ed1ab_1
Preparing transaction: ...working... done
Verifying transaction: ...working... done
Executing transaction: ...working... done
Channels:
- conda-forge
Platform: osx-arm64
Collecting package metadata (repodata.json): ...working... done
Solving environment: ...working... done
==> WARNING: A newer version of conda exists. <==
current version: 24.11.3
latest version: 25.1.1
Please update conda by running
$ conda update -n base -c conda-forge conda
# All requested packages already installed.
Channels:
- conda-forge
Platform: osx-arm64
Collecting package metadata (repodata.json): ...working... done
Solving environment: ...working... failed
LibMambaUnsatisfiableError: Encountered problems while solving:
- package h5py-3.6.0-mpi_mpich_py38h4cbef1e_0 requires python_abi 3.8.* *_cp38, but none of the providers can be installed
Could not solve for environment specs
The following packages are incompatible
├─ h5py 3.6.0** is installable with the potential options
│ ├─ h5py 3.6.0 would require
│ │ └─ python_abi 3.8.* *_cp38, which can be installed;
│ ├─ h5py 3.6.0 would require
│ │ └─ python_abi 3.10.* *_cp310, which can be installed;
│ └─ h5py 3.6.0 would require
│ └─ python_abi 3.9.* *_cp39, which can be installed;
└─ python 3.12.8** is not installable because it requires
└─ python_abi 3.12.* *_cp312, which conflicts with any installable versions previously reported.
Quitting from lines 52-55 [lkbr] (ontoProc.Rmd)
Error: processing vignette 'ontoProc.Rmd' failed with diagnostics:
one or more Python packages failed to install [error code 1]
--- failed re-building ‘ontoProc.Rmd’
--- re-building ‘owlents.Rmd’ using rmarkdown
Channels:
- conda-forge
Platform: osx-arm64
Collecting package metadata (repodata.json): ...working... done
Solving environment: ...working... done
## Package Plan ##
environment location: /Users/biocbuild/Library/Caches/org.R-project.R/R/basilisk/1.19.1/ontoProc/2.1.4/bsklenv
added / updated specs:
- python=3.12.8
The following NEW packages will be INSTALLED:
bzip2 conda-forge/osx-arm64::bzip2-1.0.8-h99b78c6_7
ca-certificates conda-forge/osx-arm64::ca-certificates-2025.1.31-hf0a4a13_0
libexpat conda-forge/osx-arm64::libexpat-2.6.4-h286801f_0
libffi conda-forge/osx-arm64::libffi-3.4.2-h3422bc3_5
liblzma conda-forge/osx-arm64::liblzma-5.6.4-h39f12f2_0
libsqlite conda-forge/osx-arm64::libsqlite-3.49.1-h3f77e49_1
libzlib conda-forge/osx-arm64::libzlib-1.3.1-h8359307_2
ncurses conda-forge/osx-arm64::ncurses-6.5-h5e97a16_3
openssl conda-forge/osx-arm64::openssl-3.4.1-h81ee809_0
pip conda-forge/noarch::pip-25.0.1-pyh8b19718_0
python conda-forge/osx-arm64::python-3.12.8-hc22306f_1_cpython
readline conda-forge/osx-arm64::readline-8.2-h1d1bf99_2
setuptools conda-forge/noarch::setuptools-75.8.2-pyhff2d567_0
tk conda-forge/osx-arm64::tk-8.6.13-h5083fa2_1
tzdata conda-forge/noarch::tzdata-2025a-h78e105d_0
wheel conda-forge/noarch::wheel-0.45.1-pyhd8ed1ab_1
Preparing transaction: ...working... done
Verifying transaction: ...working... done
Executing transaction: ...working... done
Channels:
- conda-forge
Platform: osx-arm64
Collecting package metadata (repodata.json): ...working... done
Solving environment: ...working... done
==> WARNING: A newer version of conda exists. <==
current version: 24.11.3
latest version: 25.1.1
Please update conda by running
$ conda update -n base -c conda-forge conda
# All requested packages already installed.
Channels:
- conda-forge
Platform: osx-arm64
Collecting package metadata (repodata.json): ...working... done
Solving environment: ...working... failed
LibMambaUnsatisfiableError: Encountered problems while solving:
- package h5py-3.6.0-mpi_mpich_py38h4cbef1e_0 requires python_abi 3.8.* *_cp38, but none of the providers can be installed
Could not solve for environment specs
The following packages are incompatible
├─ h5py 3.6.0** is installable with the potential options
│ ├─ h5py 3.6.0 would require
│ │ └─ python_abi 3.8.* *_cp38, which can be installed;
│ ├─ h5py 3.6.0 would require
│ │ └─ python_abi 3.10.* *_cp310, which can be installed;
│ └─ h5py 3.6.0 would require
│ └─ python_abi 3.9.* *_cp39, which can be installed;
└─ python 3.12.8** is not installable because it requires
└─ python_abi 3.12.* *_cp312, which conflicts with any installable versions previously reported.
Quitting from lines 34-38 [getcl] (owlents.Rmd)
Error: processing vignette 'owlents.Rmd' failed with diagnostics:
one or more Python packages failed to install [error code 1]
--- failed re-building ‘owlents.Rmd’
SUMMARY: processing the following files failed:
‘ontoProc.Rmd’ ‘owlents.Rmd’
Error: Vignette re-building failed.
Execution halted