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This page was generated on 2024-12-24 11:46 -0500 (Tue, 24 Dec 2024).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo1Linux (Ubuntu 24.04.1 LTS)x86_64R Under development (unstable) (2024-10-21 r87258) -- "Unsuffered Consequences" 4754
palomino7Windows Server 2022 Datacenterx64R Under development (unstable) (2024-10-26 r87273 ucrt) -- "Unsuffered Consequences" 4472
lconwaymacOS 12.7.1 Montereyx86_64R Under development (unstable) (2024-11-20 r87352) -- "Unsuffered Consequences" 4426
kjohnson3macOS 13.7.1 Venturaarm64R Under development (unstable) (2024-11-20 r87352) -- "Unsuffered Consequences" 4381
kunpeng2Linux (openEuler 22.03 LTS-SP1)aarch64R Under development (unstable) (2024-11-24 r87369) -- "Unsuffered Consequences" 4373
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 138/2274HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
basilisk 1.19.0  (landing page)
Aaron Lun
Snapshot Date: 2024-12-23 13:40 -0500 (Mon, 23 Dec 2024)
git_url: https://git.bioconductor.org/packages/basilisk
git_branch: devel
git_last_commit: 7e940de
git_last_commit_date: 2024-10-29 10:43:26 -0500 (Tue, 29 Oct 2024)
nebbiolo1Linux (Ubuntu 24.04.1 LTS) / x86_64  OK    OK    OK  UNNEEDED, same version is already published
palomino7Windows Server 2022 Datacenter / x64  OK    OK    OK    OK  UNNEEDED, same version is already published
lconwaymacOS 12.7.1 Monterey / x86_64  OK    OK    OK    OK  UNNEEDED, same version is already published
kjohnson3macOS 13.7.1 Ventura / arm64  OK    OK    OK    OK  UNNEEDED, same version is already published
kunpeng2Linux (openEuler 22.03 LTS-SP1) / aarch64  OK    ERROR  skipped


BUILD results for basilisk on kunpeng2

To the developers/maintainers of the basilisk package:
- Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/basilisk.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.
- See Martin Grigorov's blog post for how to debug Linux ARM64 related issues on a x86_64 host.

raw results


Summary

Package: basilisk
Version: 1.19.0
Command: /home/biocbuild/R/R/bin/R CMD build --keep-empty-dirs --no-resave-data basilisk
StartedAt: 2024-12-23 21:00:56 -0000 (Mon, 23 Dec 2024)
EndedAt: 2024-12-23 21:03:28 -0000 (Mon, 23 Dec 2024)
EllapsedTime: 152.0 seconds
RetCode: 1
Status:   ERROR  
PackageFile: None
PackageFileSize: NA

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   /home/biocbuild/R/R/bin/R CMD build --keep-empty-dirs --no-resave-data basilisk
###
##############################################################################
##############################################################################


* checking for file ‘basilisk/DESCRIPTION’ ... OK
* preparing ‘basilisk’:
* checking DESCRIPTION meta-information ... OK
* installing the package to build vignettes
* creating vignettes ... ERROR
--- re-building ‘motivation.Rmd’ using rmarkdown
Channels:
 - conda-forge
Platform: linux-aarch64
Collecting package metadata (repodata.json): ...working... done
Solving environment: ...working... done

## Package Plan ##

  environment location: /home/biocbuild/tmp/RtmpKe1REz/Rbuild2a22634a030f74/basilisk/vignettes/basilisk-vignette-test/1.19.0

  added / updated specs:
    - python=3.10.14


The following NEW packages will be INSTALLED:

  _openmp_mutex      conda-forge/linux-aarch64::_openmp_mutex-4.5-2_gnu 
  bzip2              conda-forge/linux-aarch64::bzip2-1.0.8-h68df207_7 
  ca-certificates    conda-forge/linux-aarch64::ca-certificates-2024.12.14-hcefe29a_0 
  ld_impl_linux-aar~ conda-forge/linux-aarch64::ld_impl_linux-aarch64-2.43-h80caac9_2 
  libffi             conda-forge/linux-aarch64::libffi-3.4.2-h3557bc0_5 
  libgcc             conda-forge/linux-aarch64::libgcc-14.2.0-he277a41_1 
  libgcc-ng          conda-forge/linux-aarch64::libgcc-ng-14.2.0-he9431aa_1 
  libgomp            conda-forge/linux-aarch64::libgomp-14.2.0-he277a41_1 
  liblzma            conda-forge/linux-aarch64::liblzma-5.6.3-h86ecc28_1 
  liblzma-devel      conda-forge/linux-aarch64::liblzma-devel-5.6.3-h86ecc28_1 
  libnsl             conda-forge/linux-aarch64::libnsl-2.0.1-h31becfc_0 
  libsqlite          conda-forge/linux-aarch64::libsqlite-3.47.2-h5eb1b54_0 
  libuuid            conda-forge/linux-aarch64::libuuid-2.38.1-hb4cce97_0 
  libxcrypt          conda-forge/linux-aarch64::libxcrypt-4.4.36-h31becfc_1 
  libzlib            conda-forge/linux-aarch64::libzlib-1.3.1-h86ecc28_2 
  ncurses            conda-forge/linux-aarch64::ncurses-6.5-hcccb83c_1 
  openssl            conda-forge/linux-aarch64::openssl-3.4.0-h86ecc28_0 
  pip                conda-forge/noarch::pip-24.3.1-pyh8b19718_2 
  python             conda-forge/linux-aarch64::python-3.10.14-hbbe8eec_0_cpython 
  readline           conda-forge/linux-aarch64::readline-8.2-h8fc344f_1 
  setuptools         conda-forge/noarch::setuptools-75.6.0-pyhff2d567_1 
  tk                 conda-forge/linux-aarch64::tk-8.6.13-h194ca79_0 
  tzdata             conda-forge/noarch::tzdata-2024b-hc8b5060_0 
  wheel              conda-forge/noarch::wheel-0.45.1-pyhd8ed1ab_1 
  xz                 conda-forge/linux-aarch64::xz-5.6.3-h2dbfc1b_1 
  xz-gpl-tools       conda-forge/linux-aarch64::xz-gpl-tools-5.6.3-h2dbfc1b_1 
  xz-tools           conda-forge/linux-aarch64::xz-tools-5.6.3-h86ecc28_1 


Preparing transaction: ...working... done
Verifying transaction: ...working... done
Executing transaction: ...working... done
Channels:
 - conda-forge
Platform: linux-aarch64
Collecting package metadata (repodata.json): ...working... done
Solving environment: ...working... done


==> WARNING: A newer version of conda exists. <==
    current version: 24.3.0
    latest version: 24.11.2

Please update conda by running

    $ conda update -n base -c conda-forge conda



# All requested packages already installed.

Channels:
 - conda-forge
Platform: linux-aarch64
Collecting package metadata (repodata.json): ...working... done
Solving environment: ...working... done


==> WARNING: A newer version of conda exists. <==
    current version: 24.3.0
    latest version: 24.11.2

Please update conda by running

    $ conda update -n base -c conda-forge conda



## Package Plan ##

  environment location: /home/biocbuild/tmp/RtmpKe1REz/Rbuild2a22634a030f74/basilisk/vignettes/basilisk-vignette-test/1.19.0

  added / updated specs:
    - numpy=1.22.1
    - python=3.10.14
    - scikit-learn=1.1.1


The following NEW packages will be INSTALLED:

  brotli-python      conda-forge/linux-aarch64::brotli-python-1.1.0-py310he30c3ed_2 
  certifi            conda-forge/noarch::certifi-2024.12.14-pyhd8ed1ab_0 
  cffi               conda-forge/linux-aarch64::cffi-1.17.1-py310h1451162_0 
  charset-normalizer conda-forge/noarch::charset-normalizer-3.4.0-pyhd8ed1ab_1 
  h2                 conda-forge/noarch::h2-4.1.0-pyhd8ed1ab_1 
  hpack              conda-forge/noarch::hpack-4.0.0-pyhd8ed1ab_1 
  hyperframe         conda-forge/noarch::hyperframe-6.0.1-pyhd8ed1ab_1 
  idna               conda-forge/noarch::idna-3.10-pyhd8ed1ab_1 
  joblib             conda-forge/noarch::joblib-1.4.2-pyhd8ed1ab_1 
  libblas            conda-forge/linux-aarch64::libblas-3.9.0-20_linuxaarch64_openblas 
  libcblas           conda-forge/linux-aarch64::libcblas-3.9.0-20_linuxaarch64_openblas 
  libgfortran        conda-forge/linux-aarch64::libgfortran-14.2.0-he9431aa_1 
  libgfortran-ng     conda-forge/linux-aarch64::libgfortran-ng-14.2.0-he9431aa_1 
  libgfortran5       conda-forge/linux-aarch64::libgfortran5-14.2.0-hb6113d0_1 
  liblapack          conda-forge/linux-aarch64::liblapack-3.9.0-20_linuxaarch64_openblas 
  libopenblas        conda-forge/linux-aarch64::libopenblas-0.3.25-pthreads_h5a5ec62_0 
  libstdcxx          conda-forge/linux-aarch64::libstdcxx-14.2.0-h3f4de04_1 
  libstdcxx-ng       conda-forge/linux-aarch64::libstdcxx-ng-14.2.0-hf1166c9_1 
  numpy              conda-forge/linux-aarch64::numpy-1.22.1-py310ha311ffb_0 
  packaging          conda-forge/noarch::packaging-24.2-pyhd8ed1ab_2 
  platformdirs       conda-forge/noarch::platformdirs-4.3.6-pyhd8ed1ab_1 
  pooch              conda-forge/noarch::pooch-1.8.2-pyhd8ed1ab_1 
  pycparser          conda-forge/noarch::pycparser-2.22-pyh29332c3_1 
  pysocks            conda-forge/noarch::pysocks-1.7.1-pyha55dd90_7 
  python_abi         conda-forge/linux-aarch64::python_abi-3.10-5_cp310 
  requests           conda-forge/noarch::requests-2.32.3-pyhd8ed1ab_1 
  scikit-learn       conda-forge/linux-aarch64::scikit-learn-1.1.1-py310h960e1e0_0 
  scipy              conda-forge/linux-aarch64::scipy-1.11.2-py310h7f380f4_0 
  threadpoolctl      conda-forge/noarch::threadpoolctl-3.5.0-pyhc1e730c_0 
  urllib3            conda-forge/noarch::urllib3-2.3.0-pyhd8ed1ab_0 
  zstandard          conda-forge/linux-aarch64::zstandard-0.23.0-py310h6a57b22_1 
  zstd               conda-forge/linux-aarch64::zstd-1.5.6-h02f22dd_0 



Downloading and Extracting Packages: ...working... done
Preparing transaction: ...working... done
Verifying transaction: ...working... done
Executing transaction: ...working... done
Channels:
 - conda-forge
Platform: linux-aarch64
Collecting package metadata (repodata.json): ...working... done
Solving environment: ...working... done

## Package Plan ##

  environment location: /home/biocbuild/tmp/RtmpKe1REz/Rbuild2a22634a030f74/basilisk/vignettes/basilisk-vignette-test2

  added / updated specs:
    - python=3.10


The following NEW packages will be INSTALLED:

  _openmp_mutex      conda-forge/linux-aarch64::_openmp_mutex-4.5-2_gnu 
  bzip2              conda-forge/linux-aarch64::bzip2-1.0.8-h68df207_7 
  ca-certificates    conda-forge/linux-aarch64::ca-certificates-2024.12.14-hcefe29a_0 
  ld_impl_linux-aar~ conda-forge/linux-aarch64::ld_impl_linux-aarch64-2.43-h80caac9_2 
  libffi             conda-forge/linux-aarch64::libffi-3.4.2-h3557bc0_5 
  libgcc             conda-forge/linux-aarch64::libgcc-14.2.0-he277a41_1 
  libgcc-ng          conda-forge/linux-aarch64::libgcc-ng-14.2.0-he9431aa_1 
  libgomp            conda-forge/linux-aarch64::libgomp-14.2.0-he277a41_1 
  liblzma            conda-forge/linux-aarch64::liblzma-5.6.3-h86ecc28_1 
  libnsl             conda-forge/linux-aarch64::libnsl-2.0.1-h31becfc_0 
  libsqlite          conda-forge/linux-aarch64::libsqlite-3.47.2-h5eb1b54_0 
  libuuid            conda-forge/linux-aarch64::libuuid-2.38.1-hb4cce97_0 
  libxcrypt          conda-forge/linux-aarch64::libxcrypt-4.4.36-h31becfc_1 
  libzlib            conda-forge/linux-aarch64::libzlib-1.3.1-h86ecc28_2 
  ncurses            conda-forge/linux-aarch64::ncurses-6.5-hcccb83c_1 
  openssl            conda-forge/linux-aarch64::openssl-3.4.0-h86ecc28_0 
  pip                conda-forge/noarch::pip-24.3.1-pyh8b19718_2 
  python             conda-forge/linux-aarch64::python-3.10.16-h57b00e1_1_cpython 
  readline           conda-forge/linux-aarch64::readline-8.2-h8fc344f_1 
  setuptools         conda-forge/noarch::setuptools-75.6.0-pyhff2d567_1 
  tk                 conda-forge/linux-aarch64::tk-8.6.13-h194ca79_0 
  tzdata             conda-forge/noarch::tzdata-2024b-hc8b5060_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: linux-aarch64
Collecting package metadata (repodata.json): ...working... done
Solving environment: ...working... done


==> WARNING: A newer version of conda exists. <==
    current version: 24.3.0
    latest version: 24.11.2

Please update conda by running

    $ conda update -n base -c conda-forge conda



# All requested packages already installed.

Channels:
 - conda-forge
Platform: linux-aarch64
Collecting package metadata (repodata.json): ...working... done
Solving environment: ...working... done


==> WARNING: A newer version of conda exists. <==
    current version: 24.3.0
    latest version: 24.11.2

Please update conda by running

    $ conda update -n base -c conda-forge conda



## Package Plan ##

  environment location: /home/biocbuild/tmp/RtmpKe1REz/Rbuild2a22634a030f74/basilisk/vignettes/basilisk-vignette-test2

  added / updated specs:
    - python=3.10
    - scipy==1.9.1


The following NEW packages will be INSTALLED:

  libblas            conda-forge/linux-aarch64::libblas-3.9.0-20_linuxaarch64_openblas 
  libcblas           conda-forge/linux-aarch64::libcblas-3.9.0-20_linuxaarch64_openblas 
  libgfortran        conda-forge/linux-aarch64::libgfortran-14.2.0-he9431aa_1 
  libgfortran-ng     conda-forge/linux-aarch64::libgfortran-ng-14.2.0-he9431aa_1 
  libgfortran5       conda-forge/linux-aarch64::libgfortran5-14.2.0-hb6113d0_1 
  liblapack          conda-forge/linux-aarch64::liblapack-3.9.0-20_linuxaarch64_openblas 
  libopenblas        conda-forge/linux-aarch64::libopenblas-0.3.25-pthreads_h5a5ec62_0 
  libstdcxx          conda-forge/linux-aarch64::libstdcxx-14.2.0-h3f4de04_1 
  libstdcxx-ng       conda-forge/linux-aarch64::libstdcxx-ng-14.2.0-hf1166c9_1 
  numpy              conda-forge/linux-aarch64::numpy-1.26.4-py310hcbab775_0 
  python_abi         conda-forge/linux-aarch64::python_abi-3.10-5_cp310 
  scipy              conda-forge/linux-aarch64::scipy-1.9.1-py310hdd6f644_0 



Downloading and Extracting Packages: ...working... done
Preparing transaction: ...working... done
Verifying transaction: ...working... done
Executing transaction: ...working... done

Quitting from lines 303-331 [unnamed-chunk-6] (motivation.Rmd)
Error: processing vignette 'motivation.Rmd' failed with diagnostics:
internet routines cannot be loaded
--- failed re-building ‘motivation.Rmd’

SUMMARY: processing the following file failed:
  ‘motivation.Rmd’

Error: Vignette re-building failed.
Execution halted