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This page was generated on 2023-11-02 11:41:01 -0400 (Thu, 02 Nov 2023).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo2Linux (Ubuntu 22.04.2 LTS)x86_644.3.1 (2023-06-16) -- "Beagle Scouts" 4729
palomino4Windows Server 2022 Datacenterx644.3.1 (2023-06-16 ucrt) -- "Beagle Scouts" 4463
lconwaymacOS 12.6.5 Montereyx86_644.3.1 Patched (2023-06-17 r84564) -- "Beagle Scouts" 4478
kunpeng2Linux (openEuler 22.03 LTS-SP1)aarch644.3.1 (2023-06-16) -- "Beagle Scouts" 4464
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 1452/2266HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
OmnipathR 3.10.1  (landing page)
Denes Turei
Snapshot Date: 2023-11-01 14:05:06 -0400 (Wed, 01 Nov 2023)
git_url: https://git.bioconductor.org/packages/OmnipathR
git_branch: RELEASE_3_18
git_last_commit: b1b2bab
git_last_commit_date: 2023-10-25 11:47:10 -0400 (Wed, 25 Oct 2023)
nebbiolo2Linux (Ubuntu 22.04.2 LTS) / x86_64  OK    OK    OK  UNNEEDED, same version is already published
palomino4Windows Server 2022 Datacenter / x64  OK    OK    OK    OK  UNNEEDED, same version is already published
lconwaymacOS 12.6.5 Monterey / x86_64  OK    OK    OK    OK  UNNEEDED, same version is already published
kjohnson1macOS 13.6.1 Ventura / arm64see weekly results here
kunpeng2Linux (openEuler 22.03 LTS-SP1) / aarch64  OK    ERROR  skipped

INSTALL results for OmnipathR on kunpeng2


To the developers/maintainers of the OmnipathR package:
- Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/OmnipathR.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: OmnipathR
Version: 3.10.1
Command: /home/biocbuild/R/R-4.3.1/bin/R CMD INSTALL OmnipathR
StartedAt: 2023-11-01 20:37:52 -0000 (Wed, 01 Nov 2023)
EndedAt: 2023-11-01 20:38:10 -0000 (Wed, 01 Nov 2023)
EllapsedTime: 18.4 seconds
RetCode: 0
Status:   OK  

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   /home/biocbuild/R/R-4.3.1/bin/R CMD INSTALL OmnipathR
###
##############################################################################
##############################################################################


* installing to library ‘/home/biocbuild/R/R-4.3.1/site-library’
* installing *source* package ‘OmnipathR’ ...
** using staged installation
** R
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
*** copying figures
** building package indices
** installing vignettes
** testing if installed package can be loaded from temporary location
[2023-11-01 20:38:07] [TRACE]   [OmnipathR] Reading JSON from `/home/biocbuild/.cache/OmnipathR/cache.json` (encoding: UTF-8).
[2023-11-01 20:38:07] [TRACE]   [OmnipathR] JSON validation successful: TRUE
[2023-11-01 20:38:07] [INFO]    [OmnipathR] Initialized cache: `/home/biocbuild/.cache/OmnipathR`.
[2023-11-01 20:38:07] [TRACE]   [OmnipathR] Running on a build server, wiping cache.
[2023-11-01 20:38:07] [TRACE]   [OmnipathR] Cache is at `/home/biocbuild/.cache/OmnipathR`.
[2023-11-01 20:38:07] [TRACE]   [OmnipathR] Contains 8 files.
[2023-11-01 20:38:07] [TRACE]   [OmnipathR] Cache is locked: FALSE.
[2023-11-01 20:38:07] [TRACE]   [OmnipathR] Reading JSON from `/home/biocbuild/.cache/OmnipathR/cache.json` (encoding: UTF-8).
[2023-11-01 20:38:07] [TRACE]   [OmnipathR] JSON validation successful: TRUE
[2023-11-01 20:38:07] [SUCCESS] [OmnipathR] Removing all cache contents from `/home/biocbuild/.cache/OmnipathR`.
[2023-11-01 20:38:07] [TRACE]   [OmnipathR] Pandoc version: `2.12`.
[2023-11-01 20:38:07] [TRACE]   [OmnipathR] Reading JSON from `/home/biocbuild/R/R-4.3.1/site-library/00LOCK-OmnipathR/00new/OmnipathR/db/db_def.json` (encoding: UTF-8).
[2023-11-01 20:38:07] [TRACE]   [OmnipathR] JSON validation successful: TRUE
[2023-11-01 20:38:07] [TRACE]   [OmnipathR] Reading JSON from `/home/biocbuild/R/R-4.3.1/site-library/00LOCK-OmnipathR/00new/OmnipathR/internal/magic_bytes.json` (encoding: UTF-8).
[2023-11-01 20:38:07] [TRACE]   [OmnipathR] JSON validation successful: TRUE
[2023-11-01 20:38:07] [TRACE]   [OmnipathR] Reading JSON from `/home/biocbuild/R/R-4.3.1/site-library/00LOCK-OmnipathR/00new/OmnipathR/internal/urls.json` (encoding: UTF-8).
[2023-11-01 20:38:07] [TRACE]   [OmnipathR] JSON validation successful: TRUE
[2023-11-01 20:38:07] [TRACE]   [OmnipathR] Reading JSON from `/home/biocbuild/R/R-4.3.1/site-library/00LOCK-OmnipathR/00new/OmnipathR/internal/id_types.json` (encoding: UTF-8).
[2023-11-01 20:38:07] [TRACE]   [OmnipathR] JSON validation successful: TRUE
[2023-11-01 20:38:07] [TRACE]   [OmnipathR] Cache locked: FALSE
** testing if installed package can be loaded from final location
[2023-11-01 20:38:09] [TRACE]   [OmnipathR] Reading JSON from `/home/biocbuild/.cache/OmnipathR/cache.json` (encoding: UTF-8).
[2023-11-01 20:38:09] [TRACE]   [OmnipathR] JSON validation successful: TRUE
[2023-11-01 20:38:09] [INFO]    [OmnipathR] Initialized cache: `/home/biocbuild/.cache/OmnipathR`.
[2023-11-01 20:38:09] [TRACE]   [OmnipathR] Running on a build server, wiping cache.
[2023-11-01 20:38:09] [TRACE]   [OmnipathR] Cache is at `/home/biocbuild/.cache/OmnipathR`.
[2023-11-01 20:38:09] [TRACE]   [OmnipathR] Contains 1 files.
[2023-11-01 20:38:09] [TRACE]   [OmnipathR] Cache is locked: FALSE.
[2023-11-01 20:38:09] [TRACE]   [OmnipathR] Reading JSON from `/home/biocbuild/.cache/OmnipathR/cache.json` (encoding: UTF-8).
[2023-11-01 20:38:09] [TRACE]   [OmnipathR] JSON validation successful: TRUE
[2023-11-01 20:38:09] [SUCCESS] [OmnipathR] Removing all cache contents from `/home/biocbuild/.cache/OmnipathR`.
[2023-11-01 20:38:09] [TRACE]   [OmnipathR] Pandoc version: `2.12`.
[2023-11-01 20:38:09] [TRACE]   [OmnipathR] Reading JSON from `/home/biocbuild/R/R-4.3.1/site-library/OmnipathR/db/db_def.json` (encoding: UTF-8).
[2023-11-01 20:38:09] [TRACE]   [OmnipathR] JSON validation successful: TRUE
[2023-11-01 20:38:09] [TRACE]   [OmnipathR] Reading JSON from `/home/biocbuild/R/R-4.3.1/site-library/OmnipathR/internal/magic_bytes.json` (encoding: UTF-8).
[2023-11-01 20:38:09] [TRACE]   [OmnipathR] JSON validation successful: TRUE
[2023-11-01 20:38:09] [TRACE]   [OmnipathR] Reading JSON from `/home/biocbuild/R/R-4.3.1/site-library/OmnipathR/internal/urls.json` (encoding: UTF-8).
[2023-11-01 20:38:09] [TRACE]   [OmnipathR] JSON validation successful: TRUE
[2023-11-01 20:38:09] [TRACE]   [OmnipathR] Reading JSON from `/home/biocbuild/R/R-4.3.1/site-library/OmnipathR/internal/id_types.json` (encoding: UTF-8).
[2023-11-01 20:38:09] [TRACE]   [OmnipathR] JSON validation successful: TRUE
[2023-11-01 20:38:09] [TRACE]   [OmnipathR] Cache locked: FALSE
** testing if installed package keeps a record of temporary installation path
* DONE (OmnipathR)