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This page was generated on 2024-08-21 11:45 -0400 (Wed, 21 Aug 2024).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo2Linux (Ubuntu 22.04.3 LTS)x86_644.4.1 (2024-06-14) -- "Race for Your Life" 4703
palomino8Windows Server 2022 Datacenterx644.4.1 (2024-06-14 ucrt) -- "Race for Your Life" 4440
lconwaymacOS 12.7.1 Montereyx86_644.4.1 (2024-06-14) -- "Race for Your Life" 4472
kjohnson3macOS 13.6.5 Venturaarm644.4.1 (2024-06-14) -- "Race for Your Life" 4421
kunpeng2Linux (openEuler 22.03 LTS-SP1)aarch644.4.1 (2024-06-14) -- "Race for Your Life" 4414
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 1437/2255HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
OmnipathR 3.13.18  (landing page)
Denes Turei
Snapshot Date: 2024-08-20 14:00 -0400 (Tue, 20 Aug 2024)
git_url: https://git.bioconductor.org/packages/OmnipathR
git_branch: devel
git_last_commit: b007e0a
git_last_commit_date: 2024-08-20 06:21:55 -0400 (Tue, 20 Aug 2024)
nebbiolo2Linux (Ubuntu 22.04.3 LTS) / x86_64  OK    ERROR  skipped
palomino8Windows Server 2022 Datacenter / x64  OK    ERROR  skippedskipped
lconwaymacOS 12.7.1 Monterey / x86_64  OK    ERROR  skippedskipped
kjohnson3macOS 13.6.5 Ventura / arm64  OK    ERROR  skippedskipped
kunpeng2Linux (openEuler 22.03 LTS-SP1) / aarch64  OK    ERROR  skipped

INSTALL results for OmnipathR on kjohnson3

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.

raw results


Summary

Package: OmnipathR
Version: 3.13.18
Command: /Library/Frameworks/R.framework/Resources/bin/R CMD INSTALL OmnipathR
StartedAt: 2024-08-20 15:23:47 -0400 (Tue, 20 Aug 2024)
EndedAt: 2024-08-20 15:23:53 -0400 (Tue, 20 Aug 2024)
EllapsedTime: 6.2 seconds
RetCode: 0
Status:   OK  

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   /Library/Frameworks/R.framework/Resources/bin/R CMD INSTALL OmnipathR
###
##############################################################################
##############################################################################


* installing to library ‘/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/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
[2024-08-20 15:23:51] [TRACE]   [OmnipathR] Reading JSON from `/Users/biocbuild/Library/Caches/OmnipathR/cache.json` (encoding: UTF-8).
[2024-08-20 15:23:51] [TRACE]   [OmnipathR] JSON validation successful: TRUE
[2024-08-20 15:23:51] [INFO]    [OmnipathR] Initialized cache: `/Users/biocbuild/Library/Caches/OmnipathR`.
[2024-08-20 15:23:51] [TRACE]   [OmnipathR] Running on a build server, wiping cache.
[2024-08-20 15:23:51] [TRACE]   [OmnipathR] Cache is at `/Users/biocbuild/Library/Caches/OmnipathR`.
[2024-08-20 15:23:52] [TRACE]   [OmnipathR] Contains 1 files.
[2024-08-20 15:23:52] [TRACE]   [OmnipathR] Cache is locked: FALSE.
[2024-08-20 15:23:52] [TRACE]   [OmnipathR] Reading JSON from `/Users/biocbuild/Library/Caches/OmnipathR/cache.json` (encoding: UTF-8).
[2024-08-20 15:23:52] [TRACE]   [OmnipathR] JSON validation successful: TRUE
[2024-08-20 15:23:52] [SUCCESS] [OmnipathR] Removing all cache contents from `/Users/biocbuild/Library/Caches/OmnipathR`.
[2024-08-20 15:23:52] [TRACE]   [OmnipathR] Pandoc version: `3.1.12.3`.
[2024-08-20 15:23:52] [TRACE]   [OmnipathR] Reading JSON from `/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/00LOCK-OmnipathR/00new/OmnipathR/db/db_def.json` (encoding: UTF-8).
[2024-08-20 15:23:52] [TRACE]   [OmnipathR] JSON validation successful: TRUE
[2024-08-20 15:23:52] [TRACE]   [OmnipathR] Reading JSON from `/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/00LOCK-OmnipathR/00new/OmnipathR/internal/magic_bytes.json` (encoding: UTF-8).
[2024-08-20 15:23:52] [TRACE]   [OmnipathR] JSON validation successful: TRUE
[2024-08-20 15:23:52] [TRACE]   [OmnipathR] Reading JSON from `/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/00LOCK-OmnipathR/00new/OmnipathR/internal/urls.json` (encoding: UTF-8).
[2024-08-20 15:23:52] [TRACE]   [OmnipathR] JSON validation successful: TRUE
[2024-08-20 15:23:52] [TRACE]   [OmnipathR] Reading JSON from `/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/00LOCK-OmnipathR/00new/OmnipathR/internal/id_types.json` (encoding: UTF-8).
[2024-08-20 15:23:52] [TRACE]   [OmnipathR] JSON validation successful: TRUE
[2024-08-20 15:23:52] [TRACE]   [OmnipathR] Cache locked: FALSE
** testing if installed package can be loaded from final location
[2024-08-20 15:23:52] [TRACE]   [OmnipathR] Reading JSON from `/Users/biocbuild/Library/Caches/OmnipathR/cache.json` (encoding: UTF-8).
[2024-08-20 15:23:52] [TRACE]   [OmnipathR] JSON validation successful: TRUE
[2024-08-20 15:23:53] [INFO]    [OmnipathR] Initialized cache: `/Users/biocbuild/Library/Caches/OmnipathR`.
[2024-08-20 15:23:53] [TRACE]   [OmnipathR] Running on a build server, wiping cache.
[2024-08-20 15:23:53] [TRACE]   [OmnipathR] Cache is at `/Users/biocbuild/Library/Caches/OmnipathR`.
[2024-08-20 15:23:53] [TRACE]   [OmnipathR] Contains 1 files.
[2024-08-20 15:23:53] [TRACE]   [OmnipathR] Cache is locked: FALSE.
[2024-08-20 15:23:53] [TRACE]   [OmnipathR] Reading JSON from `/Users/biocbuild/Library/Caches/OmnipathR/cache.json` (encoding: UTF-8).
[2024-08-20 15:23:53] [TRACE]   [OmnipathR] JSON validation successful: TRUE
[2024-08-20 15:23:53] [SUCCESS] [OmnipathR] Removing all cache contents from `/Users/biocbuild/Library/Caches/OmnipathR`.
[2024-08-20 15:23:53] [TRACE]   [OmnipathR] Pandoc version: `3.1.12.3`.
[2024-08-20 15:23:53] [TRACE]   [OmnipathR] Reading JSON from `/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/OmnipathR/db/db_def.json` (encoding: UTF-8).
[2024-08-20 15:23:53] [TRACE]   [OmnipathR] JSON validation successful: TRUE
[2024-08-20 15:23:53] [TRACE]   [OmnipathR] Reading JSON from `/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/OmnipathR/internal/magic_bytes.json` (encoding: UTF-8).
[2024-08-20 15:23:53] [TRACE]   [OmnipathR] JSON validation successful: TRUE
[2024-08-20 15:23:53] [TRACE]   [OmnipathR] Reading JSON from `/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/OmnipathR/internal/urls.json` (encoding: UTF-8).
[2024-08-20 15:23:53] [TRACE]   [OmnipathR] JSON validation successful: TRUE
[2024-08-20 15:23:53] [TRACE]   [OmnipathR] Reading JSON from `/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/OmnipathR/internal/id_types.json` (encoding: UTF-8).
[2024-08-20 15:23:53] [TRACE]   [OmnipathR] JSON validation successful: TRUE
[2024-08-20 15:23:53] [TRACE]   [OmnipathR] Cache locked: FALSE
** testing if installed package keeps a record of temporary installation path
* DONE (OmnipathR)