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This page was generated on 2024-04-18 11:32:15 -0400 (Thu, 18 Apr 2024).

HostnameOSArch (*)R versionInstalled pkgs
kjohnson1macOS 13.6.1 Venturaarm644.3.3 (2024-02-29) -- "Angel Food Cake" 4388
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Package 1452/2266HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
OmnipathR 3.10.1  (landing page)
Denes Turei
Snapshot Date: 2024-04-16 09:00:03 -0400 (Tue, 16 Apr 2024)
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)
kjohnson1macOS 13.6.1 Ventura / arm64  OK    ERROR  skippedskipped

INSTALL results for OmnipathR on kjohnson1


To the developers/maintainers of the OmnipathR package:
- 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: 3.10.1
Command: /Library/Frameworks/R.framework/Resources/bin/R CMD INSTALL OmnipathR
StartedAt: 2024-04-16 11:43:03 -0400 (Tue, 16 Apr 2024)
EndedAt: 2024-04-16 11:43:19 -0400 (Tue, 16 Apr 2024)
EllapsedTime: 16.0 seconds
RetCode: 0
Status:   OK  

Command output

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


* installing to library ‘/Library/Frameworks/R.framework/Versions/4.3-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
[2024-04-16 11:43:15] [TRACE]   [OmnipathR] Reading JSON from `/Users/biocbuild/Library/Caches/OmnipathR/cache.json` (encoding: UTF-8).
[2024-04-16 11:43:15] [TRACE]   [OmnipathR] JSON validation successful: TRUE
[2024-04-16 11:43:15] [INFO]    [OmnipathR] Initialized cache: `/Users/biocbuild/Library/Caches/OmnipathR`.
[2024-04-16 11:43:15] [TRACE]   [OmnipathR] Running on a build server, wiping cache.
[2024-04-16 11:43:15] [TRACE]   [OmnipathR] Cache is at `/Users/biocbuild/Library/Caches/OmnipathR`.
[2024-04-16 11:43:15] [TRACE]   [OmnipathR] Contains 1 files.
[2024-04-16 11:43:15] [TRACE]   [OmnipathR] Cache is locked: FALSE.
[2024-04-16 11:43:15] [TRACE]   [OmnipathR] Reading JSON from `/Users/biocbuild/Library/Caches/OmnipathR/cache.json` (encoding: UTF-8).
[2024-04-16 11:43:16] [TRACE]   [OmnipathR] JSON validation successful: TRUE
[2024-04-16 11:43:16] [SUCCESS] [OmnipathR] Removing all cache contents from `/Users/biocbuild/Library/Caches/OmnipathR`.
[2024-04-16 11:43:16] [TRACE]   [OmnipathR] Pandoc version: `3.1.2`.
[2024-04-16 11:43:16] [TRACE]   [OmnipathR] Reading JSON from `/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/library/00LOCK-OmnipathR/00new/OmnipathR/db/db_def.json` (encoding: UTF-8).
[2024-04-16 11:43:16] [TRACE]   [OmnipathR] JSON validation successful: TRUE
[2024-04-16 11:43:16] [TRACE]   [OmnipathR] Reading JSON from `/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/library/00LOCK-OmnipathR/00new/OmnipathR/internal/magic_bytes.json` (encoding: UTF-8).
[2024-04-16 11:43:16] [TRACE]   [OmnipathR] JSON validation successful: TRUE
[2024-04-16 11:43:16] [TRACE]   [OmnipathR] Reading JSON from `/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/library/00LOCK-OmnipathR/00new/OmnipathR/internal/urls.json` (encoding: UTF-8).
[2024-04-16 11:43:16] [TRACE]   [OmnipathR] JSON validation successful: TRUE
[2024-04-16 11:43:16] [TRACE]   [OmnipathR] Reading JSON from `/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/library/00LOCK-OmnipathR/00new/OmnipathR/internal/id_types.json` (encoding: UTF-8).
[2024-04-16 11:43:16] [TRACE]   [OmnipathR] JSON validation successful: TRUE
[2024-04-16 11:43:16] [TRACE]   [OmnipathR] Cache locked: FALSE
** testing if installed package can be loaded from final location
[2024-04-16 11:43:18] [TRACE]   [OmnipathR] Reading JSON from `/Users/biocbuild/Library/Caches/OmnipathR/cache.json` (encoding: UTF-8).
[2024-04-16 11:43:18] [TRACE]   [OmnipathR] JSON validation successful: TRUE
[2024-04-16 11:43:18] [INFO]    [OmnipathR] Initialized cache: `/Users/biocbuild/Library/Caches/OmnipathR`.
[2024-04-16 11:43:18] [TRACE]   [OmnipathR] Running on a build server, wiping cache.
[2024-04-16 11:43:18] [TRACE]   [OmnipathR] Cache is at `/Users/biocbuild/Library/Caches/OmnipathR`.
[2024-04-16 11:43:18] [TRACE]   [OmnipathR] Contains 1 files.
[2024-04-16 11:43:18] [TRACE]   [OmnipathR] Cache is locked: FALSE.
[2024-04-16 11:43:18] [TRACE]   [OmnipathR] Reading JSON from `/Users/biocbuild/Library/Caches/OmnipathR/cache.json` (encoding: UTF-8).
[2024-04-16 11:43:18] [TRACE]   [OmnipathR] JSON validation successful: TRUE
[2024-04-16 11:43:18] [SUCCESS] [OmnipathR] Removing all cache contents from `/Users/biocbuild/Library/Caches/OmnipathR`.
[2024-04-16 11:43:18] [TRACE]   [OmnipathR] Pandoc version: `3.1.2`.
[2024-04-16 11:43:18] [TRACE]   [OmnipathR] Reading JSON from `/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/library/OmnipathR/db/db_def.json` (encoding: UTF-8).
[2024-04-16 11:43:18] [TRACE]   [OmnipathR] JSON validation successful: TRUE
[2024-04-16 11:43:18] [TRACE]   [OmnipathR] Reading JSON from `/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/library/OmnipathR/internal/magic_bytes.json` (encoding: UTF-8).
[2024-04-16 11:43:18] [TRACE]   [OmnipathR] JSON validation successful: TRUE
[2024-04-16 11:43:18] [TRACE]   [OmnipathR] Reading JSON from `/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/library/OmnipathR/internal/urls.json` (encoding: UTF-8).
[2024-04-16 11:43:18] [TRACE]   [OmnipathR] JSON validation successful: TRUE
[2024-04-16 11:43:18] [TRACE]   [OmnipathR] Reading JSON from `/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/library/OmnipathR/internal/id_types.json` (encoding: UTF-8).
[2024-04-16 11:43:18] [TRACE]   [OmnipathR] JSON validation successful: TRUE
[2024-04-16 11:43:18] [TRACE]   [OmnipathR] Cache locked: FALSE
** testing if installed package keeps a record of temporary installation path
* DONE (OmnipathR)