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This page was generated on 2023-10-16 11:36:25 -0400 (Mon, 16 Oct 2023).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo1Linux (Ubuntu 22.04.2 LTS)x86_644.3.1 (2023-06-16) -- "Beagle Scouts" 4626
palomino3Windows Server 2022 Datacenterx644.3.1 (2023-06-16 ucrt) -- "Beagle Scouts" 4379
merida1macOS 12.6.4 Montereyx86_644.3.1 (2023-06-16) -- "Beagle Scouts" 4395
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 1425/2230HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
OmnipathR 3.8.2  (landing page)
Denes Turei
Snapshot Date: 2023-10-15 14:00:13 -0400 (Sun, 15 Oct 2023)
git_url: https://git.bioconductor.org/packages/OmnipathR
git_branch: RELEASE_3_17
git_last_commit: b12b9bf
git_last_commit_date: 2023-09-15 08:58:47 -0400 (Fri, 15 Sep 2023)
nebbiolo1Linux (Ubuntu 22.04.2 LTS) / x86_64  OK    OK    OK  UNNEEDED, same version is already published
palomino3Windows Server 2022 Datacenter / x64  OK    OK    OK    OK  UNNEEDED, same version is already published
merida1macOS 12.6.4 Monterey / x86_64  OK    OK    OK    OK  UNNEEDED, same version is already published
kjohnson2macOS 12.6.1 Monterey / arm64see weekly results here

INSTALL results for OmnipathR on palomino3


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: 3.8.2
Command: F:\biocbuild\bbs-3.17-bioc\R\bin\R.exe CMD INSTALL OmnipathR
StartedAt: 2023-10-15 16:30:29 -0400 (Sun, 15 Oct 2023)
EndedAt: 2023-10-15 16:31:02 -0400 (Sun, 15 Oct 2023)
EllapsedTime: 32.9 seconds
RetCode: 0
Status:   OK  

Command output

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###
### Running command:
###
###   F:\biocbuild\bbs-3.17-bioc\R\bin\R.exe CMD INSTALL OmnipathR
###
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* installing to library 'F:/biocbuild/bbs-3.17-bioc/R/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
[2023-10-15 16:30:58] [TRACE]   [OmnipathR] Reading JSON from `C:\Users\biocbuild\AppData\Local\Cache\OmnipathR/cache.json` (encoding: UTF-8).
[2023-10-15 16:30:58] [TRACE]   [OmnipathR] JSON validation successful: TRUE
[2023-10-15 16:30:58] [INFO]    [OmnipathR] Initialized cache: `C:\Users\biocbuild\AppData\Local\Cache\OmnipathR`.
[2023-10-15 16:30:58] [TRACE]   [OmnipathR] Running on a build server, wiping cache.
[2023-10-15 16:30:58] [TRACE]   [OmnipathR] Cache is at `C:\Users\biocbuild\AppData\Local\Cache\OmnipathR`.
[2023-10-15 16:30:58] [TRACE]   [OmnipathR] Contains 1 files.
[2023-10-15 16:30:58] [TRACE]   [OmnipathR] Cache is locked: FALSE.
[2023-10-15 16:30:58] [TRACE]   [OmnipathR] Reading JSON from `C:\Users\biocbuild\AppData\Local\Cache\OmnipathR/cache.json` (encoding: UTF-8).
[2023-10-15 16:30:58] [TRACE]   [OmnipathR] JSON validation successful: TRUE
[2023-10-15 16:30:58] [SUCCESS] [OmnipathR] Removing all cache contents from `C:\Users\biocbuild\AppData\Local\Cache\OmnipathR`.
[2023-10-15 16:30:59] [TRACE]   [OmnipathR] Pandoc version: `2.7.3`.
[2023-10-15 16:30:59] [TRACE]   [OmnipathR] Reading JSON from `F:/biocbuild/bbs-3.17-bioc/R/library/00LOCK-OmnipathR/00new/OmnipathR/db/db_def.json` (encoding: UTF-8).
[2023-10-15 16:30:59] [TRACE]   [OmnipathR] JSON validation successful: TRUE
[2023-10-15 16:30:59] [TRACE]   [OmnipathR] Reading JSON from `F:/biocbuild/bbs-3.17-bioc/R/library/00LOCK-OmnipathR/00new/OmnipathR/internal/magic_bytes.json` (encoding: UTF-8).
[2023-10-15 16:30:59] [TRACE]   [OmnipathR] JSON validation successful: TRUE
[2023-10-15 16:30:59] [TRACE]   [OmnipathR] Reading JSON from `F:/biocbuild/bbs-3.17-bioc/R/library/00LOCK-OmnipathR/00new/OmnipathR/internal/urls.json` (encoding: UTF-8).
[2023-10-15 16:30:59] [TRACE]   [OmnipathR] JSON validation successful: TRUE
[2023-10-15 16:30:59] [TRACE]   [OmnipathR] Reading JSON from `F:/biocbuild/bbs-3.17-bioc/R/library/00LOCK-OmnipathR/00new/OmnipathR/internal/id_types.json` (encoding: UTF-8).
[2023-10-15 16:30:59] [TRACE]   [OmnipathR] JSON validation successful: TRUE
[2023-10-15 16:30:59] [TRACE]   [OmnipathR] Cache locked: FALSE
** testing if installed package can be loaded from final location
[2023-10-15 16:31:00] [TRACE]   [OmnipathR] Reading JSON from `C:\Users\biocbuild\AppData\Local\Cache\OmnipathR/cache.json` (encoding: UTF-8).
[2023-10-15 16:31:00] [TRACE]   [OmnipathR] JSON validation successful: TRUE
[2023-10-15 16:31:00] [INFO]    [OmnipathR] Initialized cache: `C:\Users\biocbuild\AppData\Local\Cache\OmnipathR`.
[2023-10-15 16:31:00] [TRACE]   [OmnipathR] Running on a build server, wiping cache.
[2023-10-15 16:31:00] [TRACE]   [OmnipathR] Cache is at `C:\Users\biocbuild\AppData\Local\Cache\OmnipathR`.
[2023-10-15 16:31:00] [TRACE]   [OmnipathR] Contains 1 files.
[2023-10-15 16:31:00] [TRACE]   [OmnipathR] Cache is locked: FALSE.
[2023-10-15 16:31:00] [TRACE]   [OmnipathR] Reading JSON from `C:\Users\biocbuild\AppData\Local\Cache\OmnipathR/cache.json` (encoding: UTF-8).
[2023-10-15 16:31:00] [TRACE]   [OmnipathR] JSON validation successful: TRUE
[2023-10-15 16:31:00] [SUCCESS] [OmnipathR] Removing all cache contents from `C:\Users\biocbuild\AppData\Local\Cache\OmnipathR`.
[2023-10-15 16:31:01] [TRACE]   [OmnipathR] Pandoc version: `2.7.3`.
[2023-10-15 16:31:01] [TRACE]   [OmnipathR] Reading JSON from `F:/biocbuild/bbs-3.17-bioc/R/library/OmnipathR/db/db_def.json` (encoding: UTF-8).
[2023-10-15 16:31:01] [TRACE]   [OmnipathR] JSON validation successful: TRUE
[2023-10-15 16:31:01] [TRACE]   [OmnipathR] Reading JSON from `F:/biocbuild/bbs-3.17-bioc/R/library/OmnipathR/internal/magic_bytes.json` (encoding: UTF-8).
[2023-10-15 16:31:01] [TRACE]   [OmnipathR] JSON validation successful: TRUE
[2023-10-15 16:31:01] [TRACE]   [OmnipathR] Reading JSON from `F:/biocbuild/bbs-3.17-bioc/R/library/OmnipathR/internal/urls.json` (encoding: UTF-8).
[2023-10-15 16:31:01] [TRACE]   [OmnipathR] JSON validation successful: TRUE
[2023-10-15 16:31:01] [TRACE]   [OmnipathR] Reading JSON from `F:/biocbuild/bbs-3.17-bioc/R/library/OmnipathR/internal/id_types.json` (encoding: UTF-8).
[2023-10-15 16:31:01] [TRACE]   [OmnipathR] JSON validation successful: TRUE
[2023-10-15 16:31:01] [TRACE]   [OmnipathR] Cache locked: FALSE
** testing if installed package keeps a record of temporary installation path
* DONE (OmnipathR)