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This page was generated on 2024-12-23 12:05 -0500 (Mon, 23 Dec 2024).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo2Linux (Ubuntu 24.04.1 LTS)x86_644.4.2 (2024-10-31) -- "Pile of Leaves" 4744
palomino8Windows Server 2022 Datacenterx644.4.2 (2024-10-31 ucrt) -- "Pile of Leaves" 4487
merida1macOS 12.7.5 Montereyx86_644.4.2 (2024-10-31) -- "Pile of Leaves" 4515
kjohnson1macOS 13.6.6 Venturaarm644.4.2 (2024-10-31) -- "Pile of Leaves" 4467
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 1456/2289HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
OmnipathR 3.14.0  (landing page)
Denes Turei
Snapshot Date: 2024-12-19 13:00 -0500 (Thu, 19 Dec 2024)
git_url: https://git.bioconductor.org/packages/OmnipathR
git_branch: RELEASE_3_20
git_last_commit: 3c7d7f1
git_last_commit_date: 2024-10-29 10:41:00 -0500 (Tue, 29 Oct 2024)
nebbiolo2Linux (Ubuntu 24.04.1 LTS) / x86_64  OK    OK    OK  UNNEEDED, same version is already published
palomino8Windows Server 2022 Datacenter / x64  OK    OK    OK    OK  UNNEEDED, same version is already published
merida1macOS 12.7.5 Monterey / x86_64  OK    ERROR  skippedskipped
kjohnson1macOS 13.6.6 Ventura / arm64  OK    ERROR  skippedskipped


BUILD BIN results for OmnipathR on palomino8

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: 3.14.0
Command: rm -rf OmnipathR.buildbin-libdir && mkdir OmnipathR.buildbin-libdir && F:\biocbuild\bbs-3.20-bioc\R\bin\R.exe CMD INSTALL --build --library=OmnipathR.buildbin-libdir OmnipathR_3.14.0.tar.gz
StartedAt: 2024-12-20 08:44:05 -0500 (Fri, 20 Dec 2024)
EndedAt: 2024-12-20 08:46:32 -0500 (Fri, 20 Dec 2024)
EllapsedTime: 146.5 seconds
RetCode: 0
Status:   OK  
PackageFile: OmnipathR_3.14.0.zip
PackageFileSize: 3.228 MiB

Command output

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###
### Running command:
###
###   rm -rf OmnipathR.buildbin-libdir && mkdir OmnipathR.buildbin-libdir && F:\biocbuild\bbs-3.20-bioc\R\bin\R.exe CMD INSTALL --build --library=OmnipathR.buildbin-libdir OmnipathR_3.14.0.tar.gz
###
##############################################################################
##############################################################################


* installing *source* package 'OmnipathR' ...
** using staged installation
** R
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded from temporary location
[2024-12-20 08:46:22] [TRACE]   [OmnipathR] Reading JSON from `C:\Users\biocbuild\AppData\Local\Cache\OmnipathR/cache.json` (encoding: UTF-8).
[2024-12-20 08:46:22] [TRACE]   [OmnipathR] JSON validation successful: TRUE
[2024-12-20 08:46:22] [INFO]    [OmnipathR] Initialized cache: `C:\Users\biocbuild\AppData\Local\Cache\OmnipathR`.
[2024-12-20 08:46:22] [TRACE]   [OmnipathR] Running on a build server, wiping cache.
[2024-12-20 08:46:22] [TRACE]   [OmnipathR] Cache is at `C:\Users\biocbuild\AppData\Local\Cache\OmnipathR`.
[2024-12-20 08:46:22] [TRACE]   [OmnipathR] Contains 1 files.
[2024-12-20 08:46:22] [TRACE]   [OmnipathR] Cache is locked: FALSE.
[2024-12-20 08:46:22] [TRACE]   [OmnipathR] Reading JSON from `C:\Users\biocbuild\AppData\Local\Cache\OmnipathR/cache.json` (encoding: UTF-8).
[2024-12-20 08:46:22] [TRACE]   [OmnipathR] JSON validation successful: TRUE
[2024-12-20 08:46:22] [SUCCESS] [OmnipathR] Removing all cache contents from `C:\Users\biocbuild\AppData\Local\Cache\OmnipathR`.
[2024-12-20 08:46:22] [TRACE]   [OmnipathR] Pandoc version: `2.7.3`.
[2024-12-20 08:46:22] [TRACE]   [OmnipathR] Reading JSON from `F:/biocbuild/bbs-3.20-bioc/meat/OmnipathR.buildbin-libdir/00LOCK-OmnipathR/00new/OmnipathR/db/db_def.json` (encoding: UTF-8).
[2024-12-20 08:46:22] [TRACE]   [OmnipathR] JSON validation successful: TRUE
[2024-12-20 08:46:22] [TRACE]   [OmnipathR] Reading JSON from `F:/biocbuild/bbs-3.20-bioc/meat/OmnipathR.buildbin-libdir/00LOCK-OmnipathR/00new/OmnipathR/internal/magic_bytes.json` (encoding: UTF-8).
[2024-12-20 08:46:22] [TRACE]   [OmnipathR] JSON validation successful: TRUE
[2024-12-20 08:46:22] [TRACE]   [OmnipathR] Reading JSON from `F:/biocbuild/bbs-3.20-bioc/meat/OmnipathR.buildbin-libdir/00LOCK-OmnipathR/00new/OmnipathR/internal/urls.json` (encoding: UTF-8).
[2024-12-20 08:46:22] [TRACE]   [OmnipathR] JSON validation successful: TRUE
[2024-12-20 08:46:22] [TRACE]   [OmnipathR] Reading JSON from `F:/biocbuild/bbs-3.20-bioc/meat/OmnipathR.buildbin-libdir/00LOCK-OmnipathR/00new/OmnipathR/internal/id_types.json` (encoding: UTF-8).
[2024-12-20 08:46:22] [TRACE]   [OmnipathR] JSON validation successful: TRUE
[2024-12-20 08:46:22] [TRACE]   [OmnipathR] Cache locked: FALSE
** testing if installed package can be loaded from final location
[2024-12-20 08:46:24] [TRACE]   [OmnipathR] Reading JSON from `C:\Users\biocbuild\AppData\Local\Cache\OmnipathR/cache.json` (encoding: UTF-8).
[2024-12-20 08:46:24] [TRACE]   [OmnipathR] JSON validation successful: TRUE
[2024-12-20 08:46:24] [INFO]    [OmnipathR] Initialized cache: `C:\Users\biocbuild\AppData\Local\Cache\OmnipathR`.
[2024-12-20 08:46:24] [TRACE]   [OmnipathR] Running on a build server, wiping cache.
[2024-12-20 08:46:24] [TRACE]   [OmnipathR] Cache is at `C:\Users\biocbuild\AppData\Local\Cache\OmnipathR`.
[2024-12-20 08:46:24] [TRACE]   [OmnipathR] Contains 1 files.
[2024-12-20 08:46:25] [TRACE]   [OmnipathR] Cache is locked: FALSE.
[2024-12-20 08:46:25] [TRACE]   [OmnipathR] Reading JSON from `C:\Users\biocbuild\AppData\Local\Cache\OmnipathR/cache.json` (encoding: UTF-8).
[2024-12-20 08:46:25] [TRACE]   [OmnipathR] JSON validation successful: TRUE
[2024-12-20 08:46:25] [SUCCESS] [OmnipathR] Removing all cache contents from `C:\Users\biocbuild\AppData\Local\Cache\OmnipathR`.
[2024-12-20 08:46:25] [TRACE]   [OmnipathR] Pandoc version: `2.7.3`.
[2024-12-20 08:46:25] [TRACE]   [OmnipathR] Reading JSON from `F:/biocbuild/bbs-3.20-bioc/meat/OmnipathR.buildbin-libdir/OmnipathR/db/db_def.json` (encoding: UTF-8).
[2024-12-20 08:46:25] [TRACE]   [OmnipathR] JSON validation successful: TRUE
[2024-12-20 08:46:25] [TRACE]   [OmnipathR] Reading JSON from `F:/biocbuild/bbs-3.20-bioc/meat/OmnipathR.buildbin-libdir/OmnipathR/internal/magic_bytes.json` (encoding: UTF-8).
[2024-12-20 08:46:25] [TRACE]   [OmnipathR] JSON validation successful: TRUE
[2024-12-20 08:46:25] [TRACE]   [OmnipathR] Reading JSON from `F:/biocbuild/bbs-3.20-bioc/meat/OmnipathR.buildbin-libdir/OmnipathR/internal/urls.json` (encoding: UTF-8).
[2024-12-20 08:46:25] [TRACE]   [OmnipathR] JSON validation successful: TRUE
[2024-12-20 08:46:25] [TRACE]   [OmnipathR] Reading JSON from `F:/biocbuild/bbs-3.20-bioc/meat/OmnipathR.buildbin-libdir/OmnipathR/internal/id_types.json` (encoding: UTF-8).
[2024-12-20 08:46:25] [TRACE]   [OmnipathR] JSON validation successful: TRUE
[2024-12-20 08:46:25] [TRACE]   [OmnipathR] Cache locked: FALSE
** testing if installed package keeps a record of temporary installation path
* MD5 sums
packaged installation of 'OmnipathR' as OmnipathR_3.14.0.zip
* DONE (OmnipathR)