Back to Multiple platform build/check report for BioC 3.20:   simplified   long
ABCDEF[G]HIJKLMNOPQRSTUVWXYZ

This page was generated on 2024-07-16 11:40 -0400 (Tue, 16 Jul 2024).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo2Linux (Ubuntu 22.04.3 LTS)x86_644.4.1 (2024-06-14) -- "Race for Your Life" 4677
palomino6Windows Server 2022 Datacenterx644.4.1 (2024-06-14 ucrt) -- "Race for Your Life" 4416
lconwaymacOS 12.7.1 Montereyx86_644.4.1 (2024-06-14) -- "Race for Your Life" 4444
kjohnson3macOS 13.6.5 Venturaarm644.4.1 (2024-06-14) -- "Race for Your Life" 4393
palomino8Windows Server 2022 Datacenterx644.4.1 (2024-06-14 ucrt) -- "Race for Your Life" 4373
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 849/2243HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
gINTomics 1.1.0  (landing page)
Angelo Velle
Snapshot Date: 2024-07-15 14:00 -0400 (Mon, 15 Jul 2024)
git_url: https://git.bioconductor.org/packages/gINTomics
git_branch: devel
git_last_commit: c1c358f
git_last_commit_date: 2024-04-30 11:56:24 -0400 (Tue, 30 Apr 2024)
nebbiolo2Linux (Ubuntu 22.04.3 LTS) / x86_64  OK    OK    OK  NO, package depends on 'OmnipathR' which is not available
palomino6Windows Server 2022 Datacenter / x64  OK    OK    OK    OK  
lconwaymacOS 12.7.1 Monterey / x86_64  OK    OK    OK    OK  NO, package depends on 'OmnipathR' which is not available
kjohnson3macOS 13.6.5 Ventura / arm64  OK    OK    OK    OK  NO, package depends on 'OmnipathR' which is not available
palomino8Windows Server 2022 Datacenter / x64  OK    OK    OK    OK  


BUILD BIN results for gINTomics on palomino6

To the developers/maintainers of the gINTomics package:
- Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/gINTomics.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: gINTomics
Version: 1.1.0
Command: rm -rf gINTomics.buildbin-libdir && mkdir gINTomics.buildbin-libdir && C:\Users\biocbuild\bbs-3.20-bioc\R\bin\R.exe CMD INSTALL --build --library=gINTomics.buildbin-libdir gINTomics_1.1.0.tar.gz
StartedAt: 2024-07-16 06:15:46 -0400 (Tue, 16 Jul 2024)
EndedAt: 2024-07-16 06:17:30 -0400 (Tue, 16 Jul 2024)
EllapsedTime: 104.1 seconds
RetCode: 0
Status:   OK  
PackageFile: gINTomics_1.1.0.zip
PackageFileSize: 3.812 MiB

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   rm -rf gINTomics.buildbin-libdir && mkdir gINTomics.buildbin-libdir && C:\Users\biocbuild\bbs-3.20-bioc\R\bin\R.exe CMD INSTALL --build --library=gINTomics.buildbin-libdir gINTomics_1.1.0.tar.gz
###
##############################################################################
##############################################################################


* installing *source* package 'gINTomics' ...
** using staged installation
** R
[2024-07-16 06:16:04] [TRACE]   [OmnipathR] Reading JSON from `C:\Users\biocbuild\AppData\Local\Cache\OmnipathR/cache.json` (encoding: UTF-8).
[2024-07-16 06:16:04] [TRACE]   [OmnipathR] JSON validation successful: TRUE
[2024-07-16 06:16:04] [INFO]    [OmnipathR] Initialized cache: `C:\Users\biocbuild\AppData\Local\Cache\OmnipathR`.
[2024-07-16 06:16:04] [TRACE]   [OmnipathR] Running on a build server, wiping cache.
[2024-07-16 06:16:04] [TRACE]   [OmnipathR] Cache is at `C:\Users\biocbuild\AppData\Local\Cache\OmnipathR`.
[2024-07-16 06:16:04] [TRACE]   [OmnipathR] Contains 6 files.
[2024-07-16 06:16:04] [TRACE]   [OmnipathR] Cache is locked: FALSE.
[2024-07-16 06:16:04] [TRACE]   [OmnipathR] Reading JSON from `C:\Users\biocbuild\AppData\Local\Cache\OmnipathR/cache.json` (encoding: UTF-8).
[2024-07-16 06:16:04] [TRACE]   [OmnipathR] JSON validation successful: TRUE
[2024-07-16 06:16:04] [SUCCESS] [OmnipathR] Removing all cache contents from `C:\Users\biocbuild\AppData\Local\Cache\OmnipathR`.
[2024-07-16 06:16:04] [TRACE]   [OmnipathR] Pandoc version: `2.7.3`.
[2024-07-16 06:16:04] [TRACE]   [OmnipathR] Reading JSON from `C:/Users/biocbuild/bbs-3.20-bioc/R/library/OmnipathR/db/db_def.json` (encoding: UTF-8).
[2024-07-16 06:16:04] [TRACE]   [OmnipathR] JSON validation successful: TRUE
[2024-07-16 06:16:04] [TRACE]   [OmnipathR] Reading JSON from `C:/Users/biocbuild/bbs-3.20-bioc/R/library/OmnipathR/internal/magic_bytes.json` (encoding: UTF-8).
[2024-07-16 06:16:04] [TRACE]   [OmnipathR] JSON validation successful: TRUE
[2024-07-16 06:16:04] [TRACE]   [OmnipathR] Reading JSON from `C:/Users/biocbuild/bbs-3.20-bioc/R/library/OmnipathR/internal/urls.json` (encoding: UTF-8).
[2024-07-16 06:16:04] [TRACE]   [OmnipathR] JSON validation successful: TRUE
[2024-07-16 06:16:04] [TRACE]   [OmnipathR] Reading JSON from `C:/Users/biocbuild/bbs-3.20-bioc/R/library/OmnipathR/internal/id_types.json` (encoding: UTF-8).
[2024-07-16 06:16:04] [TRACE]   [OmnipathR] JSON validation successful: TRUE
[2024-07-16 06:16:04] [TRACE]   [OmnipathR] Cache locked: FALSE



** data
** inst
** byte-compile and prepare package for lazy loading
[2024-07-16 06:16:37] [TRACE]   [OmnipathR] Reading JSON from `C:\Users\biocbuild\AppData\Local\Cache\OmnipathR/cache.json` (encoding: UTF-8).
[2024-07-16 06:16:37] [TRACE]   [OmnipathR] JSON validation successful: TRUE
[2024-07-16 06:16:37] [INFO]    [OmnipathR] Initialized cache: `C:\Users\biocbuild\AppData\Local\Cache\OmnipathR`.
[2024-07-16 06:16:37] [TRACE]   [OmnipathR] Running on a build server, wiping cache.
[2024-07-16 06:16:37] [TRACE]   [OmnipathR] Cache is at `C:\Users\biocbuild\AppData\Local\Cache\OmnipathR`.
[2024-07-16 06:16:37] [TRACE]   [OmnipathR] Contains 1 files.
[2024-07-16 06:16:37] [TRACE]   [OmnipathR] Cache is locked: FALSE.
[2024-07-16 06:16:38] [TRACE]   [OmnipathR] Reading JSON from `C:\Users\biocbuild\AppData\Local\Cache\OmnipathR/cache.json` (encoding: UTF-8).
[2024-07-16 06:16:38] [TRACE]   [OmnipathR] JSON validation successful: TRUE
[2024-07-16 06:16:38] [SUCCESS] [OmnipathR] Removing all cache contents from `C:\Users\biocbuild\AppData\Local\Cache\OmnipathR`.
[2024-07-16 06:16:38] [TRACE]   [OmnipathR] Pandoc version: `2.7.3`.
[2024-07-16 06:16:38] [TRACE]   [OmnipathR] Reading JSON from `C:/Users/biocbuild/bbs-3.20-bioc/R/library/OmnipathR/db/db_def.json` (encoding: UTF-8).
[2024-07-16 06:16:38] [TRACE]   [OmnipathR] JSON validation successful: TRUE
[2024-07-16 06:16:38] [TRACE]   [OmnipathR] Reading JSON from `C:/Users/biocbuild/bbs-3.20-bioc/R/library/OmnipathR/internal/magic_bytes.json` (encoding: UTF-8).
[2024-07-16 06:16:38] [TRACE]   [OmnipathR] JSON validation successful: TRUE
[2024-07-16 06:16:38] [TRACE]   [OmnipathR] Reading JSON from `C:/Users/biocbuild/bbs-3.20-bioc/R/library/OmnipathR/internal/urls.json` (encoding: UTF-8).
[2024-07-16 06:16:38] [TRACE]   [OmnipathR] JSON validation successful: TRUE
[2024-07-16 06:16:38] [TRACE]   [OmnipathR] Reading JSON from `C:/Users/biocbuild/bbs-3.20-bioc/R/library/OmnipathR/internal/id_types.json` (encoding: UTF-8).
[2024-07-16 06:16:38] [TRACE]   [OmnipathR] JSON validation successful: TRUE
[2024-07-16 06:16:38] [TRACE]   [OmnipathR] Cache locked: FALSE
** help
*** installing help indices
*** copying figures
** building package indices
** installing vignettes
** testing if installed package can be loaded from temporary location
[2024-07-16 06:17:03] [TRACE]   [OmnipathR] Reading JSON from `C:\Users\biocbuild\AppData\Local\Cache\OmnipathR/cache.json` (encoding: UTF-8).
[2024-07-16 06:17:03] [TRACE]   [OmnipathR] JSON validation successful: TRUE
[2024-07-16 06:17:03] [INFO]    [OmnipathR] Initialized cache: `C:\Users\biocbuild\AppData\Local\Cache\OmnipathR`.
[2024-07-16 06:17:03] [TRACE]   [OmnipathR] Running on a build server, wiping cache.
[2024-07-16 06:17:03] [TRACE]   [OmnipathR] Cache is at `C:\Users\biocbuild\AppData\Local\Cache\OmnipathR`.
[2024-07-16 06:17:03] [TRACE]   [OmnipathR] Contains 1 files.
[2024-07-16 06:17:03] [TRACE]   [OmnipathR] Cache is locked: FALSE.
[2024-07-16 06:17:03] [TRACE]   [OmnipathR] Reading JSON from `C:\Users\biocbuild\AppData\Local\Cache\OmnipathR/cache.json` (encoding: UTF-8).
[2024-07-16 06:17:03] [TRACE]   [OmnipathR] JSON validation successful: TRUE
[2024-07-16 06:17:03] [SUCCESS] [OmnipathR] Removing all cache contents from `C:\Users\biocbuild\AppData\Local\Cache\OmnipathR`.
[2024-07-16 06:17:03] [TRACE]   [OmnipathR] Pandoc version: `2.7.3`.
[2024-07-16 06:17:03] [TRACE]   [OmnipathR] Reading JSON from `C:/Users/biocbuild/bbs-3.20-bioc/R/library/OmnipathR/db/db_def.json` (encoding: UTF-8).
[2024-07-16 06:17:03] [TRACE]   [OmnipathR] JSON validation successful: TRUE
[2024-07-16 06:17:03] [TRACE]   [OmnipathR] Reading JSON from `C:/Users/biocbuild/bbs-3.20-bioc/R/library/OmnipathR/internal/magic_bytes.json` (encoding: UTF-8).
[2024-07-16 06:17:03] [TRACE]   [OmnipathR] JSON validation successful: TRUE
[2024-07-16 06:17:03] [TRACE]   [OmnipathR] Reading JSON from `C:/Users/biocbuild/bbs-3.20-bioc/R/library/OmnipathR/internal/urls.json` (encoding: UTF-8).
[2024-07-16 06:17:03] [TRACE]   [OmnipathR] JSON validation successful: TRUE
[2024-07-16 06:17:03] [TRACE]   [OmnipathR] Reading JSON from `C:/Users/biocbuild/bbs-3.20-bioc/R/library/OmnipathR/internal/id_types.json` (encoding: UTF-8).
[2024-07-16 06:17:03] [TRACE]   [OmnipathR] JSON validation successful: TRUE
[2024-07-16 06:17:03] [TRACE]   [OmnipathR] Cache locked: FALSE
** testing if installed package can be loaded from final location
[2024-07-16 06:17:22] [TRACE]   [OmnipathR] Reading JSON from `C:\Users\biocbuild\AppData\Local\Cache\OmnipathR/cache.json` (encoding: UTF-8).
[2024-07-16 06:17:22] [TRACE]   [OmnipathR] JSON validation successful: TRUE
[2024-07-16 06:17:22] [INFO]    [OmnipathR] Initialized cache: `C:\Users\biocbuild\AppData\Local\Cache\OmnipathR`.
[2024-07-16 06:17:22] [TRACE]   [OmnipathR] Running on a build server, wiping cache.
[2024-07-16 06:17:22] [TRACE]   [OmnipathR] Cache is at `C:\Users\biocbuild\AppData\Local\Cache\OmnipathR`.
[2024-07-16 06:17:22] [TRACE]   [OmnipathR] Contains 1 files.
[2024-07-16 06:17:22] [TRACE]   [OmnipathR] Cache is locked: FALSE.
[2024-07-16 06:17:22] [TRACE]   [OmnipathR] Reading JSON from `C:\Users\biocbuild\AppData\Local\Cache\OmnipathR/cache.json` (encoding: UTF-8).
[2024-07-16 06:17:22] [TRACE]   [OmnipathR] JSON validation successful: TRUE
[2024-07-16 06:17:22] [SUCCESS] [OmnipathR] Removing all cache contents from `C:\Users\biocbuild\AppData\Local\Cache\OmnipathR`.
[2024-07-16 06:17:22] [TRACE]   [OmnipathR] Pandoc version: `2.7.3`.
[2024-07-16 06:17:22] [TRACE]   [OmnipathR] Reading JSON from `C:/Users/biocbuild/bbs-3.20-bioc/R/library/OmnipathR/db/db_def.json` (encoding: UTF-8).
[2024-07-16 06:17:22] [TRACE]   [OmnipathR] JSON validation successful: TRUE
[2024-07-16 06:17:22] [TRACE]   [OmnipathR] Reading JSON from `C:/Users/biocbuild/bbs-3.20-bioc/R/library/OmnipathR/internal/magic_bytes.json` (encoding: UTF-8).
[2024-07-16 06:17:22] [TRACE]   [OmnipathR] JSON validation successful: TRUE
[2024-07-16 06:17:22] [TRACE]   [OmnipathR] Reading JSON from `C:/Users/biocbuild/bbs-3.20-bioc/R/library/OmnipathR/internal/urls.json` (encoding: UTF-8).
[2024-07-16 06:17:22] [TRACE]   [OmnipathR] JSON validation successful: TRUE
[2024-07-16 06:17:22] [TRACE]   [OmnipathR] Reading JSON from `C:/Users/biocbuild/bbs-3.20-bioc/R/library/OmnipathR/internal/id_types.json` (encoding: UTF-8).
[2024-07-16 06:17:22] [TRACE]   [OmnipathR] JSON validation successful: TRUE
[2024-07-16 06:17:22] [TRACE]   [OmnipathR] Cache locked: FALSE
** testing if installed package keeps a record of temporary installation path
* MD5 sums
packaged installation of 'gINTomics' as gINTomics_1.1.0.zip
* DONE (gINTomics)