Back to Multiple platform build/check report for BioC 3.20:   simplified   long
ABCDEFGHIJKL[M]NOPQRSTUVWXYZ

This page was generated on 2025-03-31 12:07 -0400 (Mon, 31 Mar 2025).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo2Linux (Ubuntu 24.04.1 LTS)x86_644.4.3 (2025-02-28) -- "Trophy Case" 4764
palomino8Windows Server 2022 Datacenterx644.4.3 (2025-02-28 ucrt) -- "Trophy Case" 4495
merida1macOS 12.7.5 Montereyx86_644.4.3 (2025-02-28) -- "Trophy Case" 4522
kjohnson1macOS 13.6.6 Venturaarm644.4.3 (2025-02-28) -- "Trophy Case" 4449
taishanLinux (openEuler 24.03 LTS)aarch644.4.3 (2025-02-28) -- "Trophy Case" 4426
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 1333/2289HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
MsBackendRawFileReader 1.12.0  (landing page)
Christian Panse
Snapshot Date: 2025-03-27 13:00 -0400 (Thu, 27 Mar 2025)
git_url: https://git.bioconductor.org/packages/MsBackendRawFileReader
git_branch: RELEASE_3_20
git_last_commit: 9afea02
git_last_commit_date: 2024-10-29 11:05:23 -0400 (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    ERROR  skippedskipped
merida1macOS 12.7.5 Monterey / x86_64  OK    OK    OK    OK  UNNEEDED, same version is already published
kjohnson1macOS 13.6.6 Ventura / arm64  OK    OK    OK    OK  UNNEEDED, same version is already published
taishanLinux (openEuler 24.03 LTS) / aarch64  ERROR    ERROR  skipped

BUILD results for MsBackendRawFileReader on palomino8

To the developers/maintainers of the MsBackendRawFileReader package:
- Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/MsBackendRawFileReader.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: MsBackendRawFileReader
Version: 1.12.0
Command: chmod a+r MsBackendRawFileReader -R && F:\biocbuild\bbs-3.20-bioc\R\bin\R.exe CMD build --keep-empty-dirs --no-resave-data MsBackendRawFileReader
StartedAt: 2025-03-27 20:43:16 -0400 (Thu, 27 Mar 2025)
EndedAt: 2025-03-27 20:43:54 -0400 (Thu, 27 Mar 2025)
EllapsedTime: 38.4 seconds
RetCode: 1
Status:   ERROR  
PackageFile: None
PackageFileSize: NA

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   chmod a+r MsBackendRawFileReader -R && F:\biocbuild\bbs-3.20-bioc\R\bin\R.exe CMD build --keep-empty-dirs --no-resave-data MsBackendRawFileReader
###
##############################################################################
##############################################################################


* checking for file 'MsBackendRawFileReader/DESCRIPTION' ... OK
* preparing 'MsBackendRawFileReader':
* checking DESCRIPTION meta-information ... OK
* installing the package to build vignettes
* creating vignettes ... ERROR
--- re-building 'MsBackendRawFileReader.Rmd' using rmarkdown
trying URL 'https://github.com/thermofisherlsms/RawFileReader/raw/main/Libs/Net471//ThermoFisher.CommonCore.BackgroundSubtraction.dll'
Content type 'application/octet-stream' length 44544 bytes (43 KB)
==================================================
downloaded 43 KB

trying URL 'https://github.com/thermofisherlsms/RawFileReader/raw/main/Libs/Net471//ThermoFisher.CommonCore.Data.dll'
Content type 'application/octet-stream' length 406016 bytes (396 KB)
==================================================
downloaded 396 KB

trying URL 'https://github.com/thermofisherlsms/RawFileReader/raw/main/Libs/Net471//ThermoFisher.CommonCore.MassPrecisionEstimator.dll'
Content type 'application/octet-stream' length 11264 bytes (11 KB)
==================================================
downloaded 11 KB

trying URL 'https://github.com/thermofisherlsms/RawFileReader/raw/main/Libs/Net471//ThermoFisher.CommonCore.RawFileReader.dll'
Content type 'application/octet-stream' length 654336 bytes (639 KB)
==================================================
downloaded 639 KB


Quitting from MsBackendRawFileReader.Rmd:107-111 [backendInitializeMsBackendRawFileReader]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
<error/rlang_error>
Error in `socketConnection()`:
! cannot open the connection
---
Backtrace:
     ▆
  1. ├─Spectra::backendInitialize(...)
  2. └─Spectra::backendInitialize(...)
  3.   └─MsBackendRawFileReader (local) .local(object, ...)
  4.     ├─base::do.call(...)
  5.     ├─BiocParallel::bplapply(...)
  6.     └─BiocParallel::bplapply(...)
  7.       └─BiocParallel:::.bpinit(...)
  8.         ├─BiocParallel::bpstart(BPPARAM)
  9.         └─BiocParallel::bpstart(BPPARAM)
 10.           └─BiocParallel (local) .local(x, ...)
 11.             └─BiocParallel:::.bpstart_makeCluster(cargs)
 12.               ├─base::do.call(parallel::makeCluster, cargs)
 13.               └─parallel (local) `<fn>`(...)
 14.                 └─snow::makeSOCKcluster(names = spec, ...)
 15.                   └─snow::newSOCKnode(names[[i]], options = options, rank = i)
 16.                     └─base::socketConnection(...)
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~

Error: processing vignette 'MsBackendRawFileReader.Rmd' failed with diagnostics:
cannot open the connection
--- failed re-building 'MsBackendRawFileReader.Rmd'

SUMMARY: processing the following file failed:
  'MsBackendRawFileReader.Rmd'

Error: Vignette re-building failed.
Execution halted