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This page was generated on 2024-05-13 11:37:47 -0400 (Mon, 13 May 2024).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo2Linux (Ubuntu 22.04.3 LTS)x86_644.4.0 RC (2024-04-16 r86468) -- "Puppy Cup" 4663
palomino4Windows Server 2022 Datacenterx644.4.0 RC (2024-04-16 r86468 ucrt) -- "Puppy Cup" 4394
merida1macOS 12.7.4 Montereyx86_644.4.0 Patched (2024-04-24 r86482) -- "Puppy Cup" 4425
kunpeng2Linux (openEuler 22.03 LTS-SP1)aarch644.4.0 beta (2024-04-15 r86425) -- "Puppy Cup" 4480
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 56/2230HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
AlphaMissenseR 1.1.2  (landing page)
Martin Morgan
Snapshot Date: 2024-05-10 14:05:07 -0400 (Fri, 10 May 2024)
git_url: https://git.bioconductor.org/packages/AlphaMissenseR
git_branch: devel
git_last_commit: 0c64f7e
git_last_commit_date: 2024-05-09 14:42:32 -0400 (Thu, 09 May 2024)
nebbiolo2Linux (Ubuntu 22.04.3 LTS) / x86_64  OK    OK    OK  YES
palomino4Windows Server 2022 Datacenter / x64  OK    ERROR  skippedskipped
merida1macOS 12.7.4 Monterey / x86_64  OK    OK    OK    OK  YES
kunpeng2Linux (openEuler 22.03 LTS-SP1) / aarch64  OK    OK    OK  
kjohnson1macOS 13.6.6 Ventura / arm64see weekly results here

BUILD results for AlphaMissenseR on palomino4


To the developers/maintainers of the AlphaMissenseR package:
- Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/AlphaMissenseR.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: AlphaMissenseR
Version: 1.1.2
Command: chmod a+r AlphaMissenseR -R && F:\biocbuild\bbs-3.20-bioc\R\bin\R.exe CMD build --keep-empty-dirs --no-resave-data AlphaMissenseR
StartedAt: 2024-05-10 16:58:45 -0400 (Fri, 10 May 2024)
EndedAt: 2024-05-10 16:59:19 -0400 (Fri, 10 May 2024)
EllapsedTime: 33.8 seconds
RetCode: 1
Status:   ERROR  
PackageFile: None
PackageFileSize: NA

Command output

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


* checking for file 'AlphaMissenseR/DESCRIPTION' ... OK
* preparing 'AlphaMissenseR':
* checking DESCRIPTION meta-information ... OK
* installing the package to build vignettes
* creating vignettes ... ERROR
--- re-building 'a_introduction.Rmd' using rmarkdown

Quitting from lines  at lines 221-225 [ahub-homo-sap] (a_introduction.Rmd)
Error: processing vignette 'a_introduction.Rmd' failed with diagnostics:
Corrupt Cache: index file
  See AnnotationHub's TroubleshootingTheHubs vignette section on corrupt cache
  cache: F:\biocbuild\AnnotationHub_cache
  filename: annotationhub.index.rds
--- failed re-building 'a_introduction.Rmd'

--- re-building 'b_visualization.Rmd' using rmarkdown

Quitting from lines  at lines 59-61 [am_data] (b_visualization.Rmd)
Error: processing vignette 'b_visualization.Rmd' failed with diagnostics:
{"exception_type":"Invalid Input","exception_message":"Attempting to execute an unsuccessful or closed pending query result\nError: Invalid Input Error: Cannot execute statement of type \"CREATE\" on database \"52686799241e_52686799241e\" which is attached in read-only mode!"}
--- failed re-building 'b_visualization.Rmd'

--- re-building 'c_issues.Rmd' using rmarkdown
Warning: Connection is garbage-collected, use dbDisconnect() to avoid this.

Quitting from lines  at lines 74-75 [unnamed-chunk-4] (c_issues.Rmd)
Error: processing vignette 'c_issues.Rmd' failed with diagnostics:
{"exception_type":"Invalid Input","exception_message":"Attempting to execute an unsuccessful or closed pending query result\nError: Invalid Input Error: Cannot execute statement of type \"CREATE\" on database \"52686799241e_52686799241e\" which is attached in read-only mode!"}
--- failed re-building 'c_issues.Rmd'

SUMMARY: processing the following files failed:
  'a_introduction.Rmd' 'b_visualization.Rmd' 'c_issues.Rmd'

Error: Vignette re-building failed.
Execution halted
Warning messages:
1: Connection is garbage-collected, use dbDisconnect() to avoid this. 
2: Connection is garbage-collected, use dbDisconnect() to avoid this.