Back to Mac ARM64 build report for BioC 3.18
ABCDEFGHIJKL[M]NOPQRSTUVWXYZ

This page was generated on 2024-04-18 11:32:14 -0400 (Thu, 18 Apr 2024).

HostnameOSArch (*)R versionInstalled pkgs
kjohnson1macOS 13.6.1 Venturaarm644.3.3 (2024-02-29) -- "Angel Food Cake" 4388
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 1288/2266HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
MMAPPR2 1.16.0  (landing page)
Jonathon Hill
Snapshot Date: 2024-04-16 09:00:03 -0400 (Tue, 16 Apr 2024)
git_url: https://git.bioconductor.org/packages/MMAPPR2
git_branch: RELEASE_3_18
git_last_commit: e30fb29
git_last_commit_date: 2023-10-24 11:14:46 -0400 (Tue, 24 Oct 2023)
kjohnson1macOS 13.6.1 Ventura / arm64  OK    ERROR  skippedskipped

BUILD results for MMAPPR2 on kjohnson1


To the developers/maintainers of the MMAPPR2 package:
- 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: MMAPPR2
Version: 1.16.0
Command: /Library/Frameworks/R.framework/Resources/bin/R CMD build --keep-empty-dirs --no-resave-data MMAPPR2
StartedAt: 2024-04-16 22:00:39 -0400 (Tue, 16 Apr 2024)
EndedAt: 2024-04-16 22:02:30 -0400 (Tue, 16 Apr 2024)
EllapsedTime: 111.0 seconds
RetCode: 1
Status:   ERROR  
PackageFile: None
PackageFileSize: NA

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   /Library/Frameworks/R.framework/Resources/bin/R CMD build --keep-empty-dirs --no-resave-data MMAPPR2
###
##############################################################################
##############################################################################


* checking for file ‘MMAPPR2/DESCRIPTION’ ... OK
* preparing ‘MMAPPR2’:
* checking DESCRIPTION meta-information ... OK
* installing the package to build vignettes
* creating vignettes ... ERROR
--- re-building ‘MMAPPR2.Rmd’ using rmarkdown
running: bash  -c "# Cooking show code to account for cases when samtools is not installed
echo '#!/bin/bash' > /tmp/samtools
chmod 755 /tmp/samtools"
Can't locate Bio/EnsEMBL/Registry.pm in @INC (you may need to install the Bio::EnsEMBL::Registry module) (@INC contains: /usr/local/ensembl-vep/modules /usr/local/ensembl-vep /Library/Perl/5.30/darwin-thread-multi-2level /Library/Perl/5.30 /Network/Library/Perl/5.30/darwin-thread-multi-2level /Network/Library/Perl/5.30 /Library/Perl/Updates/5.30.3/darwin-thread-multi-2level /Library/Perl/Updates/5.30.3 /System/Library/Perl/5.30/darwin-thread-multi-2level /System/Library/Perl/5.30 /System/Library/Perl/Extras/5.30/darwin-thread-multi-2level /System/Library/Perl/Extras/5.30) at /usr/local/ensembl-vep/modules/Bio/EnsEMBL/VEP/BaseVEP.pm line 58.
BEGIN failed--compilation aborted at /usr/local/ensembl-vep/modules/Bio/EnsEMBL/VEP/BaseVEP.pm line 58.
Compilation failed in require at /System/Library/Perl/5.30/base.pm line 137.
	...propagated at /System/Library/Perl/5.30/base.pm line 159.
BEGIN failed--compilation aborted at /usr/local/ensembl-vep/modules/Bio/EnsEMBL/VEP/BaseRunner.pm line 56.
Compilation failed in require at /System/Library/Perl/5.30/base.pm line 137.
	...propagated at /System/Library/Perl/5.30/base.pm line 159.
BEGIN failed--compilation aborted at /usr/local/ensembl-vep/modules/Bio/EnsEMBL/VEP/Runner.pm line 71.
Compilation failed in require at /usr/local/ensembl-vep/vep line 20.
BEGIN failed--compilation aborted at /usr/local/ensembl-vep/vep line 20.
Can't locate Bio/EnsEMBL/Registry.pm in @INC (you may need to install the Bio::EnsEMBL::Registry module) (@INC contains: /usr/local/ensembl-vep/modules /usr/local/ensembl-vep /Library/Perl/5.30/darwin-thread-multi-2level /Library/Perl/5.30 /Network/Library/Perl/5.30/darwin-thread-multi-2level /Network/Library/Perl/5.30 /Library/Perl/Updates/5.30.3/darwin-thread-multi-2level /Library/Perl/Updates/5.30.3 /System/Library/Perl/5.30/darwin-thread-multi-2level /System/Library/Perl/5.30 /System/Library/Perl/Extras/5.30/darwin-thread-multi-2level /System/Library/Perl/Extras/5.30) at /usr/local/ensembl-vep/modules/Bio/EnsEMBL/VEP/BaseVEP.pm line 58.
BEGIN failed--compilation aborted at /usr/local/ensembl-vep/modules/Bio/EnsEMBL/VEP/BaseVEP.pm line 58.
Compilation failed in require at /System/Library/Perl/5.30/base.pm line 137.
	...propagated at /System/Library/Perl/5.30/base.pm line 159.
BEGIN failed--compilation aborted at /usr/local/ensembl-vep/modules/Bio/EnsEMBL/VEP/BaseRunner.pm line 56.
Compilation failed in require at /System/Library/Perl/5.30/base.pm line 137.
	...propagated at /System/Library/Perl/5.30/base.pm line 159.
BEGIN failed--compilation aborted at /usr/local/ensembl-vep/modules/Bio/EnsEMBL/VEP/Runner.pm line 71.
Compilation failed in require at /usr/local/ensembl-vep/vep line 20.
BEGIN failed--compilation aborted at /usr/local/ensembl-vep/vep line 20.

Quitting from lines 128-135 [mmappr-steps] (MMAPPR2.Rmd)
Error: processing vignette 'MMAPPR2.Rmd' failed with diagnostics:
file(s) do not exist:
  '/tmp/Rtmp5a6Ws1/file160003133da4a'
--- failed re-building ‘MMAPPR2.Rmd’

SUMMARY: processing the following file failed:
  ‘MMAPPR2.Rmd’

Error: Vignette re-building failed.
Execution halted