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This page was generated on 2021-10-15 15:06:42 -0400 (Fri, 15 Oct 2021).

BUILD results for metagenomeFeatures on machv2

To the developers/maintainers of the metagenomeFeatures package:
- Please allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/metagenomeFeatures.git to
reflect on this report. See How and When does the builder pull? When will my changes propagate? here for more information.
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raw results

Package 1086/2041HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
metagenomeFeatures 2.12.0  (landing page)
Nathan D. Olson
Snapshot Date: 2021-10-14 04:50:12 -0400 (Thu, 14 Oct 2021)
git_url: https://git.bioconductor.org/packages/metagenomeFeatures
git_branch: RELEASE_3_13
git_last_commit: ae94722
git_last_commit_date: 2021-05-19 12:16:05 -0400 (Wed, 19 May 2021)
nebbiolo1Linux (Ubuntu 20.04.2 LTS) / x86_64  OK    ERROR  skipped
tokay2Windows Server 2012 R2 Standard / x64  OK    ERROR  skippedskipped
machv2macOS 10.14.6 Mojave / x86_64  OK    ERROR  skippedskipped

Summary

Package: metagenomeFeatures
Version: 2.12.0
Command: /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD build --keep-empty-dirs --no-resave-data metagenomeFeatures
StartedAt: 2021-10-14 13:06:10 -0400 (Thu, 14 Oct 2021)
EndedAt: 2021-10-14 13:06:40 -0400 (Thu, 14 Oct 2021)
EllapsedTime: 29.5 seconds
RetCode: 1
Status:   ERROR  
PackageFile: None
PackageFileSize: NA

Command output

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### Running command:
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###   /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD build --keep-empty-dirs --no-resave-data metagenomeFeatures
###
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* checking for file ‘metagenomeFeatures/DESCRIPTION’ ... OK
* preparing ‘metagenomeFeatures’:
* checking DESCRIPTION meta-information ... OK
* installing the package to build vignettes
* creating vignettes ... ERROR
--- re-building ‘MgDb_and_mgFeatures_classes.Rmd’ using rmarkdown
Quitting from lines 58-63 (MgDb_and_mgFeatures_classes.Rmd) 
Error: processing vignette 'MgDb_and_mgFeatures_classes.Rmd' failed with diagnostics:
no applicable method for 'select_' applied to an object of class "c('tbl_SQLiteConnection', 'tbl_dbi', 'tbl_sql', 'tbl_lazy', 'tbl')"
--- failed re-building ‘MgDb_and_mgFeatures_classes.Rmd’

--- re-building ‘database-explore.Rmd’ using rmarkdown
Warning: `filter_()` was deprecated in dplyr 0.7.0.
Please use `filter()` instead.
See vignette('programming') for more help
This warning is displayed once every 8 hours.
Call `lifecycle::last_lifecycle_warnings()` to see where this warning was generated.
Quitting from lines 62-68 (database-explore.Rmd) 
Error: processing vignette 'database-explore.Rmd' failed with diagnostics:
no applicable method for 'filter_' applied to an object of class "c('tbl_SQLiteConnection', 'tbl_dbi', 'tbl_sql', 'tbl_lazy', 'tbl')"
--- failed re-building ‘database-explore.Rmd’

--- re-building ‘retrieve-feature-data.Rmd’ using rmarkdown
Warning: call dbDisconnect() when finished working with a connection
Found more than one class "phylo" in cache; using the first, from namespace 'metagenomeFeatures'
Also defined by 'tidytree' 'phyloseq'
Found more than one class "phylo" in cache; using the first, from namespace 'metagenomeFeatures'
Also defined by 'tidytree' 'phyloseq'
Found more than one class "phylo" in cache; using the first, from namespace 'metagenomeFeatures'
Also defined by 'tidytree' 'phyloseq'
Found more than one class "phylo" in cache; using the first, from namespace 'metagenomeFeatures'
Also defined by 'tidytree' 'phyloseq'
Quitting from lines 88-98 (retrieve-feature-data.Rmd) 
Error: processing vignette 'retrieve-feature-data.Rmd' failed with diagnostics:
no applicable method for 'filter_' applied to an object of class "c('tbl_SQLiteConnection', 'tbl_dbi', 'tbl_sql', 'tbl_lazy', 'tbl')"
--- failed re-building ‘retrieve-feature-data.Rmd’

SUMMARY: processing the following files failed:
  ‘MgDb_and_mgFeatures_classes.Rmd’ ‘database-explore.Rmd’
  ‘retrieve-feature-data.Rmd’

Error: Vignette re-building failed.
Execution halted