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### Running command:
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###   /home/biocbuild/bbs-3.19-bioc/R/bin/R CMD check --install=check:scTensor.install-out.txt --library=/home/biocbuild/bbs-3.19-bioc/R/site-library --timings scTensor_2.14.0.tar.gz
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* using log directory ‘/home/biocbuild/bbs-3.19-bioc/meat/scTensor.Rcheck’
* using R version 4.4.0 (2024-04-24)
* using platform: x86_64-pc-linux-gnu
* R was compiled by
    gcc (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0
    GNU Fortran (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0
* running under: Ubuntu 22.04.4 LTS
* using session charset: UTF-8
* checking for file ‘scTensor/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘scTensor’ version ‘2.14.0’
* checking package namespace information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking if there is a namespace ... OK
* checking for hidden files and directories ... OK
* checking for portable file names ... OK
* checking for sufficient/correct file permissions ... OK
* checking whether package ‘scTensor’ can be installed ... OK
* checking installed package size ... OK
* checking package directory ... OK
* checking ‘build’ directory ... OK
* checking DESCRIPTION meta-information ... NOTE
Package listed in more than one of Depends, Imports, Suggests, Enhances:
  ‘AnnotationHub’
A package should be listed in only one of these fields.
* checking top-level files ... OK
* checking for left-over files ... OK
* checking index information ... OK
* checking package subdirectories ... OK
* checking code files for non-ASCII characters ... OK
* checking R files for syntax errors ... OK
* checking whether the package can be loaded ... OK
* checking whether the package can be loaded with stated dependencies ... OK
* checking whether the package can be unloaded cleanly ... OK
* checking whether the namespace can be loaded with stated dependencies ... OK
* checking whether the namespace can be unloaded cleanly ... OK
* checking loading without being on the library search path ... OK
* checking dependencies in R code ... OK
* checking S3 generic/method consistency ... OK
* checking replacement functions ... OK
* checking foreign function calls ... OK
* checking R code for possible problems ... NOTE
.simulateDropoutCounts: no visible binding for global variable ‘v’
.simulateDropoutCounts: no visible binding for global variable ‘m’
Undefined global functions or variables:
  m v
* checking Rd files ... WARNING
checkRd: (5) newCCSParams.Rd:8: \item in \arguments must have non-empty label
* checking Rd metadata ... OK
* checking Rd cross-references ... OK
* checking for missing documentation entries ... OK
* checking for code/documentation mismatches ... OK
* checking Rd \usage sections ... OK
* checking Rd contents ... OK
* checking for unstated dependencies in examples ... OK
* checking contents of ‘data’ directory ... OK
* checking data for non-ASCII characters ... OK
* checking data for ASCII and uncompressed saves ... OK
* checking files in ‘vignettes’ ... OK
* checking examples ... OK
* checking for unstated dependencies in ‘tests’ ... OK
* checking tests ...
  Running ‘testthat.R’
 OK
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes ... OK
* checking re-building of vignette outputs ... ERROR
Error(s) in re-building vignettes:
--- re-building ‘scTensor.Rmd’ using rmarkdown
The magick package is required to crop "/home/biocbuild/bbs-3.19-bioc/meat/scTensor.Rcheck/vign_test/scTensor/vignettes/scTensor_files/figure-html/SCE2-1.png" but not available.
Warning: The label(s) fig:cellCellSetting not found
--- finished re-building ‘scTensor.Rmd’

--- re-building ‘scTensor_1_Data_format_ID_Conversion.Rmd’ using rmarkdown

Quitting from lines 188-198 [Gene Symbol with AnnotationHub] (scTensor_1_Data_format_ID_Conversion.Rmd)
Error: processing vignette 'scTensor_1_Data_format_ID_Conversion.Rmd' failed with diagnostics:
failed to load resource
  name: AH116710
  title: org.Hs.eg.db.sqlite
  reason: file is not a database
--- failed re-building ‘scTensor_1_Data_format_ID_Conversion.Rmd’

--- re-building ‘scTensor_2_Report_Interpretation.Rmd’ using rmarkdown
--- finished re-building ‘scTensor_2_Report_Interpretation.Rmd’

--- re-building ‘scTensor_3_CCI_Simulation.Rmd’ using rmarkdown
--- finished re-building ‘scTensor_3_CCI_Simulation.Rmd’

--- re-building ‘scTensor_4_Reanalysis.Rmd’ using rmarkdown
--- finished re-building ‘scTensor_4_Reanalysis.Rmd’

SUMMARY: processing the following file failed:
  ‘scTensor_1_Data_format_ID_Conversion.Rmd’

Error: Vignette re-building failed.
Execution halted

* checking PDF version of manual ... OK
* DONE

Status: 1 ERROR, 1 WARNING, 2 NOTEs
See
  ‘/home/biocbuild/bbs-3.19-bioc/meat/scTensor.Rcheck/00check.log’
for details.