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### Running command:
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###   /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:basecallQC.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings basecallQC_1.29.0.tar.gz
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* using log directory ‘/Users/biocbuild/bbs-3.20-bioc/meat/basecallQC.Rcheck’
* using R version 4.4.0 Patched (2024-04-24 r86482)
* using platform: x86_64-apple-darwin20
* R was compiled by
    Apple clang version 14.0.0 (clang-1400.0.29.202)
    GNU Fortran (GCC) 12.2.0
* running under: macOS Monterey 12.7.4
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘basecallQC/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘basecallQC’ version ‘1.29.0’
* 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 ‘basecallQC’ can be installed ... OK
* checking installed package size ... OK
* checking package directory ... OK
* checking ‘build’ directory ... OK
* checking DESCRIPTION meta-information ... OK
* 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 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 ... OK
* checking Rd files ... NOTE
checkRd: (-1) BCL2FastQparams.Rd:39: Lost braces in \itemize; meant \describe ?
checkRd: (-1) BCL2FastQparams.Rd:40: Lost braces in \itemize; meant \describe ?
checkRd: (-1) BCL2FastQparams.Rd:41-42: Lost braces in \itemize; meant \describe ?
checkRd: (-1) basecallQC.Rd:39: Lost braces in \itemize; meant \describe ?
checkRd: (-1) basecallQC.Rd:40-42: Lost braces in \itemize; meant \describe ?
checkRd: (-1) basecallQC.Rd:43-44: Lost braces in \itemize; meant \describe ?
checkRd: (-1) basecallQC.Rd:45-46: Lost braces in \itemize; meant \describe ?
checkRd: (-1) basecallQC.Rd:47-48: Lost braces in \itemize; meant \describe ?
checkRd: (-1) basecallQC.Rd:49-50: Lost braces in \itemize; meant \describe ?
checkRd: (-1) basecallQC.Rd:51-52: Lost braces in \itemize; meant \describe ?
checkRd: (-1) interOpsReport.Rd:32-33: Lost braces in \itemize; meant \describe ?
checkRd: (-1) interOpsReport.Rd:34-37: Lost braces in \itemize; meant \describe ?
checkRd: (-1) interOpsReport.Rd:38-41: Lost braces in \itemize; meant \describe ?
* 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 files in ‘vignettes’ ... OK
* checking examples ... OK
Examples with CPU (user + system) or elapsed time > 5s
                        user system elapsed
reportBCL             19.872  0.363  23.197
demuxBarplot          14.413  0.130  17.146
basecallQC            13.138  0.199  15.782
baseCallMetrics       12.486  0.518  15.467
passFilterTileplot    12.858  0.087  15.033
passFilterBar         12.786  0.080  14.989
passFilterBoxplot     12.741  0.071  14.950
demuxBoxplot          12.572  0.080  14.755
makeFQTable           12.564  0.087  14.891
summaryDemuxTable     12.525  0.072  14.203
summaryConvStatsTable 12.486  0.066  14.299
* 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 running R code from vignettes ... SKIPPED
* checking re-building of vignette outputs ... SKIPPED
* checking PDF version of manual ... OK
* DONE

Status: 1 NOTE
See
  ‘/Users/biocbuild/bbs-3.20-bioc/meat/basecallQC.Rcheck/00check.log’
for details.