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### Running command:
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###   /home/biocbuild/bbs-3.20-bioc/R/bin/R CMD check --install=check:airpart.install-out.txt --library=/home/biocbuild/bbs-3.20-bioc/R/site-library --timings airpart_1.13.0.tar.gz
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* using log directory ‘/home/biocbuild/bbs-3.20-bioc/meat/airpart.Rcheck’
* using R version 4.4.0 RC (2024-04-16 r86468)
* 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 ‘airpart/DESCRIPTION’ ... OK
* this is package ‘airpart’ version ‘1.13.0’
* package encoding: UTF-8
* 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 ‘airpart’ 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 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 ... OK
* checking Rd files ... NOTE
checkRd: (-1) cellQC.Rd:44: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) cellQC.Rd:45: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) cellQC.Rd:46: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) cellQC.Rd:47-49: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) cellQC.Rd:50-52: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) cellQC.Rd:53-55: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) featureQC.Rd:29-30: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) featureQC.Rd:31: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) featureQC.Rd:32-33: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) featureQC.Rd:34: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) makeSimulatedData.Rd:43: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) makeSimulatedData.Rd:44: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) makeSimulatedData.Rd:45-46: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) summaryAllelicRatio.Rd:19: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) summaryAllelicRatio.Rd:20: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) summaryAllelicRatio.Rd:21: Lost braces in \itemize; \value handles \item{}{} directly
* 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
consensusPart 8.002  2.008   6.952
fusedLasso    6.149  0.225   6.412
makeStep      6.139  0.020   6.159
allelicRatio  5.626  0.084   5.711
* 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 ... OK
* checking PDF version of manual ... OK
* DONE

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