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### Running command:
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###   /home/biocbuild/R/R/bin/R CMD check --install=check:CATALYST.install-out.txt --library=/home/biocbuild/R/R/site-library --no-vignettes --timings CATALYST_1.30.2.tar.gz
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* using log directory ‘/home/biocbuild/bbs-3.20-bioc/meat/CATALYST.Rcheck’
* using R version 4.4.2 (2024-10-31)
* using platform: aarch64-unknown-linux-gnu
* R was compiled by
    aarch64-unknown-linux-gnu-gcc (GCC) 14.2.0
    GNU Fortran (GCC) 12.3.1 (openEuler 12.3.1-36.oe2403)
* running under: openEuler 24.03 (LTS)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘CATALYST/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘CATALYST’ version ‘1.30.2’
* 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 ‘CATALYST’ 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) plotDiffHeatmap.Rd:87: Lost braces in \itemize; meant \describe ?
checkRd: (-1) plotDiffHeatmap.Rd:88: 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 contents of ‘data’ directory ... OK
* checking data for non-ASCII characters ... OK
* checking LazyData ... OK
* checking data for ASCII and uncompressed saves ... OK
* checking files in ‘vignettes’ ... OK
* checking examples ... OK
Examples with CPU (user + system) or elapsed time > 5s
                   user system elapsed
plotMultiHeatmap 18.423  0.128  18.598
plotPbExprs      17.729  0.032  17.811
plotDiffHeatmap  17.053  0.124  17.272
plotDR           14.050  0.104  14.202
sce2fcs          12.838  0.099  12.978
plotExprHeatmap  12.635  0.063  12.736
plotClusterExprs  9.769  0.131   9.942
plotCodes         8.666  0.056   8.748
mergeClusters     8.563  0.067   8.667
compCytof         8.354  0.104   8.484
plotAbundances    8.354  0.056   8.437
clrDR             8.252  0.155   8.433
SCE-accessors     8.071  0.283   8.383
pbMDS             8.209  0.036   8.270
plotFreqHeatmap   7.714  0.012   7.748
plotMahal         7.248  0.040   7.309
cluster           7.064  0.088   7.175
filterSCE         6.459  0.092   6.570
plotYields        6.325  0.136   6.481
plotSpillmat      6.333  0.012   6.366
extractClusters   5.796  0.108   5.921
estCutoffs        5.760  0.135   5.912
plotExprs         5.713  0.088   5.817
adaptSpillmat     5.429  0.076   5.522
plotScatter       5.437  0.019   5.472
computeSpillmat   5.342  0.056   5.415
runDR             5.189  0.004   5.205
* 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
  ‘/home/biocbuild/bbs-3.20-bioc/meat/CATALYST.Rcheck/00check.log’
for details.