Package: FlowSOM

Version: 1.12.0

Command: /home/biocbuild/bbs-3.7-bioc/R/bin/R CMD check --install=check:FlowSOM.install-out.txt --library=/home/biocbuild/bbs-3.7-bioc/R/library --no-vignettes --timings FlowSOM_1.12.0.tar.gz

StartedAt: 2018-10-16 00:27:20 -0400 (Tue, 16 Oct 2018)

EndedAt: 2018-10-16 00:28:49 -0400 (Tue, 16 Oct 2018)

EllapsedTime: 88.9 seconds

RetCode: 0

Status:  OK

CheckDir: FlowSOM.Rcheck

Warnings: 0

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### Running command:
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###   /home/biocbuild/bbs-3.7-bioc/R/bin/R CMD check --install=check:FlowSOM.install-out.txt --library=/home/biocbuild/bbs-3.7-bioc/R/library --no-vignettes --timings FlowSOM_1.12.0.tar.gz
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* using log directory ‘/home/biocbuild/bbs-3.7-bioc/meat/FlowSOM.Rcheck’
* using R version 3.5.1 Patched (2018-07-12 r74967)
* using platform: x86_64-pc-linux-gnu (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘FlowSOM/DESCRIPTION’ ... OK
* this is package ‘FlowSOM’ version ‘1.12.0’
* 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 ‘FlowSOM’ 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 R 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 ... OK
* 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 line endings in C/C++/Fortran sources/headers ... OK
* checking compiled code ... NOTE
Note: information on .o files is not available
* checking files in ‘vignettes’ ... OK
* checking examples ... OK
Examples with CPU or elapsed time > 5s
             user system elapsed
FlowSOM     6.920  0.028   6.955
CountGroups 5.804  0.056   5.864
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes in ‘inst/doc’ ... 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-3.7-bioc/meat/FlowSOM.Rcheck/00check.log’
for details.

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### Running command:
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###   /home/biocbuild/bbs-3.7-bioc/R/bin/R CMD INSTALL FlowSOM
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* installing to library ‘/home/biocbuild/bbs-3.7-bioc/R/library’
* installing *source* package ‘FlowSOM’ ...
** libs
gcc -I"/home/biocbuild/bbs-3.7-bioc/R/include" -DNDEBUG   -I/usr/local/include   -fpic  -g -O2  -Wall -c som.c -o som.o
gcc -shared -L/home/biocbuild/bbs-3.7-bioc/R/lib -L/usr/local/lib -o FlowSOM.so som.o -L/home/biocbuild/bbs-3.7-bioc/R/lib -lR
installing to /home/biocbuild/bbs-3.7-bioc/R/library/FlowSOM/libs
** R
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded
* DONE (FlowSOM)

name	user	system	elapsed
AggregateFlowFrames	0.180	0.016	0.206
BuildMST	0.920	0.004	0.925
BuildSOM	1.120	0.012	1.134
CountGroups	5.804	0.056	5.864
FMeasure	0.004	0.000	0.005
FlowSOM	6.920	0.028	6.955
FlowSOMSubset	2.528	0.008	2.538
MetaClustering	2.948	0.028	2.979
NewData	2.732	0.000	2.732
PlotCenters	1.128	0.012	1.142
PlotClusters2D	0.868	0.004	0.871
PlotGroups	0.000	0.000	0.001
PlotMarker	0.844	0.012	0.855
PlotNode	2.736	0.012	2.751
PlotNumbers	0.884	0.016	0.901
PlotPies	3.760	0.016	3.779
PlotStars	1.100	0.004	1.107
PlotVariable	0.912	0.000	0.911
ProcessGatingML	4.304	0.012	4.320
Purity	0.000	0.000	0.001
QueryStarPlot	2.012	0.012	2.028
ReadInput	2.696	0.024	2.724
UpdateNodeSize	1.260	0.004	1.262
metaClustering_consensus	2.184	0.000	2.186