Package: ChAMPdata

Version: 2.18.0

Command: /home/biocbuild/bbs-3.10-bioc/R/bin/R CMD check --install=check:ChAMPdata.install-out.txt --library=/home/biocbuild/bbs-3.10-bioc/R/library --no-vignettes --timings ChAMPdata_2.18.0.tar.gz

StartedAt: 2020-04-14 13:18:03 -0400 (Tue, 14 Apr 2020)

EndedAt: 2020-04-14 13:23:02 -0400 (Tue, 14 Apr 2020)

EllapsedTime: 299.0 seconds

RetCode: 0

Status:  OK

CheckDir: ChAMPdata.Rcheck

Warnings: 0

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### Running command:
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###   /home/biocbuild/bbs-3.10-bioc/R/bin/R CMD check --install=check:ChAMPdata.install-out.txt --library=/home/biocbuild/bbs-3.10-bioc/R/library --no-vignettes --timings ChAMPdata_2.18.0.tar.gz
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* using log directory ‘/home/biocbuild/bbs-3.10-data-experiment/meat/ChAMPdata.Rcheck’
* using R version 3.6.3 (2020-02-29)
* using platform: x86_64-pc-linux-gnu (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘ChAMPdata/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘ChAMPdata’ version ‘2.18.0’
* 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 ‘ChAMPdata’ can be installed ... OK
* checking installed package size ... NOTE
  installed size is 743.0Mb
  sub-directories of 1Mb or more:
    data     619.3Mb
    extdata  123.6Mb
* checking package 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 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 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 contents of ‘data’ directory ... OK
* checking data for non-ASCII characters ... NOTE
  Error loading dataset 'bloodCtl':
   Error in nrow(x@elementMetadata) : 
    no slot of name "elementMetadata" for this object of class "RGChannelSetExtended"
  
  Error loading dataset 'myLoad':
   Error in nrow(x@elementMetadata) : 
    no slot of name "elementMetadata" for this object of class "MethylSet"
  
* checking data for ASCII and uncompressed saves ... OK
* checking examples ... OK
Examples with CPU or elapsed time > 5s
                    user system elapsed
ChAMPdata-package 32.388  0.464  32.876
testDataSet       10.568  0.088  10.661
AnnoEPIC           5.712  0.044   5.756
* checking PDF version of manual ... OK
* DONE

Status: 2 NOTEs
See
  ‘/home/biocbuild/bbs-3.10-data-experiment/meat/ChAMPdata.Rcheck/00check.log’
for details.

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### Running command:
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###   /home/biocbuild/bbs-3.10-bioc/R/bin/R CMD INSTALL ChAMPdata
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* installing to library ‘/home/biocbuild/bbs-3.10-bioc/R/library’
* installing *source* package ‘ChAMPdata’ ...
** using staged installation
** data
** inst
** help
*** installing help indices
** building package indices
** testing if installed package can be loaded from temporary location
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path
* DONE (ChAMPdata)

name	user	system	elapsed
Anno450K	2.320	0.064	2.383
AnnoEPIC	5.712	0.044	5.756
CellTypeMeans27K	0.000	0.000	0.002
CellTypeMeans450K	0.004	0.000	0.002
ChAMPdata-package	32.388	0.464	32.876
ControlProbes450K	0.000	0.000	0.001
ControlProbesEPIC	0	0	0
EPIC.manifest.hg19	4.844	0.140	4.985
EPIC.manifest.pop.hg19	3.196	0.020	3.215
EPICSimData	2.272	0.084	2.359
MatchGeneName	0.024	0.000	0.020
PathwayList	0.440	0.012	0.453
bloodCtl	0.000	0.000	0.002
hm450.manifest.hg19	1.900	0.008	1.906
hm450.manifest.pop.hg19	1.192	0.000	1.193
hprdAsigH	2.728	0.160	2.888
illumina450Gr	2.292	0.052	2.347
illuminaEPICGr	2.820	0.008	2.829
multi.hit	0.88	0.00	0.88
probe.features	0.736	0.004	0.738
probe.features.epic	1.684	0.008	1.694
probeInfoALL.epic.lv	0.748	0.004	0.751
probeInfoALL.lv	0.524	0.000	0.522
snp.hit	0.912	0.004	0.916
testDataSet	10.568	0.088	10.661