BioC experimental data: CHECK report for ChAMPdata on malbec1

Package: ChAMPdata

Version: 2.9.1

Command: /home/biocbuild/bbs-3.6-bioc/R/bin/R CMD check --no-vignettes --timings ChAMPdata_2.9.1.tar.gz

StartedAt: 2017-08-15 10:34:36 -0400 (Tue, 15 Aug 2017)

EndedAt: 2017-08-15 10:38:29 -0400 (Tue, 15 Aug 2017)

EllapsedTime: 232.7 seconds

RetCode: 0

Status:  OK

CheckDir: ChAMPdata.Rcheck

Warnings: 0

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### Running command:
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###   /home/biocbuild/bbs-3.6-bioc/R/bin/R CMD check --no-vignettes --timings ChAMPdata_2.9.1.tar.gz
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* using log directory ‘/home/biocbuild/bbs-3.6-data-experiment/meat/ChAMPdata.Rcheck’
* using R version 3.4.1 (2017-06-30)
* 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 ‘2.9.1’
* 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 712.9Mb
  sub-directories of 1Mb or more:
    data     589.2Mb
    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 in nrow(x@elementMetadata) : 
    no slot of name "elementMetadata" for this object of class "RGChannelSetExtended"
  Calls: <Anonymous> ... check_one -> lapply -> FUN -> length -> length -> nrow
  Execution halted
* checking data for ASCII and uncompressed saves ... OK
* checking examples ... OK
Examples with CPU or elapsed time > 5s
                    user system elapsed
ChAMPdata-package 35.292  0.356  35.664
testDataSet       11.096  0.108  11.206
AnnoEPIC           6.724  0.032   6.759
* checking PDF version of manual ... OK
* DONE

Status: 2 NOTEs
See
  ‘/home/biocbuild/bbs-3.6-data-experiment/meat/ChAMPdata.Rcheck/00check.log’
for details.

* installing *source* package ‘ChAMPdata’ ...
** data
** inst
** help
*** installing help indices
** building package indices
** testing if installed package can be loaded
* DONE (ChAMPdata)

name	user	system	elapsed
Anno450K	3.760	0.032	3.794
AnnoEPIC	6.724	0.032	6.759
CellTypeMeans27K	0.000	0.000	0.002
CellTypeMeans450K	0.004	0.000	0.002
ChAMPdata-package	35.292	0.356	35.664
ControlProbes450K	0.000	0.000	0.002
ControlProbesEPIC	0.000	0.000	0.001
EPIC.manifest.hg38	4.548	0.052	4.602
EPIC.manifest.pop.hg38	0.816	0.056	0.873
EPICSimData	2.836	0.016	2.854
MatchGeneName	0.024	0.000	0.023
PathwayList	0.564	0.000	0.565
bloodCtl	0.000	0.000	0.001
hm450.manifest.hg38	2.772	0.000	2.770
hm450.manifest.pop.hg38	1.220	0.004	1.225
hprdAsigH	3.544	0.064	3.607
illumina450Gr	1.920	0.008	1.927
illuminaEPICGr	2.820	0.012	2.835
multi.hit	0.816	0.000	0.813
probe.features	0.692	0.000	0.692
probe.features.epic	1.692	0.004	1.699
probeInfoALL.epic.lv	0.724	0.004	0.731
probeInfoALL.lv	0.540	0.000	0.538
snp.hit	0.880	0.004	0.883
testDataSet	11.096	0.108	11.206