BioC 3.2: INSTALL report for methylumi on moscato1

Package: methylumi

Version: 2.15.2

Command: C:\cygwin\bin\curl.exe -O http://zin1/BBS/3.2/bioc/src/contrib/methylumi_2.15.2.tar.gz && D:\biocbld\bbs-3.2-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch methylumi_2.15.2.tar.gz && rm methylumi_2.15.2.tar.gz

StartedAt: 2015-08-19 18:56:51 -0700 (Wed, 19 Aug 2015)

EndedAt: 2015-08-19 18:59:09 -0700 (Wed, 19 Aug 2015)

EllapsedTime: 138.6 seconds

RetCode: 0

Status:  OK

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### Running command:
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###   C:\cygwin\bin\curl.exe -O http://zin1/BBS/3.2/bioc/src/contrib/methylumi_2.15.2.tar.gz && D:\biocbld\bbs-3.2-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch methylumi_2.15.2.tar.gz && rm methylumi_2.15.2.tar.gz
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install for i386

* installing to library 'D:/biocbld/bbs-3.2-bioc/R/library'
* installing *source* package 'methylumi' ...
** R
** data
** inst
** preparing package for lazy loading
** help
*** installing help indices
** building package indices
3 HumanMethylation27 samples found
0 HumanMethylation450 samples found
Attempting to extract protocolData() from list...
Determining chip type from IDAT protocolData...
Note: method with signature 'methylData#character' chosen for function 'sampleNames<-',
 target signature 'MethyLumiQC#character'.
 "eSet#ANY" would also be valid
Background mean & SD estimated from 24156 probes
Loading required package: MASS

Attaching package: 'MASS'

The following object is masked from 'package:AnnotationDbi':

    select

Background mean & SD estimated from 31000 probes
HumanMethylation27 data encountered, skipping...

Object Information:
MethyLumiSet (storageMode: lockedEnvironment)
assayData: 27578 features, 3 samples 
  element names: betas, methylated, methylated.OOB, pvals, unmethylated, unmethylated.OOB 
protocolData: none
phenoData
  sampleNames: 5318317007_A 5318317007_B 5318317007_C
  varLabels: barcode mu.Cy3 ... offset.Cy5 (9 total)
  varMetadata: labelDescription
featureData
  featureNames: cg00000292 cg00002426 ... cg27665659 (27578 total)
  fvarLabels: Probe_ID DESIGN COLOR_CHANNEL
  fvarMetadata: labelDescription
experimentData: use 'experimentData(object)'
Annotation: IlluminaHumanMethylation27k 
Major Operation History:
            submitted            finished
1 2015-08-19 18:58:05 2015-08-19 18:58:11
2 2015-08-19 18:58:11 2015-08-19 18:58:11
3 2015-08-19 18:58:11            18:58:15
                                            command
1            methylumIDAT(barcodes = getBarcodes())
2                         Subset of 27578 features.
3 methylumi.bgcorr(x = methylumIDAT(getBarcodes()))
** installing vignettes
   'methylumi.Rnw' 
   'methylumi450k.Rnw' 
** testing if installed package can be loaded

install for x64

* installing to library 'D:/biocbld/bbs-3.2-bioc/R/library'
* installing *source* package 'methylumi' ...
** testing if installed package can be loaded
* DONE (methylumi)