Back to the "Multiple platform build/check report" A  B  C  D  E  F  G  H  I  J  K  L [M] N  O  P  Q  R  S  T  U  V  W  X  Y  Z 

BioC 3.2: BUILD report for methylumi on moscato1

This page was generated on 2016-04-23 10:16:55 -0700 (Sat, 23 Apr 2016).

Package 637/1103HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
methylumi 2.16.0
Sean Davis
Snapshot Date: 2016-04-22 16:20:12 -0700 (Fri, 22 Apr 2016)
URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_3_2/madman/Rpacks/methylumi
Last Changed Rev: 109589 / Revision: 116712
Last Changed Date: 2015-10-13 12:36:05 -0700 (Tue, 13 Oct 2015)
zin1 Linux (Ubuntu 14.04.2 LTS) / x86_64  OK  OK  WARNINGS UNNEEDED, same version exists in internal repository
moscato1 Windows Server 2008 R2 Standard (64-bit) / x64  OK [ OK ] WARNINGS  OK UNNEEDED, same version exists in internal repository
oaxaca Mac OS X Mavericks (10.9.5) / x86_64  OK  OK  WARNINGS  OK UNNEEDED, same version exists in internal repository

Summary

Package: methylumi
Version: 2.16.0
Command: chmod a+r methylumi -R && D:\biocbld\bbs-3.2-bioc\R\bin\R.exe CMD build --keep-empty-dirs --no-resave-data methylumi
StartedAt: 2016-04-22 19:37:31 -0700 (Fri, 22 Apr 2016)
EndedAt: 2016-04-22 19:52:36 -0700 (Fri, 22 Apr 2016)
EllapsedTime: 905.5 seconds
RetCode: 0
Status:  OK  
PackageFile: methylumi_2.16.0.tar.gz
PackageFileSize: 5.893 MiB

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   chmod a+r methylumi -R && D:\biocbld\bbs-3.2-bioc\R\bin\R.exe CMD build --keep-empty-dirs --no-resave-data methylumi
###
##############################################################################
##############################################################################


* checking for file 'methylumi/DESCRIPTION' ... OK
* preparing 'methylumi':
* checking DESCRIPTION meta-information ... OK
* installing the package to build vignettes
* creating vignettes ... OK
* checking for LF line-endings in source and make files
* checking for empty or unneeded directories
* looking to see if a 'data/datalist' file should be added
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
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 2016-04-22 19:51:42 2016-04-22 19:51:44
2 2016-04-22 19:51:44 2016-04-22 19:51:44
3 2016-04-22 19:51:44            19:51:45
                                            command
1            methylumIDAT(barcodes = getBarcodes())
2                         Subset of 27578 features.
3 methylumi.bgcorr(x = methylumIDAT(getBarcodes()))
* building 'methylumi_2.16.0.tar.gz'