R Under development (unstable) (2016-02-19 r70190) -- "Unsuffered Consequences"
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Platform: x86_64-apple-darwin15.3.0 (64-bit)

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> library(minfiData)
Loading required package: minfi
Loading required package: BiocGenerics
Loading required package: parallel

Attaching package: ‘BiocGenerics’

The following objects are masked from ‘package:parallel’:

    clusterApply, clusterApplyLB, clusterCall, clusterEvalQ,
    clusterExport, clusterMap, parApply, parCapply, parLapply,
    parLapplyLB, parRapply, parSapply, parSapplyLB

The following objects are masked from ‘package:stats’:

    IQR, mad, xtabs

The following objects are masked from ‘package:base’:

    anyDuplicated, append, as.data.frame, cbind, colnames, do.call,
    duplicated, eval, evalq, Filter, Find, get, grep, grepl, intersect,
    is.unsorted, lapply, lengths, Map, mapply, match, mget, order,
    paste, pmax, pmax.int, pmin, pmin.int, Position, rank, rbind,
    Reduce, rownames, sapply, setdiff, sort, table, tapply, union,
    unique, unsplit

Loading required package: Biobase
Welcome to Bioconductor

    Vignettes contain introductory material; view with
    'browseVignettes()'. To cite Bioconductor, see
    'citation("Biobase")', and for packages 'citation("pkgname")'.

Loading required package: lattice
Loading required package: GenomicRanges
Loading required package: S4Vectors
Loading required package: stats4

Attaching package: ‘S4Vectors’

The following object is masked from ‘package:base’:

    expand.grid

Loading required package: IRanges
Loading required package: GenomeInfoDb
Loading required package: SummarizedExperiment
Loading required package: Biostrings
Loading required package: XVector
Loading required package: bumphunter
Loading required package: foreach
Loading required package: iterators
Loading required package: locfit
locfit 1.5-9.1 	 2013-03-22
No methods found in "IRanges" for requests: t
Setting options('download.file.method.GEOquery'='auto')
Setting options('GEOquery.inmemory.gpl'=FALSE)
Loading required package: IlluminaHumanMethylation450kmanifest
Loading required package: IlluminaHumanMethylation450kanno.ilmn12.hg19
> library(digest)
> 
> GMsetEx <- mapToGenome(MsetEx)
> gr.cor <- createCorMatrix(GMsetEx, res=500*1000)
> set.seed(456)
> gr.ab <- extractAB(gr.cor)
> 
> digest_compartments <- list(cor.matrix = minfi:::.digestMatrix(gr.cor$cor.matrix),
+                            pc = minfi:::.digestVector(gr.ab$pc, digits = 2))
> save(digest_compartments, file = "../unitTests/digest_compartments.rda")
> 
> sessionInfo()                         
R Under development (unstable) (2016-02-19 r70190)
Platform: x86_64-apple-darwin15.3.0 (64-bit)
Running under: OS X 10.11.3 (El Capitan)

locale:
[1] en_US.UTF-8/en_US.UTF-8/en_US.UTF-8/C/en_US.UTF-8/en_US.UTF-8

attached base packages:
[1] stats4    parallel  stats     graphics  grDevices utils     datasets 
[8] methods   base     

other attached packages:
 [1] digest_0.6.9                                      
 [2] minfiData_0.13.0                                  
 [3] IlluminaHumanMethylation450kanno.ilmn12.hg19_0.2.1
 [4] IlluminaHumanMethylation450kmanifest_0.4.0        
 [5] minfi_1.17.2                                      
 [6] bumphunter_1.11.2                                 
 [7] locfit_1.5-9.1                                    
 [8] iterators_1.0.8                                   
 [9] foreach_1.4.3                                     
[10] Biostrings_2.39.11                                
[11] XVector_0.11.7                                    
[12] SummarizedExperiment_1.1.19                       
[13] GenomicRanges_1.23.19                             
[14] GenomeInfoDb_1.7.6                                
[15] IRanges_2.5.31                                    
[16] S4Vectors_0.9.34                                  
[17] lattice_0.20-33                                   
[18] Biobase_2.31.3                                    
[19] BiocGenerics_0.17.3                               

loaded via a namespace (and not attached):
 [1] genefilter_1.53.1        splines_3.3.0            beanplot_1.2            
 [4] rtracklayer_1.31.7       GenomicFeatures_1.23.23  XML_3.98-1.3            
 [7] survival_2.38-3          DBI_0.3.1                BiocParallel_1.5.17     
[10] RColorBrewer_1.1-2       registry_0.3             rngtools_1.2.4          
[13] doRNG_1.6                matrixStats_0.50.1       plyr_1.8.3              
[16] pkgmaker_0.22            stringr_1.0.0            zlibbioc_1.17.0         
[19] codetools_0.2-14         biomaRt_2.27.2           AnnotationDbi_1.33.7    
[22] illuminaio_0.13.1        preprocessCore_1.33.0    Rcpp_0.12.3             
[25] xtable_1.8-2             limma_3.27.12            base64_1.1              
[28] annotate_1.49.1          Rsamtools_1.23.3         stringi_1.0-1           
[31] nor1mix_1.2-1            grid_3.3.0               quadprog_1.5-5          
[34] GEOquery_2.37.0          tools_3.3.0              bitops_1.0-6            
[37] magrittr_1.5             siggenes_1.45.0          RCurl_1.95-4.7          
[40] RSQLite_1.0.0            MASS_7.3-45              reshape_0.8.5           
[43] mclust_5.1               GenomicAlignments_1.7.17 multtest_2.27.0         
[46] nlme_3.1-124            
> rm(list = ls())
> 
> proc.time()
   user  system elapsed 
 23.744   1.634  26.354 
