I am trying to perform enrichment Analysis on GBM datasets from TCGA. I have downloaded the datasets from TCGA using following code.

library(TCGAbiolinks)
query <- GDCquery(project = "TCGA-GBM",
                   data.category = "Transcriptome Profiling",
                  data.type = "Gene Expression Quantification")

GDCdownload(query)

data <- GDCprepare(query)

The data was downloaded successfully but when I try to normalize the data using following code

dataNorm <- TCGAanalyze_Normalization(tabDF = data , geneInfo = geneInfo)

Then following error comes 

Error in as.vector(x) : no method for coercing this S4 class to a vector
In addition: Warning messages:
1: In NSBS(i, x, exact = exact, upperBoundIsStrict = !allow.append) :
  subscript is an array, passing it thru as.vector() first
2: In NSBS(i, x, exact = exact, upperBoundIsStrict = !allow.append) :
  subscript is an array, passing it thru as.vector() first
3: In NSBS(i, x, exact = exact, upperBoundIsStrict = !allow.append) :
  subscript is an array, passing it thru as.vector() first
4: In NSBS(i, x, exact = exact, upperBoundIsStrict = !allow.append) :
  subscript is an array, passing it thru as.vector() first

Here is the sessioninfo()

> sessionInfo()

R version 3.3.1 (2016-06-21)
Platform: x86_64-pc-linux-gnu (64-bit)
Running under: Ubuntu 15.10

locale:
 [1] LC_CTYPE=en_US.UTF-8    LC_NUMERIC=C            LC_TIME=ur_PK           LC_COLLATE=en_US.UTF-8 
 [5] LC_MONETARY=ur_PK       LC_MESSAGES=en_US.UTF-8 LC_PAPER=ur_PK          LC_NAME=C              
 [9] LC_ADDRESS=C            LC_TELEPHONE=C          LC_MEASUREMENT=ur_PK    LC_IDENTIFICATION=C    

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

other attached packages:
 [1] Biostrings_2.40.2          XVector_0.12.1             devtools_1.12.0           
 [4] SummarizedExperiment_1.2.3 TCGAbiolinks_2.0.13        GenomicRanges_1.24.3      
 [7] GenomeInfoDb_1.8.7         IRanges_2.6.1              S4Vectors_0.10.3          
[10] Biobase_2.32.0             BiocGenerics_0.18.0       

loaded via a namespace (and not attached):
  [1] TH.data_1.0-7                           colorspace_1.3-0                       
  [3] rjson_0.2.15                            hwriter_1.3.2                          
  [5] class_7.3-14                            modeltools_0.2-21                      
  [7] mclust_5.2                              circlize_0.3.9                         
  [9] GlobalOptions_0.0.10                    parmigene_1.0.2                        
 [11] matlab_1.0.2                            hexbin_1.27.1                          
 [13] affyio_1.42.0                           ggrepel_0.6.5                          
 [15] flexmix_2.3-13                          AnnotationDbi_1.34.4                   
 [17] mvtnorm_1.0-5                           xml2_1.0.0                             
 [19] coin_1.1-3                              codetools_0.2-14                       
 [21] splines_3.3.1                           R.methodsS3_1.7.1                      
 [23] doParallel_1.0.10                       DESeq_1.24.0                           
 [25] robustbase_0.92-6                       knitr_1.15.1                           
 [27] geneplotter_1.50.0                      jsonlite_1.1                           
 [29] Rsamtools_1.24.0                        annotate_1.50.1                        
 [31] cluster_2.0.4                           kernlab_0.9-25                         
 [33] R.oo_1.21.0                             supraHex_1.10.0                        
 [35] graph_1.50.0                            readr_1.0.0                            
 [37] httr_1.2.1                              assertthat_0.1                         
 [39] Matrix_1.2-7.1                          lazyeval_0.2.0                         
 [41] TxDb.Hsapiens.UCSC.hg19.knownGene_3.2.2 limma_3.28.21                          
 [43] tools_3.3.1                             igraph_1.0.1                           
 [45] gtable_0.2.0                            affy_1.50.0                            
 [47] dplyr_0.5.0                             ggthemes_3.3.0                         
 [49] ShortRead_1.30.0                        Rcpp_0.12.7                            
 [51] trimcluster_0.1-2                       gdata_2.17.0                           
 [53] ape_3.5                                 preprocessCore_1.34.0                  
 [55] nlme_3.1-128                            rtracklayer_1.32.2                     
 [57] iterators_1.0.8                         fpc_2.1-10                             
 [59] stringr_1.1.0                           rvest_0.3.2                            
 [61] gtools_3.5.0                            XML_3.98-1.3                           
 [63] dendextend_1.3.0                        edgeR_3.14.0                           
 [65] DEoptimR_1.0-6                          zlibbioc_1.18.0                        
 [67] MASS_7.3-44                             zoo_1.7-14                             
 [69] scales_0.4.1                            aroma.light_3.2.0                      
 [71] BiocInstaller_1.22.3                    sandwich_2.3-4                         
 [73] RColorBrewer_1.1-2                      ComplexHeatmap_1.10.2                  
 [75] memoise_1.0.0                           ggplot2_2.2.0                          
 [77] downloader_0.4                          biomaRt_2.28.0                         
 [79] reshape_0.8.6                           latticeExtra_0.6-28                    
 [81] stringi_1.1.2                           RSQLite_1.0.0                          
 [83] genefilter_1.54.2                       foreach_1.4.3                          
 [85] GenomicFeatures_1.24.5                  caTools_1.17.1                         
 [87] BiocParallel_1.6.6                      shape_1.4.2                            
 [89] prabclus_2.2-6                          matrixStats_0.51.0                     
 [91] bitops_1.0-6                            dnet_1.0.9                             
 [93] lattice_0.20-34                         GenomicAlignments_1.8.4                
 [95] GGally_1.3.0                            plyr_1.8.4                             
 [97] magrittr_1.5                            R6_2.2.0                               
 [99] gplots_3.0.1                            multcomp_1.4-6                         
[101] DBI_0.5-1                               withr_1.0.2                            
[103] whisker_0.3-2                           survival_2.40-1                        
[105] RCurl_1.95-4.8                          nnet_7.3-12                            
[107] tibble_1.2                              EDASeq_2.6.2                           
[109] KernSmooth_2.23-15                      GetoptLong_0.1.5                       
[111] grid_3.3.1                              data.table_1.10.0                      
[113] Rgraphviz_2.16.0                        ConsensusClusterPlus_1.36.0            
[115] digest_0.6.10                           diptest_0.75-7                         
[117] xtable_1.8-2                            R.utils_2.5.0                          
[119] munsell_0.4.3