Hi all,

I have successfully installed "MotifDb" package,but failed to load it, and got the following error message. After a while searching, It may be caused by some R package that not updated to the newest version. However, I have upgraded all the packages.

Thank you!

=====================

> library(MotifDb)
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, which, which.max, which.min

Loading required package: S4Vectors
Loading required package: stats4

Attaching package: ‘S4Vectors’

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

    colMeans, colSums, expand.grid, rowMeans, rowSums

Loading required package: IRanges
Loading required package: Biostrings
Loading required package: XVector
Error : .onLoad failed in loadNamespace() for 'MotifDb', details:
  call: c(values, x)
  error: could not find symbol "recursive" in environment of the generic function
Error: package or namespace load failed for ‘MotifDb’

> sessionInfo()
R version 3.3.3 (2017-03-06)
Platform: x86_64-w64-mingw32/x64 (64-bit)
Running under: Windows 7 x64 (build 7601) Service Pack 1

locale:
[1] LC_COLLATE=Chinese (Simplified)_People's Republic of China.936 
[2] LC_CTYPE=Chinese (Simplified)_People's Republic of China.936   
[3] LC_MONETARY=Chinese (Simplified)_People's Republic of China.936
[4] LC_NUMERIC=C                                                   
[5] LC_TIME=Chinese (Simplified)_People's Republic of China.936    

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

other attached packages:
[1] rJava_0.9-8          Biostrings_2.42.1    XVector_0.14.0       IRanges_2.8.1       
[5] S4Vectors_0.12.1     BiocGenerics_0.20.0  BiocInstaller_1.24.0

loaded via a namespace (and not attached):
 [1] GenomicRanges_1.26.3       zlibbioc_1.20.0            GenomicAlignments_1.10.0  
 [4] BiocParallel_1.8.1         lattice_0.20-34            GenomeInfoDb_1.10.3       
 [7] tools_3.3.3                SummarizedExperiment_1.4.0 grid_3.3.3                
[10] Biobase_2.34.0             Matrix_1.2-8               rtracklayer_1.34.2        
[13] bitops_1.0-6               RCurl_1.95-4.8             Rsamtools_1.26.1          
[16] XML_3.98-1.5     

Pengcheng Yang,

Sorry you encountered trouble with MotifDb.  

The same error, with a solution proposed, is reported here:  Error in GRanges: could not find symbol "recursive" in environment of the generic function

Could you give that a try?

 - Paul