[BioC] unknown error in DiffBind package

Roberta Sanfilippo [guest] guest at bioconductor.org
Mon Apr 14 18:41:52 CEST 2014

I am using the DiffBind package to search for differences in histone modifications of ChIPseq peak data, I created a .csv files using sorted.bam files as both bamReads and Bamcontrol and bed files as Peaks column. I  tried to count reads using the dba.count function and changing the value minOverlap from 0 to 4, but every time I obtained:

 Error in if (res[i] == -1) { : missing value where TRUE/FALSE needed

WOuld you help me please? 

thank you


 -- output of sessionInfo(): 

R version 3.0.2 (2013-09-25)
Platform: x86_64-unknown-linux-gnu (64-bit)

 [1] LC_CTYPE=en_GB.UTF-8       LC_NUMERIC=C              
 [3] LC_TIME=en_GB.UTF-8        LC_COLLATE=en_GB.UTF-8    
 [7] LC_PAPER=en_GB.UTF-8       LC_NAME=C                 
 [9] LC_ADDRESS=C               LC_TELEPHONE=C            

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

other attached packages:
[1] DiffBind_1.8.4       GenomicRanges_1.14.4 XVector_0.2.0       
[4] IRanges_1.20.7       BiocGenerics_0.8.0  

loaded via a namespace (and not attached):
 [1] amap_0.8-12        bitops_1.0-6       caTools_1.16       edgeR_3.4.2       
 [5] gdata_2.13.2       gplots_2.12.1      gtools_3.3.1       KernSmooth_2.23-10
 [9] limma_3.18.9       RColorBrewer_1.0-5 stats4_3.0.2       tools_3.0.2       
[13] zlibbioc_1.8.0    

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