Question: ASpli package function plotGenomicRegions fails in windows
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gravatar for mgdrnl
3 months ago by
mgdrnl0
mgdrnl0 wrote:

Dear all

I am using the following function in ASpli package:

mm10 <- TxDb.Mmusculus.UCSC.mm10.knownGene
features <- binGenome(mm10)

targetssmall <- cbind(c( "257101.bam","258113.bam","259125.bam","260137.bam"),c("la", "la", "pi", "pi"))

colnames(targetssmall)[1] <-"bam" 
colnames(targetssmall)[2] <-"factor1"

plotGenomicRegions( features=features, x='13179:E001',  xIsBin = TRUE,  genomeTxDb=mm10, targets=targetssmall, mainFontSize = 12, annotationHeight = 0.1, useTransparency = TRUE, outfileType = 'pdf')

Error in FUN(X[[i]], ...) : failed to build index file: Z://home/mernal

This code works well in Ubuntu 18.04.2 LTS but it fails with Windows10. The error appears when generating the files in the 'tmp' dir, windows is not able to do it.

Any help is welcome!

aspli plotgenomicregions • 65 views
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