Question

GoSeq error!

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Emanuela ▴ 10

@emanuela-5962

Last seen 10.4 years ago

Hi all, When creating pwf I encounter this type of message: > pwf <- nullp(genes, "hg19", "ensGene") Loading hg19 length data... Error in qr.R(qrx) : could not find symbol "..." in environment of the generic function I have tried to take a look into the matrix and it's basically composed of Ensembl IDs and 1-0 values accordingly to differentially and non differentially expressed genes. > sessionInfo() R version 2.15.2 (2012-10-26) Platform: x86_64-apple-darwin9.8.0/x86_64 (64-bit) locale: [1] en_US.UTF-8/en_US.UTF-8/en_US.UTF-8/C/en_US.UTF-8/en_US.UTF-8 Thanks!!! Emanuela

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ADD COMMENT • link updated 11.7 years ago by Nadia Davidson ▴ 320 • written 11.7 years ago by Emanuela ▴ 10

score 0 · Answer 1 · 2013-05-30

> Hi all, > > When creating pwf I encounter this type of message: > > pwf <- nullp(genes, "hg19", "ensGene") > Loading hg19 length data... > Error in qr.R(qrx) : > could not find symbol "..." in environment of the generic function > > I have tried to take a look into the matrix and it's basically composed of > Ensembl IDs and 1-0 values accordingly to differentially > and non differentially expressed genes. > > sessionInfo() > R version 2.15.2 (2012-10-26) > Platform: x86_64-apple-darwin9.8.0/x86_64 (64-bit) > locale: > [1] en_US.UTF-8/en_US.UTF-8/en_US.UTF-8/C/en_US.UTF-8/en_US.UTF-8 > > Thanks!!! > Emanuela > Hi Emanuela, A few other people have reported this same issue to me, but despite my best effort I have not been able to reproduce it. Some people have reported that it goes away if you upgrade to R versions 2.15.3 or 3, so if you can upgrade, I would suggest trying that. Let me know if this either does or doesn't help, or if you find out anything else about this error. Cheers, Nadia.