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jmonlong / PopSV

Population-based detection of structural variation from High-Throughput Sequencing.
http://jmonlong.github.io/PopSV/
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Problem installing dependencies #9

Closed Addicted-to-coding closed 6 years ago

Addicted-to-coding commented 6 years ago

When I try to install the Bioconductor packages with the command source("http://bioconductor.org/biocLite.R") biocLite("BSgenome.Hsapiens.UCSC.hg19", "Rsamtools", "DNAcopy", "rtracklayer") I get the error: Error in !suppressAutoUpdate : invalid argument type

How can I solve this?

jmonlong commented 6 years ago

Oh you're right, it seems that this syntax doesn't work anymore. Please use this instead:

 biocLite(c("BSgenome.Hsapiens.UCSC.hg19", "Rsamtools", "DNAcopy", "rtracklayer"))

I'll update the documentation, thanks for raising the issue.

Addicted-to-coding commented 6 years ago

Thanks a lot for the prompt response, it works now!