Question

error with many packages: "Error : .onLoad failed in loadNamespace() for 'org.Hs.eg.db'"

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warren.anderson • 0

@warrenanderson-7158

Last seen 8.5 years ago

European Union

I am getting the following error with several packages including org.Hs.eg.db and topGO:

Error : .onLoad failed in loadNamespace() for 'org.Hs.eg.db', details:
call: match.arg(synchronous, c("off", "normal", "full"))
error: 'arg' must be NULL or a character vector
Error: loading failed
Execution halted
ERROR: loading failed
* removing ‘/home/warren/R/i686-pc-linux-gnu-library/3.0/org.Hs.eg.db’

I am using a 32 bit ubuntu 14.04 LTS system with R 3.0.2. I am new to R and newer to Linux, so detail would be greatly appreciated.

software error org.hs.eg.db • 5.7k views

ADD COMMENT • link updated 9.4 years ago by Martin Morgan 25k • written 9.4 years ago by warren.anderson • 0

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It would be good to update your R to the latest release (3.1.2), which will also get you the latest Bioc (3.0) and likely also fix these problems.

ADD REPLY • link 9.4 years ago Laurent Gatto 1.6k

score 3 · Accepted Answer · 2014-12-13

The problem is that the RSQLite package has changed. As a Linux user, your solutions are to either update to a current version of R / Bioconductor (I believe for your version of R you can follow the 'Upgrade Installed Bioconductor packages" on that page) or to install the previous version of RSQLite by downloading the RSQLite_0.11.4.tar.gz tar ball and installing it via install.packages("RSQLite_0.11.4.tar.gz", repos=NULL). The easiest route for Mac and Windows users is unfortunately to update to the current version of R / Bioconductor.