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Question: edgeR reinstall failure: edgeR.rdb' is corrupt
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gravatar for afreedman405
11 months ago by
Harvard University, Cambridge, Massachusetts, USA
afreedman4050 wrote:

Running R ver. 3.4.0, after generating an error message with an edgeR load, I updated bioconductor and then re-installed, i.e. via biocLite("edgeR")

library(edgeR) produced the following error:

Error: package or namespace load failed for ‘edgeR’ in get(Info[i, 1], envir = env):
 lazy-load database '/Users/adamfreedman/Library/R/3.4/library/edgeR/R/edgeR.rdb' is corrupt
In addition: Warning message:
In get(Info[i, 1], envir = env) : internal error -3 in R_decompress1

I cleared out the edgeR dir and tried it again .... same result.

ideas as to what's going on here?

 

ADD COMMENTlink modified 11 months ago by Aaron Lun19k • written 11 months ago by afreedman4050
1
gravatar for Aaron Lun
11 months ago by
Aaron Lun19k
Cambridge, United Kingdom
Aaron Lun19k wrote:

This usually happens to me when I try to install a package (e.g., via the command line, or with a separate R session) that's being used in a current R session. To fix this, I would restart the R session completely and run biocLite("edgeR"). If that doesn't work, try running remove.packages("edgeR") beforehand. But whatever you do, don't manually change the contents of the installation directory.

ADD COMMENTlink modified 11 months ago • written 11 months ago by Aaron Lun19k
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