Dear Lan,
When reporting a possible bug in an R package, the minimum information that is
usually reported is the version numbers of R and the package (using
sessionInfo) and the code leading up to the error. You haven't provided any of
that information, so I hope you don't mind if I take a wild guess at what is
happening.
If you look at the package description for the current release of limma, you
will see that it depends on R 3.6.0 or higher. If you use the recommended
installation procedures for Bioconductor packages, you will always get the
right version of limma for the right version of R.
I am guessing that, instead of using the Bioconductor installation procedures,
you have instead copied code from the current version of limma and have tried
to run it in an older version of R (R 3.5.X or earlier).
I recommend that you install the current version of R and install limma by
library(BiocManager)
install("limma")
Then everything will work correctly.
Best wishes
Gordon
------------------------------------------
Professor Gordon K Smyth
Joint Head, Bioinformatics Division
Walter and Eliza Hall Institute of Medical Research
From: Lan Huong Nguyen <lanhu...@stanford.edu>
Sent: Wednesday, 19 June 2019 1:57 AM
To: bioc-devel@r-project.org; Gordon K Smyth <sm...@wehi.edu.au>
Subject: Error for voom() in limma package
Hi,
I am having an issue with running voom function. I believe it is caused be the
line 73 in the voom.R file.
f <- approxfun(l, rule = 2, ties = list("ordered", mean))
The third argument causes the following error:
Error in get(as.character(FUN), mode = "function", envir = envir) :
object 'ties' of mode 'function' was not found
Please let me know how the issue can be addressed.
Best,
Lan
--
Lan Huong Nguyen
PhD Candidate
ICME Stanford University
Huang Building 475 Via Ortega,
Stanford, CA 94305
(650)
723-2560<https://www.google.com/search?q=icme&oq=icme&aqs=chrome..69i57j69i60j69i65l3j69i60.1858j0j7&sourceid=chrome&ie=UTF-8>
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