Entering edit mode
Ido M. Tamir
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320
@ido-m-tamir-1268
Last seen 10.3 years ago
Hi,
I am getting errors from annaffy when I try to use it
on "mgu74av2", depending on what columns I request/exclude
or call the function a second time:
> anncols <- aaf.handler() #all!
> andiff <- aafTableAnn(probeTop, "mgu74av2", anncols )
Error in `parent.env<-`(`*tmp*`, value = NULL) :
use of NULL environment is defunct
> andiff <- aafTableAnn(probeTop, "mgu74av2", anncols )
Error in exists(num$GOID, GOTERM) : recursive default argument
reference
In an old post I found this could be because of conflicting package
versions.
I reinstalled mgu74av2 and annaffy but this did not help.
Thank you very much in advance,
ido
> sessionInfo()
R version 2.4.1 (2006-12-18)
x86_64-redhat-linux-gnu
attached base packages:
[1] "splines" "tools" "stats" "graphics" "grDevices"
"utils"
[7] "datasets" "methods" "base"
other attached packages:
annaffy KEGG GO mgu74av2 mgu74av2probe
"1.6.1" "1.10.0" "1.10.0" "1.14.0" "1.14.0"
mgu74av2cdf limma affyQCReport simpleaffy genefilter
"1.14.0" "2.9.1" "1.12.0" "2.8.0" "1.12.0"
survival plier gcrma matchprobes geneplotter
"2.30" "1.4.0" "2.6.0" "1.6.0" "1.12.0"
annotate affy affyio Biobase
"1.12.1" "1.12.2" "1.0.0" "1.12.2"