Re: [R] Error: C stack usage 15924320 is too close to the limit
You may need to use smaller data. Anyway, read the Posting Guide, which says
for contributed packages to contact the package maintainer
?maintainer
On May 28, 2021 11:55:04 AM PDT, Gossaye Hailu wrote:
>I am doing phylogenetic analysis of ecological community data set using
>Picante package to find out PD, MPD, MNTD
>I have run the following arguments
>library(picante)
>>tree4.phylotree<-read.tree("phylojune2016.edit.phy")
>>tree4.phy<-read.csv("june2016.matrix.csv",sep=",",header =
>TRUE,row.names
>= 1)
>>tree4.out<-pd(tree4.phy,tree4.phylotree,include.root = FALSE)
>>tree4.out[,3]<-mpd(tree4.phy,cophenetic(tree4.phylotree))
>>tree4.out[,4]<-mntd(tree4.phy,cophenetic(tree4.phylotree))
>>names(tree4.out)[3:4]<-c("MPD","MNTD")
>
>When I randomize the matrix 999 times the following Error term appears
>>tree4.mpd<-ses.mpd(tree4.phy,cophenetic(tree4.phylotree),runs = 999)
>
>Error: C stack usage 15923904 is too close to the limit
>
>How can I solve this error please? I will highly appreciate your help!
>
> [[alternative HTML version deleted]]
>
>__
>R-help@r-project.org mailing list -- To UNSUBSCRIBE and more, see
>https://stat.ethz.ch/mailman/listinfo/r-help
>PLEASE do read the posting guide
>http://www.R-project.org/posting-guide.html
>and provide commented, minimal, self-contained, reproducible code.
--
Sent from my phone. Please excuse my brevity.
__
R-help@r-project.org mailing list -- To UNSUBSCRIBE and more, see
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PLEASE do read the posting guide http://www.R-project.org/posting-guide.html
and provide commented, minimal, self-contained, reproducible code.
Re: [R] Error: C stack usage 15924320 is too close to the limit
Please see the posting guide linked below. Questions about nonstandard
packages are generally off topic here. You should probably do as the pg
recommends and contact the maintainer, who you can find by the maintainer()
function.
Bert
On Sat, May 29, 2021, 10:16 AM Gossaye Hailu wrote:
> I am doing phylogenetic analysis of ecological community data set using
> Picante package to find out PD, MPD, MNTD
> I have run the following arguments
> library(picante)
> >tree4.phylotree<-read.tree("phylojune2016.edit.phy")
> >tree4.phy<-read.csv("june2016.matrix.csv",sep=",",header = TRUE,row.names
> = 1)
> >tree4.out<-pd(tree4.phy,tree4.phylotree,include.root = FALSE)
> >tree4.out[,3]<-mpd(tree4.phy,cophenetic(tree4.phylotree))
> >tree4.out[,4]<-mntd(tree4.phy,cophenetic(tree4.phylotree))
> >names(tree4.out)[3:4]<-c("MPD","MNTD")
>
> When I randomize the matrix 999 times the following Error term appears
> >tree4.mpd<-ses.mpd(tree4.phy,cophenetic(tree4.phylotree),runs = 999)
>
> Error: C stack usage 15923904 is too close to the limit
>
> How can I solve this error please? I will highly appreciate your help!
>
> [[alternative HTML version deleted]]
>
> __
> R-help@r-project.org mailing list -- To UNSUBSCRIBE and more, see
> https://stat.ethz.ch/mailman/listinfo/r-help
> PLEASE do read the posting guide
> http://www.R-project.org/posting-guide.html
> and provide commented, minimal, self-contained, reproducible code.
>
[[alternative HTML version deleted]]
__
R-help@r-project.org mailing list -- To UNSUBSCRIBE and more, see
https://stat.ethz.ch/mailman/listinfo/r-help
PLEASE do read the posting guide http://www.R-project.org/posting-guide.html
and provide commented, minimal, self-contained, reproducible code.
[R] Error: C stack usage 15924320 is too close to the limit
I am doing phylogenetic analysis of ecological community data set using
Picante package to find out PD, MPD, MNTD
I have run the following arguments
library(picante)
>tree4.phylotree<-read.tree("phylojune2016.edit.phy")
>tree4.phy<-read.csv("june2016.matrix.csv",sep=",",header = TRUE,row.names
= 1)
>tree4.out<-pd(tree4.phy,tree4.phylotree,include.root = FALSE)
>tree4.out[,3]<-mpd(tree4.phy,cophenetic(tree4.phylotree))
>tree4.out[,4]<-mntd(tree4.phy,cophenetic(tree4.phylotree))
>names(tree4.out)[3:4]<-c("MPD","MNTD")
When I randomize the matrix 999 times the following Error term appears
>tree4.mpd<-ses.mpd(tree4.phy,cophenetic(tree4.phylotree),runs = 999)
Error: C stack usage 15923904 is too close to the limit
How can I solve this error please? I will highly appreciate your help!
[[alternative HTML version deleted]]
__
R-help@r-project.org mailing list -- To UNSUBSCRIBE and more, see
https://stat.ethz.ch/mailman/listinfo/r-help
PLEASE do read the posting guide http://www.R-project.org/posting-guide.html
and provide commented, minimal, self-contained, reproducible code.
