similar to: Drawing a tree in R

Hi, i have several domains running on a 2-node HA-cluster. Each night i create snapshots of the domains, after copying the consistent raw file to a CIFS server i blockcommit the changes into the raw files. That's running quite well. But recent the blockcommit didn't work for one domain: I create a logfile from the whole procedure:

Dear all, I'm using the "ape" package in R and want to draw a phylogenetic tree with not only the tip labels but also some labels for the edges. e.g. Mark the edge AB as "m" in the tree ABC. Couldn't find a way to do that. Can someone help? Thanks, Hua

On Thu, Jun 13, 2019 at 16:01:18 +0200, Lentes, Bernd wrote: > > ----- On Jun 13, 2019, at 1:08 PM, Bernd Lentes bernd.lentes@helmholtz-muenchen.de wrote: > > I found further information in /var/log/messages for both occurrences: > > 2019-06-01T03:05:31.620725+02:00 ha-idg-2 systemd-coredump[14253]: Core Dumping has been disabled for process 30590 (qemu-system-x86). >

I have the following code (which I did not write) that generates data based on a logistic model.? I'm only getting a single record with y=1.? It seems implausible that in 50k cases that have a single y=1.? Does that ring alarm bells for anyone else? ? beta<-c(-1.585600,-0.246900) betasize<-length(beta) meanpred<-c(0,35.900000) varpred<-c(0,1.000000) #loop code

Hello all, For the last couple of days I was trying to get my Apache/mod_proxy/mongrel setup to limit the size of the request body. The setup is as follows: 1.) Apache acts as a reverse proxy by facilitating mod_rewrite and mod_proxy 2.) Requests for non-static files are passed on to a mongrel_cluster 3.) We use mongrel for our Ruby on Rails application Note that due to some restrictions we are

----- On Jun 13, 2019, at 9:56 AM, Peter Krempa pkrempa@redhat.com wrote: > > Thanks for comming back to me with the information. > > Unfortunately this is not a full debug log but I can try to tell you > what I see here: I configured libvirtd that way: ha-idg-1:~ # grep -Ev '^$|#' /etc/libvirt/libvirtd.conf log_level = 1 log_filters="1:qemu 3:remote 4:event

----- On Jun 5, 2019, at 4:49 PM, Peter Krempa pkrempa@redhat.com wrote: > On Wed, Jun 05, 2019 at 13:33:49 +0200, Lentes, Bernd wrote: >> Hi Peter, >> >> thanks for your help. >> >> ----- On Jun 5, 2019, at 9:27 AM, Peter Krempa pkrempa@redhat.com wrote: > > [...] > >> >> > >> > So that's interresting. Usually assertion

Hello, I´m trying to map one network interface of a Dual-Port e1000 Server Adapter to a DomU (firewall). In Dom0 the adaper is seen with lspci as: 06:00.0 Ethernet controller: Intel Corporation 631xESB/632xESB DPT LAN Controller Copper (rev 01) 06:00.1 Ethernet controller: Intel Corporation 631xESB/632xESB DPT LAN Controller Copper (rev 01) My goal is to map only 06:00.1 to DomU so I used this

On Tue, Jun 04, 2019 at 14:44:29 +0200, Lentes, Bernd wrote: > Hi, Hi, > > i have several domains running on a 2-node HA-cluster. > Each night i create snapshots of the domains, after copying the consistent raw file to a CIFS server i blockcommit the changes into the raw files. > That's running quite well. > But recent the blockcommit didn't work for one domain: >

Dear all, I don't understand the following behaviour: Running compar.gee (in library ape ) with and without the option 'data', it give me different results Example: .... Start R .... > load("eiber.RData") > ls() [1] "gee.na" "mydata" "mytree" > library(ape) > # runnig with the option data= mydata > compar.gee(alt ~ R,

Having a problem running the ace command in ape. After reading my table into R and then putting the names of the rows in the table in same order as the tree I can't get ace to run and get the message Erreur dans as.matrix(x) : dims [produit 25] ne correspond pas ? la longueur de l'objet [0] This is the command I am using and each of the vectors used in the snalysis.

Let's say I would like to look inside the function corBrownian in library (ape). When I type in the function name I get the following, which is not nearly the detail that goes into this function. I am wondering how to begin cracking this function open (and others) so I can learn more about it and perhaps code my own corClass one day. Thanks. > corBrownian function (value = 1, phy, form

Hi all, I seem to be having a difficult time using the 'ape' package in R when it comes to rooting trees. Here's a short screenshot: > nirK.tree Phylogenetic tree with 23 tips and 21 internal nodes. Tip labels: Burkholder, Burkholde3, Burkholde1, Burkholde4, Burkholde5, Ralstonia2, ... Node labels: , 100, 100, 100, 70, 91,... Unooted; includes branch lengths. >

Hi, Using Ape, I have constructed an object of class "phylo", using the method 'nj' (lets call the object 'tree_ja'). I also have a given subset of 'tree_ja' in a vector (lets call the vector 'subspecies'). What I want to do, is construct a nj tree - plot(tree_ja) - but have the species in vector 'subspecies' shown as red at the tips of the

Hi Peter, thanks for your help. ----- On Jun 5, 2019, at 9:27 AM, Peter Krempa pkrempa@redhat.com wrote: >> ============================================================= >> ... >> 2019-05-31 20:31:34.481+0000: 4170: error : qemuMonitorIO:719 : internal error: >> End of file from qemu monitor >> 2019-06-01 01:05:32.233+0000: 4170: error : qemuMonitorIO:719 :

----- On Jun 13, 2019, at 1:08 PM, Bernd Lentes bernd.lentes@helmholtz-muenchen.de wrote: I found further information in /var/log/messages for both occurrences: 2019-06-01T03:05:31.620725+02:00 ha-idg-2 systemd-coredump[14253]: Core Dumping has been disabled for process 30590 (qemu-system-x86). 2019-06-01T03:05:31.712673+02:00 ha-idg-2 systemd-coredump[14253]: Process 30590 (qemu-system-x86) of

Hello, My name is Sivan and I am a master degree student in statistics,my problem is as follows: I have a dataset containing gene sequences and I would like to create a phylogenetic tree from it. The problem that I can't seem to find a function to do this kind of operation. I read the ape package manual and I haven't found a command that takes raw data and turns it into a tree. does anyone

Hi, I'm trying to build a mixed-effects model in which I'd like to include either a distance matrix or a phylogenetic tree as a random effect. The troubles I've had are that: 1. Function lmer() in package lme4 only accepts a data frame column as a random factor and not a distance matrix. 2. Function MCMCglmm() in package MCMCglmm only accepts a rooted and ultrametric phylogenetic

Dear moderator, If possible I would like to send in the following question for R-help: I am analyzing a small data set using PGLS with phylogenetic uncertainty taken into account and thereby including 100 potential phylogenetic tree scenarios. I've managed to run models on all of the different trees and performed model averaging to get parameter estimates for the intercept and most of the

Hi I am looking for a package that 1. reads in a phylogenetic tree in NEXUS format 2. given two members/nodes on the tree, can return the distance between the two using the tree. I came across the following packages on CRAN ouch, ape, apTreeShape, phylgr all of which seem to provide extensive range of functions for reading in a Nexus-format tree and performing phylogenetic analyses, tree