ctree and survival problem

On Thu, 28 Apr 2011, moleps wrote:

sessionInfo yields the following:

OK, the "Design" package causes the problem here. When you load the Design package, it provides a new Surv() and related methods. This clashes with the computations of ctree() based on Surv(). So it's better not to load both packages simultaneously...
Z

sessionInfo()

R version 2.11.1 (2010-05-31)
x86_64-apple-darwin9.8.0

locale:
[1] en_US.UTF-8/en_US.UTF-8/C/C/en_US.UTF-8/en_US.UTF-8

attached base packages:
[1] stats4    tcltk     splines   grid      stats     graphics  grDevices utils     datasets  methods   base

other attached packages:
[1] ipred_0.8-8        class_7.3-3        mlbench_2.1-0      rpart_3.1-46       party_0.9-99991    vcd_1.2-9          colorspace_1.0-1   strucchange_1.4-3  coin_1.0-18        mvtnorm_0.9-95
[11] modeltools_0.2-17  Design_2.3-0       car_2.0-8          nnet_7.3-1         sandwich_2.2-6     boot_1.2-43        Amelia_1.2-18      lmtest_0.9-27      zoo_1.6-4          MASS_7.3-7
[21] mgcv_1.7-2         cem_1.0.142        randomForest_4.6-2 lattice_0.19-17    nlme_3.1-97        rgl_0.92.798       Hmisc_3.8-3        survival_2.36-2    ggplot2_0.8.9      proto_0.3-8
[31] reshape_0.8.3      plyr_1.4           foreign_0.8-41

loaded via a namespace (and not attached):
[1] cluster_1.13.2     digest_0.4.2       Matrix_0.999375-46 tools_2.11.1


As i described in the original post I ran

example(ctree)

and the following part yields an error:


if (require("ipred")) {
      data("GBSG2", package = "ipred")
      GBSG2ct <- ctree(Surv(time, cens) ~ .,data = GBSG2)
      plot(GBSG2ct)
      treeresponse(GBSG2ct, newdata = GBSG2[1:2,])
  }

Error in Summary.Surv(c(1814, 2018, 712, 1807, 772, 448, 2172, 2161, 471,  :
Invalid operation on a survival time


//M





On 28. apr. 2011, at 14.19, Jonathan Daily wrote:

It would help people who know more about R's guts than me if you
posted your sessionInfo() output and exactly what commands produced
your error.

It is also recommended that you try simply upgrading R to the latest
version and see if you get an error with the latest version of
'party'. My guess is that the error will go away.

On Wed, Apr 27, 2011 at 3:40 PM, moleps <moleps2 at gmail.com> wrote:

Forgot to mention that the ctree command is from the party library.
//M

--
===============================================
Jon Daily
Technician
===============================================
#!/usr/bin/env outside
# It's great, trust me.