* using log directory ‘/data/gannet/ripley/R/packages/tests-devel/glmertree.Rcheck’
* using R Under development (unstable) (2025-02-28 r87843)
* using platform: x86_64-pc-linux-gnu
* R was compiled by
gcc (GCC) 14.2.1 20240912 (Red Hat 14.2.1-3)
GNU Fortran (GCC) 14.2.1 20240912 (Red Hat 14.2.1-3)
* running under: Fedora Linux 40 (Workstation Edition)
* using session charset: UTF-8
* using option ‘--no-stop-on-test-error’
* checking for file ‘glmertree/DESCRIPTION’ ... OK
* this is package ‘glmertree’ version ‘0.2-6’
* package encoding: UTF-8
* checking package namespace information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking if there is a namespace ... OK
* checking for executable files ... OK
* checking for hidden files and directories ... OK
* checking for portable file names ... OK
* checking for sufficient/correct file permissions ... OK
* checking whether package ‘glmertree’ can be installed ... [20s/52s] OK
See 'https://www.r-project.org/nosvn/R.check/r-devel-linux-x86_64-fedora-gcc/glmertree-00install.html' for details.
* checking package directory ... OK
* checking ‘build’ directory ... OK
* checking DESCRIPTION meta-information ... OK
* checking top-level files ... OK
* checking for left-over files ... OK
* checking index information ... OK
* checking package subdirectories ... OK
* checking code files for non-ASCII characters ... OK
* checking R files for syntax errors ... OK
* checking whether the package can be loaded ... [4s/14s] OK
* checking whether the package can be loaded with stated dependencies ... OK
* checking whether the package can be unloaded cleanly ... OK
* checking whether the namespace can be loaded with stated dependencies ... OK
* checking whether the namespace can be unloaded cleanly ... [4s/11s] OK
* checking loading without being on the library search path ... OK
* checking use of S3 registration ... OK
* checking dependencies in R code ... OK
* checking S3 generic/method consistency ... OK
* checking replacement functions ... OK
* checking foreign function calls ... OK
* checking R code for possible problems ... [31s/85s] OK
* checking Rd files ... OK
* checking Rd metadata ... OK
* checking Rd line widths ... OK
* checking Rd cross-references ... OK
* checking for missing documentation entries ... OK
* checking for code/documentation mismatches ... OK
* checking Rd \usage sections ... OK
* checking Rd contents ... OK
* checking for unstated dependencies in examples ... OK
* checking contents of ‘data’ directory ... OK
* checking data for non-ASCII characters ... OK
* checking LazyData ... OK
* checking data for ASCII and uncompressed saves ... OK
* checking sizes of PDF files under ‘inst/doc’ ... OK
* checking installed files from ‘inst/doc’ ... OK
* checking files in ‘vignettes’ ... OK
* checking examples ... [4s/10s] OK
* checking for unstated dependencies in ‘tests’ ... OK
* checking tests ... [5s/13s] ERROR
Running ‘test_glmertree.R’ [4s/12s]
Running the tests in ‘tests/test_glmertree.R’ failed.
Complete output:
> library("glmertree")
Loading required package: lme4
Loading required package: Matrix
Loading required package: partykit
Loading required package: grid
Loading required package: libcoin
Loading required package: mvtnorm
> options(width = 70, prompt = "R> ", continue = "+ ", digits = 4)
R>
R> data("DepressionDemo", package = "glmertree")
R> summary(DepressionDemo)
depression treatment cluster age
Min. : 3.00 Treatment 1:78 1 :15 Min. :18
1st Qu.: 7.00 Treatment 2:72 2 :15 1st Qu.:39
Median : 9.00 3 :15 Median :45
Mean : 9.12 4 :15 Mean :45
3rd Qu.:11.00 5 :15 3rd Qu.:52
Max. :16.00 6 :15 Max. :69
(Other):60
anxiety duration depression_bin
Min. : 3.0 Min. : 1.00 0:78
1st Qu.: 8.0 1st Qu.: 5.00 1:72
Median :10.0 Median : 7.00
Mean :10.3 Mean : 6.97
3rd Qu.:12.0 3rd Qu.: 9.00
Max. :18.0 Max. :17.00
R>
R> lmm_tree <- lmertree(depression ~ treatment | cluster | age + duration + anxiety,
+ data = DepressionDemo)
Error in if (continue & (abs(newloglik - oldloglik[2]) < abstol)) { :
missing value where TRUE/FALSE needed
Calls: lmertree
In addition: Warning messages:
1: In optwrap(optimizer, devfun, getStart(start, rho$pp), lower = rho$lower, :
convergence code -2 from nloptwrap: NLOPT_INVALID_ARGS: Invalid arguments (e.g. lower bounds are bigger than upper bounds, an unknown algorithm was specified, etcetera).
2: In checkConv(attr(opt, "derivs"), opt$par, ctrl = control$checkConv, :
Model failed to converge with max|grad| = 2.14658 (tol = 0.002, component 1)
Execution halted
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes ... OK
* checking re-building of vignette outputs ... [19s/50s] ERROR
Error(s) in re-building vignettes:
--- re-building ‘glmertree.Rnw’ using Sweave
Loading required package: lme4
Loading required package: Matrix
Loading required package: partykit
Loading required package: grid
Loading required package: libcoin
Loading required package: mvtnorm
Warning in optwrap(optimizer, devfun, getStart(start, rho$pp), lower = rho$lower, :
convergence code -2 from nloptwrap: NLOPT_INVALID_ARGS: Invalid arguments (e.g. lower bounds are bigger than upper bounds, an unknown algorithm was specified, etcetera).
Warning in checkConv(attr(opt, "derivs"), opt$par, ctrl = control$checkConv, :
Model failed to converge with max|grad| = 0.754457 (tol = 0.002, component 1)
Error: processing vignette 'glmertree.Rnw' failed with diagnostics:
chunk 6
Error in if (continue & (abs(newloglik - oldloglik[2]) < abstol)) { :
missing value where TRUE/FALSE needed
--- failed re-building ‘glmertree.Rnw’
SUMMARY: processing the following file failed:
‘glmertree.Rnw’
Error: Vignette re-building failed.
Execution halted
* checking PDF version of manual ... [8s/18s] OK
* checking HTML version of manual ... OK
* checking for non-standard things in the check directory ... OK
* checking for detritus in the temp directory ... OK
* DONE
Status: 2 ERRORs