• using R Under development (unstable) (2025-02-28 r87848)
• using platform: x86_64-pc-linux-gnu
• R was compiled by     clang version 20.1.0-rc3     flang version 20.1.0-rc3
• running under: Fedora Linux 40 (Workstation Edition)
• using session charset: UTF-8
• using option ‘--no-stop-on-test-error’
• checking for file ‘FREEtree/DESCRIPTION’ ... OK
• checking extension type ... Package
• this is package ‘FREEtree’ version ‘0.1.0’
• 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 ‘FREEtree’ can be installed ... [49s/129s] OK See the install log for details.
• checking installed package size ... OK
• checking package 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 ... [16s/53s] OK
• checking whether the package can be loaded with stated dependencies ... [13s/17s] OK
• checking whether the package can be unloaded cleanly ... [14s/36s] OK
• checking whether the namespace can be loaded with stated dependencies ... [14s/47s] OK
• checking whether the namespace can be unloaded cleanly ... [15s/26s] OK
• checking loading without being on the library search path ... [15s/31s] OK
• checking use of S3 registration ... OK
• checking dependencies in R code ... NOTE Namespace in Imports field not imported from: ‘MASS’   All declared Imports should be used.
• checking S3 generic/method consistency ... OK
• checking replacement functions ... OK
• checking foreign function calls ... OK
• checking R code for possible problems ... [63s/96s] 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 examples ... [29s/36s] ERROR Running examples in ‘FREEtree-Ex.R’ failed The error most likely occurred in: > ### Name: FREEtree > ### Title: Initial FREEtree call which then calls actual FREEtree methods > ### depending on parameters being passed through. > ### Aliases: FREEtree > > ### ** Examples > > #locate example data file > dataf <- system.file("data/data.RData", package="FREEtree") > mytree = FREEtree(data,fixed_regress=c("time","time2"), fixed_split=c("treatment"), + var_select=paste("V",1:200,sep=""), minModuleSize = 5, + cluster="patient", Fuzzy=TRUE, maxdepth_factor_select = 0.5, + maxdepth_factor_screen = 0.04, minsize_multiplier = 5, + alpha_screen = 0.2, alpha_select=0.2,alpha_predict=0.05) Use FREEtree_time 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, :   unable to evaluate scaled gradient Warning in checkConv(attr(opt, "derivs"), opt$par, ctrl = control$checkConv, :   Model failed to converge: degenerate Hessian with 1 negative eigenvalues Error in if (continue & (abs(newloglik - oldloglik[2]) < abstol)) { :   missing value where TRUE/FALSE needed Calls: FREEtree -> FREEtree_time -> lmertree Execution halted
• checking for unstated dependencies in ‘tests’ ... OK
• checking tests ... [45s/71s] ERROR   Running ‘testthat.R’ [45s/71s] Running the tests in ‘tests/testthat.R’ failed. Complete output:   > library(testthat)   > library(FREEtree)      >   > test_check("FREEtree")   [ FAIL 2 | WARN 4 | SKIP 0 | PASS 0 ]      ══ Failed tests ════════════════════════════════════════════════════════════════   ── Error ('test_FREEtree.R:113:3'): FREEtree_time a5 estimation ────────────────   Error in `if (continue & (abs(newloglik - oldloglik[2]) < abstol)) {       if (newloglik > oldloglik[1])           continue <- FALSE   }`: missing value where TRUE/FALSE needed   Backtrace:       ▆    1. └─FREEtree::FREEtree(...) at test_FREEtree.R:113:3    2. └─FREEtree:::FREEtree_time(...)    3. └─glmertree::lmertree(...)   ── Error ('test_FREEtree.R:230:3'): FREEtree_PC a0 estimation ──────────────────   Error in `if (continue & (abs(newloglik - oldloglik[2]) < abstol)) {       if (newloglik > oldloglik[1])           continue <- FALSE   }`: missing value where TRUE/FALSE needed   Backtrace:       ▆    1. └─FREEtree::FREEtree(...) at test_FREEtree.R:230:3    2. └─FREEtree:::FREEtree_PC(...)    3. └─glmertree::lmertree(...)      [ FAIL 2 | WARN 4 | SKIP 0 | PASS 0 ]   Error: Test failures   Execution halted
• checking PDF version of manual ... [7s/10s] 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, 1 NOTE