• using R version 3.5.0 (2018-04-23)
• using platform: x86_64-pc-linux-gnu (64-bit)
• using session charset: UTF-8
• checking for file ‘IBHM/DESCRIPTION’ ... OK
• checking extension type ... Package
• this is package ‘IBHM’ version ‘1.1-11’
• 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 serialization versions ... OK
• checking whether package ‘IBHM’ can be installed ... 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 R files for non-ASCII characters ... OK
• checking R files for syntax errors ... OK
• checking whether the package can be loaded ... 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 ... OK
• checking loading without being on the library search path ... OK
• checking use of S3 registration ... OK
• checking dependencies in R code ... NOTE
  Package in Depends field not imported from: ‘compiler’
    These packages need to be imported from (in the NAMESPACE file)
    for when this namespace is loaded but not attached.
• checking S3 generic/method consistency ... NOTE
  Found the following apparent S3 methods exported but not registered:
    length.IBHM predict.IBHM print.summary.IBHM summary.IBHM
  See section ‘Registering S3 methods’ in the ‘Writing R Extensions’
  manual.
• checking replacement functions ... OK
• checking foreign function calls ... OK
• checking R code for possible problems ... [6s/8s] NOTE
  ConfigureIBHM : <anonymous>: no visible global function definition for
    ‘dnorm’
  FindActiv: no visible global function definition for ‘sd’
  OptimizeActivCMAES: no visible global function definition for ‘runif’
  OptimizeActivNM: no visible global function definition for ‘optim’
  OptimizeActivNM: no visible global function definition for ‘runif’
  OptimizeAllParams : goal: no visible global function definition for
    ‘relist’
  OptimizeAllParams: no visible global function definition for ‘optim’
  OptimizeAllParams: no visible global function definition for ‘relist’
  OptimizeAllWeights: no visible global function definition for ‘optim’
  OptimizeScalCMAES: no visible global function definition for ‘runif’
  OptimizeScalNM: no visible global function definition for ‘optim’
  OptimizeScalNM: no visible global function definition for ‘runif’
  OptimizeWeights: no visible global function definition for ‘optim’
  TrainIBHM: no visible global function definition for ‘enableJIT’
  ValidationSC : <anonymous>: no visible global function definition for
    ‘predict’
  group.by.samplesPerDim: no visible global function definition for ‘sd’
  summary.IBHM: no visible global function definition for ‘predict’
  summary.IBHM: no visible global function definition for ‘sd’
  summary.IBHM: no visible global function definition for ‘cor’
  Undefined global functions or variables:
    cor dnorm enableJIT optim predict relist runif sd
  Consider adding
    importFrom("stats", "cor", "dnorm", "optim", "predict", "runif", "sd")
    importFrom("utils", "relist")
  to your NAMESPACE file.
• 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 line endings in C/C++/Fortran sources/headers ... OK
• checking line endings in Makefiles ... OK
• checking compilation flags in Makevars ... OK
• checking for GNU extensions in Makefiles ... OK
• checking for portable use of $(BLAS_LIBS) and $(LAPACK_LIBS) ... OK
• checking pragmas in C/C++ headers and code ... OK
• checking compilation flags used ... OK
• checking compiled code ... NOTE
  File ‘IBHM/libs/IBHM.so’:
    Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’
  
  It is good practice to register native routines and to disable symbol
  search.
  
  See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
• checking examples ... ERROR
  Running examples in ‘IBHM-Ex.R’ failed
  The error most likely occurred in:
  
  > base::assign(".ptime", proc.time(), pos = "CheckExEnv")
  > ### Name: ConfigureIBHM
  > ### Title: ConfigureIBHM
  > ### Aliases: ConfigureIBHM
  > ### Keywords: ~models ~regression ~nonlinear
  >
  > ### ** Examples
  >
  > x <- seq(-3,3,length.out=400)
  > y <- tanh(x)
  >
  > x.val <- runif(50,min=-6,max=6)
  > y.val <- tanh(x.val)
  >
  > m <- TrainIBHM(x,y, ConfigureIBHM( scal.candidates = 'dot.pr',
  + activ.candidates = 'tanh',
  + stop.criterion = ValidationSC(x.val, y.val)))
  >
  > summary(m)
         Length Class Mode
  params 5 -none- list
  scals 2 -none- list
  activs 2 -none- list
  train 2 -none- list
  par 5 -none- list
  > plot(y.val,predict(m,x.val),asp=1)
  Error in UseMethod("predict") :
    no applicable method for 'predict' applied to an object of class "IBHM"
  Calls: plot -> plot.default -> xy.coords -> predict
  Execution halted
• checking for unstated dependencies in ‘tests’ ... OK
• checking tests ... [4s/5s] ERROR
    Running ‘ibhm.tests.R’ [3s/5s]
  Running the tests in ‘tests/ibhm.tests.R’ failed.
  Complete output:
    > library(IBHM)
    Loading required package: compiler
    Loading required package: DEoptim
    Loading required package: parallel
    
    DEoptim package
    Differential Evolution algorithm in R
    Authors: D. Ardia, K. Mullen, B. Peterson and J. Ulrich
    
    Loading required package: cmaes
    Loading required package: Rcpp
    > source('utils.R')
    >
    >
    > (test.Tanh <- function(){
    + x <- seq(-6,6,length.out=400)
    + y <- tanh(x)
    +
    + set.seed(123)
    + m <- TrainIBHM(x,y, ConfigureIBHM(scal.candidates='dot.pr', activ.candidates='tanh'))
    + stopifnot(summary(m)$rmse<0.1)
    + cat('tanh - ok\n')
    + })()
    Error in summary(m)$rmse < 0.1 : $ operator is invalid for atomic vectors
    Calls: <Anonymous> ... tryCatch -> tryCatchList -> tryCatchOne -> <Anonymous>
    Execution halted
• checking PDF version of manual ... OK
• DONE

Status: 2 ERRORs, 4 NOTEs