* using log directory ‘/data/gannet/ripley/R/packages/tests-devel/ltable.Rcheck’
* using R Under development (unstable) (2025-02-15 r87723)
* 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 ‘ltable/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘ltable’ version ‘2.0.4’
* 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 ‘ltable’ can be installed ... OK
See 'https://www.r-project.org/nosvn/R.check/r-devel-linux-x86_64-fedora-gcc/ltable-00install.html' for details.
* 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 ... 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 ... OK
* checking S3 generic/method consistency ... OK
* checking replacement functions ... OK
* checking foreign function calls ... OK
* checking R code for possible problems ... [14s/18s] 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 data for ASCII and uncompressed saves ... OK
* checking examples ... [99s/122s] ERROR
Running examples in ‘ltable-Ex.R’ failed
The error most likely occurred in:
> ### Name: renewal
> ### Title: Function _renewal_
> ### Aliases: renewal
> ### Keywords: utilities
>
> ### ** Examples
>
> require(ltable)
> data(tdata, package="ltable")
> res1<-MCLogLin(Counts~smoker +contraceptive +tromb +
+ contraceptive*tromb, data=tdata, draw=5000, burnin=500)
Call:
MCLogLin(formula = Counts ~ smoker + contraceptive + tromb +
contraceptive * tromb, data = tdata, draw = 5000, burnin = 500)
Coefficients:
Estimate Std.Error |z-score| Pr(>|z|)
(Intercept) 4.415e+00 3.907e-01 1.130e+01 1.325e-29
smokerYes -9.726e-01 3.916e-01 2.483e+00 1.302e-02
contraceptiveYes -2.407e+00 5.858e-01 4.108e+00 3.988e-05
trombTrombol -1.192e+00 5.153e-01 2.313e+00 2.072e-02
contraceptiveYes:trombTrombol 2.450e+00 7.980e-01 3.070e+00 2.138e-03
phi 4.726e+00 7.393e-01 6.392e+00 1.634e-10
Model fit:
MCMC fitting
Samplers : Gibbs for expected counts, Slice for regr. coeff. and inv.var.par. phi
Language: R
Jacobian reciprocal condition number = 0.05062997
chisq/n = 0.02153245
Deviance= 0.01510963
NULL Deviance= 7.686497
Log.likelihood= -27.66856
AIC(1) = 65.33713
AIC(n) = 8.167141
BIC = 65.73433
Residuals report (Y denotes Counts):
Row Ovserved Y Predicted Y Raw Residual Pearson Residual Anscombe Residual
1 14 12.425 1.575 0.235 0.888
2 2 2.401 -0.401 -0.211 -0.534
3 7 7.433 -0.433 -0.099 -0.331
4 22 22.810 -0.810 -0.070 -0.328
5 12 13.588 -1.588 -0.219 -0.881
6 8 7.600 0.400 0.090 0.298
7 25 24.510 0.490 0.040 0.188
8 84 83.083 0.917 0.023 0.163
> renewal(res1[,1], Astate=5)
Error: nlopt_add_inequality_mconstraint returned NLOPT_INVALID_ARGS.
Error: nlopt_add_inequality_mconstraint returned NLOPT_INVALID_ARGS.
Error: nlopt_add_inequality_mconstraint returned NLOPT_INVALID_ARGS.
Error: nlopt_add_inequality_mconstraint returned NLOPT_INVALID_ARGS.
Error: nlopt_add_inequality_mconstraint returned NLOPT_INVALID_ARGS.
Error: nlopt_add_inequality_mconstraint returned NLOPT_INVALID_ARGS.
Error in astart:lengthcprob : NA/NaN argument
Calls: renewal -> which
Execution halted
* checking PDF version of manual ... 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: 1 ERROR