Last updated on 2025-02-20 19:51:43 CET.
| Flavor | Version | Tinstall | Tcheck | Ttotal | Status | Flags |
|---|---|---|---|---|---|---|
| r-devel-linux-x86_64-debian-clang | 3.3-1 | 47.81 | 298.13 | 345.94 | NOTE | |
| r-devel-linux-x86_64-debian-gcc | 3.3-1 | 34.06 | 202.86 | 236.92 | NOTE | |
| r-devel-linux-x86_64-fedora-clang | 3.3-1 | 471.90 | ERROR | |||
| r-devel-linux-x86_64-fedora-gcc | 3.3-1 | 521.05 | ERROR | |||
| r-devel-macos-arm64 | 3.3-1 | 153.00 | OK | |||
| r-devel-macos-x86_64 | 3.3-1 | 334.00 | OK | |||
| r-devel-windows-x86_64 | 3.3-1 | 52.00 | 329.00 | 381.00 | NOTE | |
| r-patched-linux-x86_64 | 3.3-1 | 55.28 | 280.61 | 335.89 | OK | |
| r-release-linux-x86_64 | 3.3-1 | 47.47 | 276.79 | 324.26 | OK | |
| r-release-macos-arm64 | 3.3-1 | 156.00 | NOTE | |||
| r-release-macos-x86_64 | 3.3-1 | 222.00 | NOTE | |||
| r-release-windows-x86_64 | 3.3-1 | 54.00 | 323.00 | 377.00 | NOTE | |
| r-oldrel-macos-arm64 | 3.3-1 | 173.00 | NOTE | |||
| r-oldrel-macos-x86_64 | 3.3-1 | 321.00 | NOTE | |||
| r-oldrel-windows-x86_64 | 3.3-1 | 64.00 | 394.00 | 458.00 | NOTE |
Version: 3.3-1
Check: Rd cross-references
Result: NOTE
Found the following Rd file(s) with Rd \link{} targets missing package
anchors:
compare.Rd: xtable, print.xtable
fitDatasets.Rd: lmer
getME.Rd: merMod-class, fixef, glmer, glmerControl, ranef
prepareMixedEffectDataset.Rd: lmer
processFit.Rd: lmer
rlmer.Rd: lmer
rlmerMod-class.Rd: lmer, fixef.merMod, isGLMM, isLMM, isNLMM, isREML,
predict.merMod, ranef.merMod, VarCorr.merMod, merMod
robustlmm-package.Rd: lmer, lme4
Please provide package anchors for all Rd \link{} targets not in the
package itself and the base packages.
Flavors: r-devel-linux-x86_64-debian-clang, r-devel-linux-x86_64-debian-gcc, r-devel-windows-x86_64
Version: 3.3-1
Check: tests
Result: ERROR
Running ‘DAS-scale.R’
Running ‘DASvar-fallback.R’
Running ‘PsiFunction.R’ [12s/15s]
Running ‘asymptoticEfficiency.R’
Running ‘compare-methods.R’ [16s/25s]
Comparing ‘compare-methods.Rout’ to ‘compare-methods.Rout.save’ ...191,199d190
< 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| = 0.494878 (tol = 0.002, component 1)
< 3: 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).
< 4: In checkConv(attr(opt, "derivs"), opt$par, ctrl = control$checkConv, :
< Model failed to converge with max|grad| = 0.494878 (tol = 0.002, component 1)
203a195
> boundary (singular) fit: see help('isSingular')
240a233
> boundary (singular) fit: see help('isSingular')
302,310d294
< 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| = 1.75912 (tol = 0.002, component 1)
< 3: 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).
< 4: In checkConv(attr(opt, "derivs"), opt$par, ctrl = control$checkConv, :
< Model failed to converge with max|grad| = 1.75912 (tol = 0.002, component 1)
355c339
< 4.436e-01 4.436e-01 1.241e-01 2.030e-01 -1.084e-06 -2.536e-01 -8.075e-01
---
> 4.436e-01 4.436e-01 1.241e-01 2.030e-01 -1.094e-06 -2.536e-01 -8.075e-01
406c390
< 0.450838 0.450838 0.128411 0.205546 0.000502 -0.256535 -0.815539 0.490628
---
> 0.450838 0.450838 0.128411 0.205545 0.000502 -0.256535 -0.815539 0.490628
412c396
< 0.559398 -0.265494 0.499107 -0.034026 -0.023533 -0.794300
---
> 0.559397 -0.265494 0.499107 -0.034026 -0.023533 -0.794300
441,449d424
< 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| = 1.09789 (tol = 0.002, component 1)
< 3: 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).
< 4: In checkConv(attr(opt, "derivs"), opt$par, ctrl = control$checkConv, :
< Model failed to converge with max|grad| = 1.09789 (tol = 0.002, component 1)
Running ‘expectations.R’
Running ‘fitDatasets.R’ [48s/56s]
Running ‘genericFunctions.R’
Running ‘getME.R’
Comparing ‘getME.Rout’ to ‘getME.Rout.save’ ... OK
Running ‘multipleGroupingFactorsTestData.R’
Running ‘offset.R’
Running ‘psi-rho-funs.R’
Running ‘rlmerMod.R’
Running ‘simulationStudies.R’
Running ‘subset.R’
Running ‘tau.R’
Running ‘testMatrices.R’
Running ‘weights.R’
Running the tests in ‘tests/weights.R’ failed.
Complete output:
> require(robustlmm)
Loading required package: robustlmm
Loading required package: lme4
Loading required package: Matrix
>
> checkEquality <- function(cW, rW, tolerance = 1e-8) {
+ stopifnot(
+ all.equal(
+ coef(cW),
+ coef(rW),
+ tolerance = tolerance,
+ check.attributes = FALSE
+ ),
+ all.equal(
+ fixef(cW),
+ fixef(rW),
+ tolerance = tolerance,
+ check.attributes = FALSE
+ ),
+ all.equal(
+ ranef(cW) ,
+ ranef(rW),
+ tolerance = 100 * tolerance,
+ check.attributes = FALSE
+ ),
+ all.equal(
+ fitted(cW) ,
+ fitted(rW),
+ tolerance = tolerance,
+ check.attributes = FALSE
+ ),
+ all.equal(
+ predict(cW) ,
+ predict(rW),
+ tolerance = tolerance,
+ check.attributes = FALSE
+ ),
+ all.equal(
+ coef(summary(cW)) ,
+ coef(summary(rW)),
+ tolerance = 100 * tolerance,
+ check.attributes = FALSE
+ )
+ )
+ }
>
> testBattery <- function(formula, data, tolerance) {
+ nobs <- nrow(data)
+
+ test <- function(weights) {
+ cW <- lmer(formula, data, weights = weights)
+ rW <-
+ rlmer(
+ formula,
+ data,
+ weights = weights,
+ rho.e = cPsi,
+ rho.b = cPsi,
+ init = lmerNoFit
+ )
+ checkEquality(cW, rW, tolerance)
+ }
+
+ test(rep(2, nobs))
+ test(rep(0.5, nobs))
+
+ set.seed(133)
+ test(runif(nobs))
+ test(rexp(nobs))
+ }
>
> testBattery(Yield ~ 1 | Batch, Dyestuff, 1e-8)
Error in checkEquality(cW, rW, tolerance) :
coef(cW) and coef(rW) are not equal:
Component "Batch": Component "(Intercept)": Mean relative difference: 0.002937986
Calls: testBattery -> test -> checkEquality -> stopifnot
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| = 2.53309 (tol = 0.002, component 1)
3: 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).
4: In checkConv(attr(opt, "derivs"), opt$par, ctrl = control$checkConv, :
Model failed to converge with max|grad| = 2.53309 (tol = 0.002, component 1)
Execution halted
Flavor: r-devel-linux-x86_64-fedora-clang
Version: 3.3-1
Check: re-building of vignette outputs
Result: ERROR
Error(s) in re-building vignettes:
--- re-building ‘rlmer.Rnw’ using Sweave
Loading required package: robustlmm
Loading required package: lme4
Loading required package: Matrix
Warning in eval(expr, .GlobalEnv) :
Current dir: /data/gannet/ripley/R/packages/tests-clang/robustlmm.Rcheck/robustlmm/ has contents: CITATION, DESCRIPTION, INDEX, Meta, NAMESPACE, R, doc, help, html, libs, simulationStudy
Warning in eval(expr, .GlobalEnv) :
doc dir: /data/gannet/ripley/R/packages/tests-clang/robustlmm.Rcheck/robustlmm/doc has contents: Penicillin.R, ggplot.theme.R, index.html, plots.R, rlmer.R, rlmer.Rnw, rlmer.pdf, simulationStudies.R, simulationStudies.Rnw, simulationStudies.pdf, sleepstudy.R
Warning in eval(expr, .GlobalEnv) :
Filename: /data/gannet/ripley/R/packages/tests-clang/robustlmm.Rcheck/robustlmm/doc/Penicillin.R
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| = 0.957735 (tol = 0.002, component 1)
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| = 0.957735 (tol = 0.002, component 1)
Loading required package: ggplot2
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| = 1.09789 (tol = 0.002, component 1)
Warning in compare(fmUncontam, fm, rfm, rfm2, rfm3, show.rho.functions = FALSE) :
Comparison for objects not fitted to the same dataset
Loading required package: reshape2
--- finished re-building ‘rlmer.Rnw’
--- re-building ‘simulationStudies.Rnw’ using Sweave
Loading required package: ggplot2
Loading required package: robustlmm
Loading required package: lme4
Loading required package: Matrix
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| = 0.621439 (tol = 0.002, component 1)
Error: processing vignette 'simulationStudies.Rnw' failed with diagnostics:
chunk 4 (label = source-sensitivity-curves-code)
Error in stopOnFailingFit(fit, "The processed results differed from the stored results:\n", :
Error calling function 'fitDatasets_lmer'. The processed results differed from the stored results:
Component “sigma”: Mean relative difference: 0.02178941Component “thetas”: Mean relative difference: 0.1724754Component “b”: Mean relative difference: 0.05208771Component “converged”: Mean absolute difference: 2
And some warnings were issued:
list(message = "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).", call = optwrap(optimizer, devfun, getStart(start, rho$pp), lower = rho$lower, control = control, adj = FALSE, verbose = verbose, ...))
And some warnings were issued:
list(message = "Model failed to converge with max|grad| = 0.776441 (tol = 0.002, component 1)", call = checkConv(attr(opt, "derivs"), opt$par, ctrl = control$checkConv, lbound = environment(devfun)$lower))
--- failed re-building ‘simulationStudies.Rnw’
SUMMARY: processing the following file failed:
‘simulationStudies.Rnw’
Error: Vignette re-building failed.
Execution halted
Flavor: r-devel-linux-x86_64-fedora-clang
Version: 3.3-1
Check: tests
Result: ERROR
Running ‘DAS-scale.R’
Running ‘DASvar-fallback.R’ [8s/23s]
Running ‘PsiFunction.R’ [13s/41s]
Running ‘asymptoticEfficiency.R’ [7s/21s]
Running ‘compare-methods.R’ [17s/48s]
Comparing ‘compare-methods.Rout’ to ‘compare-methods.Rout.save’ ...191,199d190
< Warning messages:
< 1: In optwrap(optimizer, devfun, getStart(start, rho$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$checkConv, :
< Model failed to converge with max|grad| = 0.494878 (tol = 0.002, component 1)
< 3: In optwrap(optimizer, devfun, getStart(start, rho$pp), lower = rho$lower, :
< convergence code -2 from nloptwrap: NLOPT_INVALID_ARGS: Invalid arguments (e.g. lower bounds are bigger than upper bounds, an unknown algorithm was specified, etcetera).
< 4: In checkConv(attr(opt, "derivs"), opt$par, ctrl = control$checkConv, :
< Model failed to converge with max|grad| = 0.494878 (tol = 0.002, component 1)
203a195
> boundary (singular) fit: see help('isSingular')
240a233
> boundary (singular) fit: see help('isSingular')
302,310d294
< Warning messages:
< 1: In optwrap(optimizer, devfun, getStart(start, rho$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$checkConv, :
< Model failed to converge with max|grad| = 1.75912 (tol = 0.002, component 1)
< 3: In optwrap(optimizer, devfun, getStart(start, rho$pp), lower = rho$lower, :
< convergence code -2 from nloptwrap: NLOPT_INVALID_ARGS: Invalid arguments (e.g. lower bounds are bigger than upper bounds, an unknown algorithm was specified, etcetera).
< 4: In checkConv(attr(opt, "derivs"), opt$par, ctrl = control$checkConv, :
< Model failed to converge with max|grad| = 1.75912 (tol = 0.002, component 1)
355c339
< 4.436e-01 4.436e-01 1.241e-01 2.030e-01 -1.084e-06 -2.536e-01 -8.075e-01
---
> 4.436e-01 4.436e-01 1.241e-01 2.030e-01 -1.094e-06 -2.536e-01 -8.075e-01
406c390
< 0.450838 0.450838 0.128411 0.205546 0.000502 -0.256535 -0.815539 0.490628
---
> 0.450838 0.450838 0.128411 0.205545 0.000502 -0.256535 -0.815539 0.490628
412c396
< 0.559398 -0.265494 0.499107 -0.034026 -0.023533 -0.794300
---
> 0.559397 -0.265494 0.499107 -0.034026 -0.023533 -0.794300
441,449d424
< Warning messages:
< 1: In optwrap(optimizer, devfun, getStart(start, rho$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$checkConv, :
< Model failed to converge with max|grad| = 1.09789 (tol = 0.002, component 1)
< 3: In optwrap(optimizer, devfun, getStart(start, rho$pp), lower = rho$lower, :
< convergence code -2 from nloptwrap: NLOPT_INVALID_ARGS: Invalid arguments (e.g. lower bounds are bigger than upper bounds, an unknown algorithm was specified, etcetera).
< 4: In checkConv(attr(opt, "derivs"), opt$par, ctrl = control$checkConv, :
< Model failed to converge with max|grad| = 1.09789 (tol = 0.002, component 1)
Running ‘expectations.R’
Running ‘fitDatasets.R’ [50s/142s]
Running ‘genericFunctions.R’ [8s/17s]
Running ‘getME.R’ [8s/16s]
Comparing ‘getME.Rout’ to ‘getME.Rout.save’ ... OK
Running ‘multipleGroupingFactorsTestData.R’
Running ‘offset.R’ [8s/21s]
Running ‘psi-rho-funs.R’ [6s/12s]
Running ‘rlmerMod.R’
Running ‘simulationStudies.R’ [7s/15s]
Running ‘subset.R’
Running ‘tau.R’
Running ‘testMatrices.R’
Running ‘weights.R’ [8s/13s]
Running the tests in ‘tests/weights.R’ failed.
Complete output:
> require(robustlmm)
Loading required package: robustlmm
Loading required package: lme4
Loading required package: Matrix
>
> checkEquality <- function(cW, rW, tolerance = 1e-8) {
+ stopifnot(
+ all.equal(
+ coef(cW),
+ coef(rW),
+ tolerance = tolerance,
+ check.attributes = FALSE
+ ),
+ all.equal(
+ fixef(cW),
+ fixef(rW),
+ tolerance = tolerance,
+ check.attributes = FALSE
+ ),
+ all.equal(
+ ranef(cW) ,
+ ranef(rW),
+ tolerance = 100 * tolerance,
+ check.attributes = FALSE
+ ),
+ all.equal(
+ fitted(cW) ,
+ fitted(rW),
+ tolerance = tolerance,
+ check.attributes = FALSE
+ ),
+ all.equal(
+ predict(cW) ,
+ predict(rW),
+ tolerance = tolerance,
+ check.attributes = FALSE
+ ),
+ all.equal(
+ coef(summary(cW)) ,
+ coef(summary(rW)),
+ tolerance = 100 * tolerance,
+ check.attributes = FALSE
+ )
+ )
+ }
>
> testBattery <- function(formula, data, tolerance) {
+ nobs <- nrow(data)
+
+ test <- function(weights) {
+ cW <- lmer(formula, data, weights = weights)
+ rW <-
+ rlmer(
+ formula,
+ data,
+ weights = weights,
+ rho.e = cPsi,
+ rho.b = cPsi,
+ init = lmerNoFit
+ )
+ checkEquality(cW, rW, tolerance)
+ }
+
+ test(rep(2, nobs))
+ test(rep(0.5, nobs))
+
+ set.seed(133)
+ test(runif(nobs))
+ test(rexp(nobs))
+ }
>
> testBattery(Yield ~ 1 | Batch, Dyestuff, 1e-8)
Error in checkEquality(cW, rW, tolerance) :
coef(cW) and coef(rW) are not equal:
Component "Batch": Component "(Intercept)": Mean relative difference: 0.002937986
Calls: testBattery -> test -> checkEquality -> stopifnot
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$checkConv, :
Model failed to converge with max|grad| = 2.53309 (tol = 0.002, component 1)
3: In optwrap(optimizer, devfun, getStart(start, rho$pp), lower = rho$lower, :
convergence code -2 from nloptwrap: NLOPT_INVALID_ARGS: Invalid arguments (e.g. lower bounds are bigger than upper bounds, an unknown algorithm was specified, etcetera).
4: In checkConv(attr(opt, "derivs"), opt$par, ctrl = control$checkConv, :
Model failed to converge with max|grad| = 2.53309 (tol = 0.002, component 1)
Execution halted
Flavor: r-devel-linux-x86_64-fedora-gcc
Version: 3.3-1
Check: re-building of vignette outputs
Result: ERROR
Error(s) in re-building vignettes:
--- re-building ‘rlmer.Rnw’ using Sweave
Loading required package: robustlmm
Loading required package: lme4
Loading required package: Matrix
Warning in eval(expr, .GlobalEnv) :
Current dir: /data/gannet/ripley/R/packages/tests-devel/robustlmm.Rcheck/robustlmm/ has contents: CITATION, DESCRIPTION, INDEX, Meta, NAMESPACE, R, doc, help, html, libs, simulationStudy
Warning in eval(expr, .GlobalEnv) :
doc dir: /data/gannet/ripley/R/packages/tests-devel/robustlmm.Rcheck/robustlmm/doc has contents: Penicillin.R, ggplot.theme.R, index.html, plots.R, rlmer.R, rlmer.Rnw, rlmer.pdf, simulationStudies.R, simulationStudies.Rnw, simulationStudies.pdf, sleepstudy.R
Warning in eval(expr, .GlobalEnv) :
Filename: /data/gannet/ripley/R/packages/tests-devel/robustlmm.Rcheck/robustlmm/doc/Penicillin.R
Warning in optwrap(optimizer, devfun, getStart(start, rho$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$checkConv, :
Model failed to converge with max|grad| = 0.957735 (tol = 0.002, component 1)
Warning in optwrap(optimizer, devfun, getStart(start, rho$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$checkConv, :
Model failed to converge with max|grad| = 0.957735 (tol = 0.002, component 1)
Loading required package: ggplot2
Warning in optwrap(optimizer, devfun, getStart(start, rho$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$checkConv, :
Model failed to converge with max|grad| = 1.09789 (tol = 0.002, component 1)
Warning in compare(fmUncontam, fm, rfm, rfm2, rfm3, show.rho.functions = FALSE) :
Comparison for objects not fitted to the same dataset
Loading required package: reshape2
--- finished re-building ‘rlmer.Rnw’
--- re-building ‘simulationStudies.Rnw’ using Sweave
Loading required package: ggplot2
Loading required package: robustlmm
Loading required package: lme4
Loading required package: Matrix
Warning in optwrap(optimizer, devfun, getStart(start, rho$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$checkConv, :
Model failed to converge with max|grad| = 0.621439 (tol = 0.002, component 1)
Error: processing vignette 'simulationStudies.Rnw' failed with diagnostics:
chunk 4 (label = source-sensitivity-curves-code)
Error in stopOnFailingFit(fit, "The processed results differed from the stored results:\n", :
Error calling function 'fitDatasets_lmer'. The processed results differed from the stored results:
Component “sigma”: Mean relative difference: 0.02178941Component “thetas”: Mean relative difference: 0.1724754Component “b”: Mean relative difference: 0.05208771Component “converged”: Mean absolute difference: 2
And some warnings were issued:
list(message = "convergence code -2 from nloptwrap: NLOPT_INVALID_ARGS: Invalid arguments (e.g. lower bounds are bigger than upper bounds, an unknown algorithm was specified, etcetera).", call = optwrap(optimizer, devfun, getStart(start, rho$pp), lower = rho$lower, control = control, adj = FALSE, verbose = verbose, ...))
And some warnings were issued:
list(message = "Model failed to converge with max|grad| = 0.776441 (tol = 0.002, component 1)", call = checkConv(attr(opt, "derivs"), opt$par, ctrl = control$checkConv, lbound = environment(devfun)$lower))
--- failed re-building ‘simulationStudies.Rnw’
SUMMARY: processing the following file failed:
‘simulationStudies.Rnw’
Error: Vignette re-building failed.
Execution halted
Flavor: r-devel-linux-x86_64-fedora-gcc
Version: 3.3-1
Check: installed package size
Result: NOTE
installed size is 9.2Mb
sub-directories of 1Mb or more:
doc 1.7Mb
libs 5.2Mb
simulationStudy 1.5Mb
Flavors: r-release-macos-arm64, r-release-macos-x86_64, r-release-windows-x86_64, r-oldrel-macos-arm64, r-oldrel-macos-x86_64, r-oldrel-windows-x86_64