Last updated on 2021-07-08 07:49:38 CEST.
| Flavor | Version | Tinstall | Tcheck | Ttotal | Status | Flags |
|---|---|---|---|---|---|---|
| r-devel-linux-x86_64-debian-clang | 0.1.8 | 12.80 | 313.71 | 326.51 | OK | |
| r-devel-linux-x86_64-debian-gcc | 0.1.8 | 9.36 | 240.85 | 250.21 | OK | |
| r-devel-linux-x86_64-fedora-clang | 0.1.8 | 387.68 | NOTE | |||
| r-devel-linux-x86_64-fedora-gcc | 0.1.8 | 395.60 | OK | |||
| r-devel-windows-x86_64 | 0.1.8 | 17.00 | 411.00 | 428.00 | OK | |
| r-devel-windows-x86_64-gcc10-UCRT | 0.1.8 | OK | ||||
| r-patched-linux-x86_64 | 0.1.8 | 11.67 | 301.09 | 312.76 | OK | |
| r-patched-solaris-x86 | 0.1.8 | 217.60 | ERROR | |||
| r-release-linux-x86_64 | 0.1.8 | 11.08 | 303.84 | 314.92 | OK | |
| r-release-macos-arm64 | 0.1.8 | OK | ||||
| r-release-macos-x86_64 | 0.1.8 | OK | ||||
| r-release-windows-ix86+x86_64 | 0.1.8 | 17.00 | 410.00 | 427.00 | OK | |
| r-oldrel-macos-x86_64 | 0.1.8 | WARN | ||||
| r-oldrel-windows-ix86+x86_64 | 0.1.8 | 26.00 | 411.00 | 437.00 | OK |
Version: 0.1.8
Check: Rd cross-references
Result: NOTE
Undeclared package ‘DAAG’ in Rd xrefs
Flavor: r-devel-linux-x86_64-fedora-clang
Version: 0.1.8
Check: package dependencies
Result: NOTE
Package suggested but not available for checking: ‘glmmTMB’
Flavor: r-patched-solaris-x86
Version: 0.1.8
Check: examples
Result: ERROR
Running examples in ‘qra-Ex.R’ failed
The error most likely occurred in:
> ### Name: extractLT
> ### Title: Obtain complete set of LT or LD estimates
> ### Aliases: extractLT extractLTpwr
>
> ### ** Examples
>
> form <- cbind(dead,total-dead)~0+Cultivar/dose+(1|cultRep)
> codling1989.TMB <- glmmTMB::glmmTMB(formula=form,
+ family=glmmTMB::betabinomial(link='cloglog'),
+ dispformula=~0+Cultivar/splines::ns(dose,2),
+ data=subset(codling1989,dose>0))
Error in loadNamespace(x) : there is no package called ‘glmmTMB’
Calls: loadNamespace -> withRestarts -> withOneRestart -> doWithOneRestart
Execution halted
Flavor: r-patched-solaris-x86
Version: 0.1.8
Check: re-building of vignette outputs
Result: WARN
Error(s) in re-building vignettes:
...
--- re-building ‘MeBrPlot.Rmd’ using rmarkdown
Warning in engine$weave(file, quiet = quiet, encoding = enc) :
Pandoc (>= 1.12.3) not available. Falling back to R Markdown v1.
Quitting from lines 13-16 (MeBrPlot.Rmd)
Error: processing vignette 'MeBrPlot.Rmd' failed with diagnostics:
there is no package called 'glmmTMB'
--- failed re-building ‘MeBrPlot.Rmd’
--- re-building ‘countDists.Rmd’ using rmarkdown
Warning in engine$weave(file, quiet = quiet, encoding = enc) :
Pandoc (>= 1.12.3) not available. Falling back to R Markdown v1.
The magick package is required to crop "figure/plot-gph12-1.png" but not available.
The magick package is required to crop "figure/cfDBI-BB-1.png" but not available.
The magick package is required to crop "figure/plot-binAB-1.png" but not available.
The magick package is required to crop "figure/cfsim-1.png" but not available.
The magick package is required to crop "figure/cfq2-1.png" but not available.
The magick package is required to crop "figure/rqmales-1.png" but not available.
The magick package is required to crop "figure/plot-poisAB-1.png" but not available.
The magick package is required to crop "figure/wormpois-1.png" but not available.
--- finished re-building ‘countDists.Rmd’
--- re-building ‘timeMortality.Rmd’ using rmarkdown
Warning in engine$weave(file, quiet = quiet, encoding = enc) :
Pandoc (>= 1.12.3) not available. Falling back to R Markdown v1.
Quitting from lines 237-251 (timeMortality.Rmd)
Error: processing vignette 'timeMortality.Rmd' failed with diagnostics:
there is no package called 'glmmTMB'
--- failed re-building ‘timeMortality.Rmd’
SUMMARY: processing the following files failed:
‘MeBrPlot.Rmd’ ‘timeMortality.Rmd’
Error: Vignette re-building failed.
Execution halted
Flavor: r-patched-solaris-x86
Version: 0.1.8
Check: re-building of vignette outputs
Result: WARN
Error(s) in re-building vignettes:
--- re-building ‘MeBrPlot.Rmd’ using rmarkdown
Warning in engine$weave(file, quiet = quiet, encoding = enc) :
Pandoc (>= 1.12.3) not available. Falling back to R Markdown v1.
Error in .Call("FreeADFunObject", ptr, PACKAGE = DLL) :
"FreeADFunObject" not available for .Call() for package "glmmTMB"
Calls: <Anonymous>
Error in .Call("FreeADFunObject", ptr, PACKAGE = DLL) :
"FreeADFunObject" not available for .Call() for package "glmmTMB"
Calls: <Anonymous>
Error in .Call("FreeADFunObject", ptr, PACKAGE = DLL) :
"FreeADFunObject" not available for .Call() for package "glmmTMB"
Calls: <Anonymous>
Error in .Call("FreeADFunObject", ptr, PACKAGE = DLL) :
"FreeADFunObject" not available for .Call() for package "glmmTMB"
Calls: <Anonymous>
Error in .Call("FreeADFunObject", ptr, PACKAGE = DLL) :
"FreeADFunObject" not available for .Call() for package "glmmTMB"
Calls: <Anonymous>
Error in .Call("FreeADFunObject", ptr, PACKAGE = DLL) :
"FreeADFunObject" not available for .Call() for package "glmmTMB"
Calls: <Anonymous>
Error in .Call("FreeADFunObject", ptr, PACKAGE = DLL) :
"FreeADFunObject" not available for .Call() for package "glmmTMB"
Calls: <Anonymous>
Error in .Call("FreeADFunObject", ptr, PACKAGE = DLL) :
"FreeADFunObject" not available for .Call() for package "glmmTMB"
Calls: <Anonymous>
Error in .Call("FreeADFunObject", ptr, PACKAGE = DLL) :
"FreeADFunObject" not available for .Call() for package "glmmTMB"
Calls: <Anonymous>
Error in .Call("FreeADFunObject", ptr, PACKAGE = DLL) :
"FreeADFunObject" not available for .Call() for package "glmmTMB"
Calls: <Anonymous>
Error in .Call("FreeADFunObject", ptr, PACKAGE = DLL) :
"FreeADFunObject" not available for .Call() for package "glmmTMB"
Calls: <Anonymous>
Error in .Call("FreeADFunObject", ptr, PACKAGE = DLL) :
"FreeADFunObject" not available for .Call() for package "glmmTMB"
Calls: <Anonymous>
Error in .Call("FreeADFunObject", ptr, PACKAGE = DLL) :
"FreeADFunObject" not available for .Call() for package "glmmTMB"
Calls: <Anonymous>
Error in .Call("FreeADFunObject", ptr, PACKAGE = DLL) :
"FreeADFunObject" not available for .Call() for package "glmmTMB"
Calls: <Anonymous>
Error in .Call("FreeADFunObject", ptr, PACKAGE = DLL) :
"FreeADFunObject" not available for .Call() for package "glmmTMB"
Calls: <Anonymous>
Error in .Call("FreeADFunObject", ptr, PACKAGE = DLL) :
"FreeADFunObject" not available for .Call() for package "glmmTMB"
Calls: <Anonymous>
Error in .Call("FreeADFunObject", ptr, PACKAGE = DLL) :
"FreeADFunObject" not available for .Call() for package "glmmTMB"
Calls: <Anonymous>
Error in .Call("FreeADFunObject", ptr, PACKAGE = DLL) :
"FreeADFunObject" not available for .Call() for package "glmmTMB"
Calls: <Anonymous>
Error in .Call("FreeADFunObject", ptr, PACKAGE = DLL) :
"FreeADFunObject" not available for .Call() for package "glmmTMB"
Calls: <Anonymous>
Error in .Call("FreeADFunObject", ptr, PACKAGE = DLL) :
"FreeADFunObject" not available for .Call() for package "glmmTMB"
Calls: <Anonymous>
Error in .Call("FreeADFunObject", ptr, PACKAGE = DLL) :
"FreeADFunObject" not available for .Call() for package "glmmTMB"
Calls: <Anonymous>
--- finished re-building ‘MeBrPlot.Rmd’
--- re-building ‘countDists.Rmd’ using rmarkdown
Warning in engine$weave(file, quiet = quiet, encoding = enc) :
Pandoc (>= 1.12.3) not available. Falling back to R Markdown v1.
--- finished re-building ‘countDists.Rmd’
--- re-building ‘timeMortality.Rmd’ using rmarkdown
Warning in engine$weave(file, quiet = quiet, encoding = enc) :
Pandoc (>= 1.12.3) not available. Falling back to R Markdown v1.
Warning in checkMatrixPackageVersion() :
Package version inconsistency detected.
TMB was built with Matrix version 1.3.2
Current Matrix version is 1.3.4
Please re-install 'TMB' from source using install.packages('TMB', type = 'source') or ask CRAN for a binary version of 'TMB' matching CRAN's 'Matrix' package
Warning in Matrix::sparseMatrix(dims = c(0, 0), i = integer(0), j = integer(0), :
'giveCsparse' has been deprecated; setting 'repr = "T"' for you
Warning in Matrix::sparseMatrix(dims = c(0, 0), i = integer(0), j = integer(0), :
'giveCsparse' has been deprecated; setting 'repr = "T"' for you
Warning in Matrix::sparseMatrix(dims = c(0, 0), i = integer(0), j = integer(0), :
'giveCsparse' has been deprecated; setting 'repr = "T"' for you
Error in .Call("FreeADFunObject", ptr, PACKAGE = DLL) :
"FreeADFunObject" not available for .Call() for package "glmmTMB"
Calls: <Anonymous>
Warning in (function (start, objective, gradient = NULL, hessian = NULL, :
NA/NaN function evaluation
Warning in (function (start, objective, gradient = NULL, hessian = NULL, :
NA/NaN function evaluation
Warning in (function (start, objective, gradient = NULL, hessian = NULL, :
NA/NaN function evaluation
Warning in (function (start, objective, gradient = NULL, hessian = NULL, :
NA/NaN function evaluation
Warning in (function (start, objective, gradient = NULL, hessian = NULL, :
NA/NaN function evaluation
Warning in (function (start, objective, gradient = NULL, hessian = NULL, :
NA/NaN function evaluation
Warning in Matrix::sparseMatrix(dims = c(0, 0), i = integer(0), j = integer(0), :
'giveCsparse' has been deprecated; setting 'repr = "T"' for you
Warning in Matrix::sparseMatrix(dims = c(0, 0), i = integer(0), j = integer(0), :
'giveCsparse' has been deprecated; setting 'repr = "T"' for you
Warning in Matrix::sparseMatrix(dims = c(0, 0), i = integer(0), j = integer(0), :
'giveCsparse' has been deprecated; setting 'repr = "T"' for you
Error in .Call("FreeADFunObject", ptr, PACKAGE = DLL) :
"FreeADFunObject" not available for .Call() for package "glmmTMB"
Calls: <Anonymous>
Error in .Call("FreeADFunObject", ptr, PACKAGE = DLL) :
"FreeADFunObject" not available for .Call() for package "glmmTMB"
Calls: <Anonymous>
Warning in (function (start, objective, gradient = NULL, hessian = NULL, :
NA/NaN function evaluation
Warning in (function (start, objective, gradient = NULL, hessian = NULL, :
NA/NaN function evaluation
Warning in (function (start, objective, gradient = NULL, hessian = NULL, :
NA/NaN function evaluation
Warning in (function (start, objective, gradient = NULL, hessian = NULL, :
NA/NaN function evaluation
Warning in (function (start, objective, gradient = NULL, hessian = NULL, :
NA/NaN function evaluation
Warning in (function (start, objective, gradient = NULL, hessian = NULL, :
NA/NaN function evaluation
Warning in (function (start, objective, gradient = NULL, hessian = NULL, :
NA/NaN function evaluation
Warning in fitTMB(TMBStruc) :
Model convergence problem; non-positive-definite Hessian matrix. See vignette('troubleshooting')
Warning in Matrix::sparseMatrix(dims = c(0, 0), i = integer(0), j = integer(0), :
'giveCsparse' has been deprecated; setting 'repr = "T"' for you
Warning in Matrix::sparseMatrix(dims = c(0, 0), i = integer(0), j = integer(0), :
'giveCsparse' has been deprecated; setting 'repr = "T"' for you
Warning in Matrix::sparseMatrix(dims = c(0, 0), i = integer(0), j = integer(0), :
'giveCsparse' has been deprecated; setting 'repr = "T"' for you
Error in .Call("FreeADFunObject", ptr, PACKAGE = DLL) :
"FreeADFunObject" not available for .Call() for package "glmmTMB"
Calls: <Anonymous>
Error in .Call("FreeADFunObject", ptr, PACKAGE = DLL) :
"FreeADFunObject" not available for .Call() for package "glmmTMB"
Calls: <Anonymous>
Warning in Matrix::sparseMatrix(dims = c(0, 0), i = integer(0), j = integer(0), :
'giveCsparse' has been deprecated; setting 'repr = "T"' for you
Warning in Matrix::sparseMatrix(dims = c(0, 0), i = integer(0), j = integer(0), :
'giveCsparse' has been deprecated; setting 'repr = "T"' for you
Warning in Matrix::sparseMatrix(dims = c(0, 0), i = integer(0), j = integer(0), :
'giveCsparse' has been deprecated; setting 'repr = "T"' for you
Error in .Call("FreeADFunObject", ptr, PACKAGE = DLL) :
"FreeADFunObject" not available for .Call() for package "glmmTMB"
Calls: <Anonymous>
Error in .Call("FreeADFunObject", ptr, PACKAGE = DLL) :
"FreeADFunObject" not available for .Call() for package "glmmTMB"
Calls: <Anonymous>
Warning in fitTMB(TMBStruc) :
Model convergence problem; non-positive-definite Hessian matrix. See vignette('troubleshooting')
Error in .Call("FreeADFunObject", ptr, PACKAGE = DLL) :
"FreeADFunObject" not available for .Call() for package "glmmTMB"
Calls: <Anonymous>
Error in .Call("FreeADFunObject", ptr, PACKAGE = DLL) :
"FreeADFunObject" not available for .Call() for package "glmmTMB"
Calls: <Anonymous>
Error in .Call("FreeADFunObject", ptr, PACKAGE = DLL) :
"FreeADFunObject" not available for .Call() for package "glmmTMB"
Calls: <Anonymous>
Error in .Call("FreeADFunObject", ptr, PACKAGE = DLL) :
"FreeADFunObject" not available for .Call() for package "glmmTMB"
Calls: <Anonymous>
Error in .Call("FreeADFunObject", ptr, PACKAGE = DLL) :
"FreeADFunObject" not available for .Call() for package "glmmTMB"
Calls: <Anonymous>
Error in .Call("FreeADFunObject", ptr, PACKAGE = DLL) :
"FreeADFunObject" not available for .Call() for package "glmmTMB"
Calls: <Anonymous>
Error in .Call("FreeADFunObject", ptr, PACKAGE = DLL) :
"FreeADFunObject" not available for .Call() for package "glmmTMB"
Calls: <Anonymous>
Error in .Call("FreeADFunObject", ptr, PACKAGE = DLL) :
"FreeADFunObject" not available for .Call() for package "glmmTMB"
Calls: <Anonymous>
Error in .Call("FreeADFunObject", ptr, PACKAGE = DLL) :
"FreeADFunObject" not available for .Call() for package "glmmTMB"
Calls: <Anonymous>
Error in .Call("FreeADFunObject", ptr, PACKAGE = DLL) :
"FreeADFunObject" not available for .Call() for package "glmmTMB"
Calls: <Anonymous>
Error in .Call("FreeADFunObject", ptr, PACKAGE = DLL) :
"FreeADFunObject" not available for .Call() for package "glmmTMB"
Calls: <Anonymous>
Error in .Call("FreeADFunObject", ptr, PACKAGE = DLL) :
"FreeADFunObject" not available for .Call() for package "glmmTMB"
Calls: <Anonymous>
Error in .Call("FreeADFunObject", ptr, PACKAGE = DLL) :
"FreeADFunObject" not available for .Call() for package "glmmTMB"
Calls: <Anonymous>
Error in .Call("FreeADFunObject", ptr, PACKAGE = DLL) :
"FreeADFunObject" not available for .Call() for package "glmmTMB"
Calls: <Anonymous>
Error in .Call("FreeADFunObject", ptr, PACKAGE = DLL) :
"FreeADFunObject" not available for .Call() for package "glmmTMB"
Calls: <Anonymous>
Error in .Call("FreeADFunObject", ptr, PACKAGE = DLL) :
"FreeADFunObject" not available for .Call() for package "glmmTMB"
Calls: <Anonymous>
Error in .Call("FreeADFunObject", ptr, PACKAGE = DLL) :
"FreeADFunObject" not available for .Call() for package "glmmTMB"
Calls: <Anonymous>
Error in .Call("FreeADFunObject", ptr, PACKAGE = DLL) :
"FreeADFunObject" not available for .Call() for package "glmmTMB"
Calls: <Anonymous>
Error in .Call("FreeADFunObject", ptr, PACKAGE = DLL) :
"FreeADFunObject" not available for .Call() for package "glmmTMB"
Calls: <Anonymous>
Error in .Call("FreeADFunObject", ptr, PACKAGE = DLL) :
"FreeADFunObject" not available for .Call() for package "glmmTMB"
Calls: <Anonymous>
Error in .Call("FreeADFunObject", ptr, PACKAGE = DLL) :
"FreeADFunObject" not available for .Call() for package "glmmTMB"
Calls: <Anonymous>
Error in .Call("FreeADFunObject", ptr, PACKAGE = DLL) :
"FreeADFunObject" not available for .Call() for package "glmmTMB"
Calls: <Anonymous>
Error in .Call("FreeADFunObject", ptr, PACKAGE = DLL) :
"FreeADFunObject" not available for .Call() for package "glmmTMB"
Calls: <Anonymous>
Error in .Call("FreeADFunObject", ptr, PACKAGE = DLL) :
"FreeADFunObject" not available for .Call() for package "glmmTMB"
Calls: <Anonymous>
Error in .Call("FreeADFunObject", ptr, PACKAGE = DLL) :
"FreeADFunObject" not available for .Call() for package "glmmTMB"
Calls: <Anonymous>
Error in .Call("FreeADFunObject", ptr, PACKAGE = DLL) :
"FreeADFunObject" not available for .Call() for package "glmmTMB"
Calls: <Anonymous>
Error in .Call("FreeADFunObject", ptr, PACKAGE = DLL) :
"FreeADFunObject" not available for .Call() for package "glmmTMB"
Calls: <Anonymous>
Error in .Call("FreeADFunObject", ptr, PACKAGE = DLL) :
"FreeADFunObject" not available for .Call() for package "glmmTMB"
Calls: <Anonymous>
Error in .Call("FreeADFunObject", ptr, PACKAGE = DLL) :
"FreeADFunObject" not available for .Call() for package "glmmTMB"
Calls: <Anonymous>
Quitting from lines 334-384 (timeMortality.Rmd)
Error: processing vignette 'timeMortality.Rmd' failed with diagnostics:
cannot pop the top-level viewport ('grid' and 'graphics' output mixed?)
--- failed re-building ‘timeMortality.Rmd’
SUMMARY: processing the following file failed:
‘timeMortality.Rmd’
Error: Vignette re-building failed.
Execution halted
Flavor: r-oldrel-macos-x86_64