Last updated on 2021-10-07 06:49:33 CEST.
| Flavor | Version | Tinstall | Tcheck | Ttotal | Status | Flags |
|---|---|---|---|---|---|---|
| r-devel-linux-x86_64-debian-clang | 0.2.1 | 10.31 | 279.34 | 289.65 | OK | |
| r-devel-linux-x86_64-debian-gcc | 0.2.1 | 7.96 | 210.50 | 218.46 | OK | |
| r-devel-linux-x86_64-fedora-clang | 0.2.1 | 230.38 | NOTE | |||
| r-devel-linux-x86_64-fedora-gcc | 0.2.1 | 220.84 | NOTE | |||
| r-devel-windows-x86_64 | 0.2.1 | 16.00 | 290.00 | 306.00 | OK | |
| r-devel-windows-x86_64-gcc10-UCRT | 0.2.1 | WARN | ||||
| r-patched-linux-x86_64 | 0.2.1 | 10.03 | 267.08 | 277.11 | OK | |
| r-patched-solaris-x86 | 0.2.1 | 5.30 | ERROR | |||
| r-release-linux-x86_64 | 0.2.1 | 10.59 | 265.30 | 275.89 | OK | |
| r-release-macos-arm64 | 0.2.1 | NOTE | ||||
| r-release-macos-x86_64 | 0.2.1 | NOTE | ||||
| r-release-windows-ix86+x86_64 | 0.2.1 | 25.00 | 292.00 | 317.00 | OK | |
| r-oldrel-macos-x86_64 | 0.1.8 | WARN |
Version: 0.2.1
Check: dependencies in R code
Result: NOTE
Namespace in Imports field not imported from: ‘bookdown’
All declared Imports should be used.
Flavors: r-devel-linux-x86_64-fedora-clang, r-devel-linux-x86_64-fedora-gcc, r-devel-windows-x86_64-gcc10-UCRT, r-release-macos-arm64, r-release-macos-x86_64
Version: 0.2.1
Check: re-building of vignette outputs
Result: WARN
Error(s) in re-building vignettes:
--- re-building 'MeBrPlot.Rmd' using rmarkdown
--- finished re-building 'MeBrPlot.Rmd'
--- re-building 'countDists.Rmd' using rmarkdown
--- finished re-building 'countDists.Rmd'
--- re-building 'timeMortality.Rmd' using rmarkdown
Warning in fitTMB(TMBStruc) :
Model convergence problem; non-positive-definite Hessian matrix. See vignette('troubleshooting')
Warning in fitTMB(TMBStruc) :
Model convergence problem; non-positive-definite Hessian matrix. See vignette('troubleshooting')
Warning in glmmTMB::glmmTMB(sim ~ 1, family = binomial) :
use of the 'data' argument is recommended
Loading required package: kableExtra
! LaTeX Error: File `tabu.sty' not found.
! Emergency stop.
<read *>
Error: processing vignette 'timeMortality.Rmd' failed with diagnostics:
LaTeX failed to compile C:/msys64/home/tomas/ucrt3/svn/ucrt3/r_packages/pkgcheck/CRAN/qra/qra.Rcheck/vign_test/qra/vignettes/timeMortality.tex. See https://yihui.org/tinytex/r/#debugging for debugging tips. See timeMortality.log for more info.
--- failed re-building 'timeMortality.Rmd'
SUMMARY: processing the following file failed:
'timeMortality.Rmd'
Error: Vignette re-building failed.
Execution halted
Flavor: r-devel-windows-x86_64-gcc10-UCRT
Version: 0.2.1
Check: package dependencies
Result: ERROR
Package required but not available: ‘glmmTMB’
See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
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