Last updated on 2020-01-29 15:48:23 CET.
| Flavor | Version | Tinstall | Tcheck | Ttotal | Status | Flags |
|---|---|---|---|---|---|---|
| r-devel-linux-x86_64-debian-clang | 0.2.3 | 158.17 | 322.07 | 480.24 | ERROR | |
| r-devel-linux-x86_64-debian-gcc | 0.2.3 | 148.29 | 255.24 | 403.53 | ERROR | |
| r-devel-linux-x86_64-fedora-clang | 0.2.3 | 655.61 | ERROR | |||
| r-devel-linux-x86_64-fedora-gcc | 0.2.3 | 687.99 | ERROR | |||
| r-devel-windows-ix86+x86_64 | 0.2.3 | 231.00 | 510.00 | 741.00 | ERROR | --no-vignettes |
| r-devel-windows-ix86+x86_64-gcc8 | 0.2.3 | 322.00 | 579.00 | 901.00 | ERROR | --no-vignettes |
| r-patched-linux-x86_64 | 0.2.3 | ERROR | ||||
| r-patched-solaris-x86 | 0.2.3 | 804.10 | OK | |||
| r-release-linux-x86_64 | 0.2.3 | 149.40 | 311.41 | 460.81 | ERROR | |
| r-release-windows-ix86+x86_64 | 0.2.3 | 232.00 | 644.00 | 876.00 | ERROR | --no-vignettes |
| r-release-osx-x86_64 | 0.2.3 | NOTE | ||||
| r-oldrel-windows-ix86+x86_64 | 0.2.3 | 288.00 | 526.00 | 814.00 | ERROR | --no-vignettes |
| r-oldrel-osx-x86_64 | 0.2.3 | NOTE |
Version: 0.2.3
Check: tests
Result: ERROR
Running 'AAAtest-all.R' [141s/152s]
Running the tests in 'tests/AAAtest-all.R' failed.
Complete output:
> if(require("testthat")) {
+ pkg <- "glmmTMB"
+ require(pkg, character.only=TRUE)
+ print(sessionInfo())
+ test_check(pkg, reporter="summary")
+ print(warnings()) # TODO? catch most of these by expect_warning(..)
+ } else {
+ warnings("Package 'testthat' not available, cannot run unit tests for package",
+ sQuote(pkg))
+ }
Loading required package: testthat
Loading required package: glmmTMB
R Under development (unstable) (2020-01-28 r77731)
Platform: x86_64-pc-linux-gnu (64-bit)
Running under: Debian GNU/Linux bullseye/sid
Matrix products: default
BLAS: /home/hornik/tmp/R.check/r-devel-clang/Work/build/lib/libRblas.so
LAPACK: /home/hornik/tmp/R.check/r-devel-clang/Work/build/lib/libRlapack.so
locale:
[1] LC_CTYPE=en_US.iso885915 LC_NUMERIC=C
[3] LC_TIME=en_US.iso885915 LC_COLLATE=C
[5] LC_MONETARY=en_US.iso885915 LC_MESSAGES=en_US.iso885915
[7] LC_PAPER=en_US.iso885915 LC_NAME=C
[9] LC_ADDRESS=C LC_TELEPHONE=C
[11] LC_MEASUREMENT=en_US.iso885915 LC_IDENTIFICATION=C
attached base packages:
[1] stats graphics grDevices utils datasets methods base
other attached packages:
[1] glmmTMB_0.2.3 testthat_2.3.1
loaded via a namespace (and not attached):
[1] Rcpp_1.0.3 lattice_0.20-38 MASS_7.3-51.5 grid_4.0.0
[5] R6_2.4.1 nlme_3.1-143 magrittr_1.5 rlang_0.4.3
[9] minqa_1.2.4 nloptr_1.2.1 Matrix_1.2-18 boot_1.3-24
[13] splines_4.0.0 lme4_1.1-21 TMB_1.7.16 compiler_4.0.0
VarCorr: .........1
Very basic glmmTMB fitting: .................................
trickier examples: ..............
glmmTMBControl: ..
Testing dispersion: ..
emmeans: ...
car::Anova: ..
effects: .W.
test edge cases: .
basic examples: ...
alternative binomial specifications: ..........
fitting exotic families: ..............................
trunc compois: ...
compois: ...
genpois: ..
tweedie: .....
link function info available: ............
link info added to family: ...
formula parsing: ................
basic methods: ........................WW.................................
simulate consistency with glm/lm: ...
Ranef etc.: .......
refit: ...
offsets: ..........
Predicting new levels: .
Catch invalid predictions: ...
Predict two-column response case: .
Prediction with dispformula=~0: .
Handling NA values in predictions: ....W.W..
prediction with different binomial specs: ..
zero-inflation prediction: .....
deprecated zitype parameter: .
complex bases: ........
REML: ......
Saving and loading glmmTMB objects: .
..variance structures: ..............
weight: ....
ZI models: ..
== Warnings ====================================================================
1. (unknown) (@test-downstream.R#49) - overriding variance function for effects: computed variances may be incorrect
2. terms (@test-methods.R#137) - Model convergence problem; non-positive-definite Hessian matrix. See vignette('troubleshooting')
3. terms (@test-methods.R#137) - Model convergence problem; function evaluation limit reached without convergence (9). See vignette('troubleshooting')
4. (unknown) (@test-predict.R#75) - `failure_message` is missing, with no default.
5. (unknown) (@test-predict.R#77) - `failure_message` is missing, with no default.
== Failed ======================================================================
-- 1. Failure: (unknown) (@test-VarCorr.R#167) --------------------------------
`c3` not equal to structure(...).
Component "V3": Mean relative difference: 1.444528e-05
== DONE ========================================================================
Error: Test failures
Execution halted
Flavor: r-devel-linux-x86_64-debian-clang
Version: 0.2.3
Check: tests
Result: ERROR
Running ‘AAAtest-all.R’ [115s/158s]
Running the tests in ‘tests/AAAtest-all.R’ failed.
Complete output:
> if(require("testthat")) {
+ pkg <- "glmmTMB"
+ require(pkg, character.only=TRUE)
+ print(sessionInfo())
+ test_check(pkg, reporter="summary")
+ print(warnings()) # TODO? catch most of these by expect_warning(..)
+ } else {
+ warnings("Package 'testthat' not available, cannot run unit tests for package",
+ sQuote(pkg))
+ }
Loading required package: testthat
Loading required package: glmmTMB
R Under development (unstable) (2020-01-28 r77731)
Platform: x86_64-pc-linux-gnu (64-bit)
Running under: Debian GNU/Linux bullseye/sid
Matrix products: default
BLAS: /home/hornik/tmp/R.check/r-devel-gcc/Work/build/lib/libRblas.so
LAPACK: /home/hornik/tmp/R.check/r-devel-gcc/Work/build/lib/libRlapack.so
locale:
[1] LC_CTYPE=en_US.UTF-8 LC_NUMERIC=C
[3] LC_TIME=en_US.UTF-8 LC_COLLATE=C
[5] LC_MONETARY=en_US.UTF-8 LC_MESSAGES=en_US.UTF-8
[7] LC_PAPER=en_US.UTF-8 LC_NAME=C
[9] LC_ADDRESS=C LC_TELEPHONE=C
[11] LC_MEASUREMENT=en_US.UTF-8 LC_IDENTIFICATION=C
attached base packages:
[1] stats graphics grDevices utils datasets methods base
other attached packages:
[1] glmmTMB_0.2.3 testthat_2.3.1
loaded via a namespace (and not attached):
[1] Rcpp_1.0.3 lattice_0.20-38 MASS_7.3-51.5 grid_4.0.0
[5] R6_2.4.1 nlme_3.1-143 magrittr_1.5 rlang_0.4.3
[9] minqa_1.2.4 nloptr_1.2.1 Matrix_1.2-18 boot_1.3-24
[13] splines_4.0.0 lme4_1.1-21 TMB_1.7.16 compiler_4.0.0
VarCorr: .........1
Very basic glmmTMB fitting: .................................
trickier examples: ..............
glmmTMBControl: ..
Testing dispersion: .WW.
emmeans: ...
car::Anova: ..
effects: .W.
test edge cases: .
basic examples: ...
alternative binomial specifications: ..........
fitting exotic families: ..............................
trunc compois: ...
compois: ...
genpois: ..
tweedie: .....
link function info available: ............
link info added to family: ...
formula parsing: ................
basic methods: ........................WW.................................
simulate consistency with glm/lm: ...
Ranef etc.: .......
refit: ...
offsets: ..........
Predicting new levels: .
Catch invalid predictions: ...
Predict two-column response case: .
Prediction with dispformula=~0: .
Handling NA values in predictions: ....W.W..
prediction with different binomial specs: ..
zero-inflation prediction: .....
deprecated zitype parameter: .
complex bases: ........
REML: ......
Saving and loading glmmTMB objects: .
..variance structures: ..............
weight: ....
ZI models: ..
══ Warnings ════════════════════════════════════════════════════════════════════
1. (unknown) (@test-disp.R#39) - Model convergence problem; false convergence (8). See vignette('troubleshooting')
2. (unknown) - Model convergence problem; false convergence (8). See vignette('troubleshooting')
3. (unknown) (@test-downstream.R#49) - overriding variance function for effects: computed variances may be incorrect
4. terms (@test-methods.R#137) - Model convergence problem; non-positive-definite Hessian matrix. See vignette('troubleshooting')
5. terms (@test-methods.R#137) - Model convergence problem; function evaluation limit reached without convergence (9). See vignette('troubleshooting')
6. (unknown) (@test-predict.R#75) - `failure_message` is missing, with no default.
7. (unknown) (@test-predict.R#77) - `failure_message` is missing, with no default.
══ Failed ══════════════════════════════════════════════════════════════════════
── 1. Failure: (unknown) (@test-VarCorr.R#167) ────────────────────────────────
`c3` not equal to structure(...).
Component "V3": Mean relative difference: 1.444528e-05
══ DONE ════════════════════════════════════════════════════════════════════════
Error: Test failures
Execution halted
Flavor: r-devel-linux-x86_64-debian-gcc
Version: 0.2.3
Check: installed package size
Result: NOTE
installed size is 45.3Mb
sub-directories of 1Mb or more:
doc 1.1Mb
libs 43.0Mb
Flavors: r-devel-linux-x86_64-fedora-clang, r-release-osx-x86_64, r-oldrel-osx-x86_64
Version: 0.2.3
Check: tests
Result: ERROR
Running ‘AAAtest-all.R’ [168s/273s]
Running the tests in ‘tests/AAAtest-all.R’ failed.
Complete output:
> if(require("testthat")) {
+ pkg <- "glmmTMB"
+ require(pkg, character.only=TRUE)
+ print(sessionInfo())
+ test_check(pkg, reporter="summary")
+ print(warnings()) # TODO? catch most of these by expect_warning(..)
+ } else {
+ warnings("Package 'testthat' not available, cannot run unit tests for package",
+ sQuote(pkg))
+ }
Loading required package: testthat
Loading required package: glmmTMB
R Under development (unstable) (2020-01-28 r77731)
Platform: x86_64-pc-linux-gnu (64-bit)
Running under: Fedora 30 (Workstation Edition)
Matrix products: default
BLAS: /data/gannet/ripley/R/R-clang/lib/libRblas.so
LAPACK: /data/gannet/ripley/R/R-clang/lib/libRlapack.so
locale:
[1] LC_CTYPE=en_GB.utf8 LC_NUMERIC=C
[3] LC_TIME=en_GB.UTF-8 LC_COLLATE=C
[5] LC_MONETARY=en_GB.UTF-8 LC_MESSAGES=en_GB.UTF-8
[7] LC_PAPER=en_GB.UTF-8 LC_NAME=C
[9] LC_ADDRESS=C LC_TELEPHONE=C
[11] LC_MEASUREMENT=en_GB.UTF-8 LC_IDENTIFICATION=C
attached base packages:
[1] stats graphics grDevices utils datasets methods base
other attached packages:
[1] glmmTMB_0.2.3 testthat_2.3.1
loaded via a namespace (and not attached):
[1] Rcpp_1.0.3 lattice_0.20-38 MASS_7.3-51.5 grid_4.0.0
[5] R6_2.4.1 nlme_3.1-143 magrittr_1.5 rlang_0.4.3
[9] minqa_1.2.4 nloptr_1.2.1 Matrix_1.2-18 boot_1.3-24
[13] splines_4.0.0 lme4_1.1-21 TMB_1.7.16 compiler_4.0.0
VarCorr: .........1
Very basic glmmTMB fitting: .................................
trickier examples: ..............
glmmTMBControl: ..
Testing dispersion: ..
emmeans: ...
car::Anova: ..
effects: .W.
test edge cases: .
basic examples: ...
alternative binomial specifications: ..........
fitting exotic families: ..............................
trunc compois: ...
compois: ...
genpois: ..
tweedie: .....
link function info available: ............
link info added to family: ...
formula parsing: ................
basic methods: ........................WW.................................
simulate consistency with glm/lm: ...
Ranef etc.: .......
refit: ...
offsets: ..........
Predicting new levels: .
Catch invalid predictions: ...
Predict two-column response case: .
Prediction with dispformula=~0: .
Handling NA values in predictions: ....W.W..
prediction with different binomial specs: ..
zero-inflation prediction: .....
deprecated zitype parameter: .
complex bases: ........
REML: ......
Saving and loading glmmTMB objects: .
..variance structures: ..............
weight: ....
ZI models: ..
══ Warnings ════════════════════════════════════════════════════════════════════
1. (unknown) (@test-downstream.R#49) - overriding variance function for effects: computed variances may be incorrect
2. terms (@test-methods.R#137) - Model convergence problem; non-positive-definite Hessian matrix. See vignette('troubleshooting')
3. terms (@test-methods.R#137) - Model convergence problem; function evaluation limit reached without convergence (9). See vignette('troubleshooting')
4. (unknown) (@test-predict.R#75) - `failure_message` is missing, with no default.
5. (unknown) (@test-predict.R#77) - `failure_message` is missing, with no default.
══ Failed ══════════════════════════════════════════════════════════════════════
── 1. Failure: (unknown) (@test-VarCorr.R#167) ────────────────────────────────
`c3` not equal to structure(...).
Component "V3": Mean relative difference: 1.444528e-05
══ DONE ════════════════════════════════════════════════════════════════════════
Error: Test failures
Execution halted
Flavor: r-devel-linux-x86_64-fedora-clang
Version: 0.2.3
Check: tests
Result: ERROR
Running ‘AAAtest-all.R’ [176s/200s]
Running the tests in ‘tests/AAAtest-all.R’ failed.
Complete output:
> if(require("testthat")) {
+ pkg <- "glmmTMB"
+ require(pkg, character.only=TRUE)
+ print(sessionInfo())
+ test_check(pkg, reporter="summary")
+ print(warnings()) # TODO? catch most of these by expect_warning(..)
+ } else {
+ warnings("Package 'testthat' not available, cannot run unit tests for package",
+ sQuote(pkg))
+ }
Loading required package: testthat
Loading required package: glmmTMB
R Under development (unstable) (2020-01-28 r77731)
Platform: x86_64-pc-linux-gnu (64-bit)
Running under: Fedora 30 (Workstation Edition)
Matrix products: default
BLAS: /data/gannet/ripley/R/R-devel/lib/libRblas.so
LAPACK: /data/gannet/ripley/R/R-devel/lib/libRlapack.so
locale:
[1] LC_CTYPE=en_GB.utf8 LC_NUMERIC=C
[3] LC_TIME=en_GB.UTF-8 LC_COLLATE=C
[5] LC_MONETARY=en_GB.UTF-8 LC_MESSAGES=en_GB.UTF-8
[7] LC_PAPER=en_GB.UTF-8 LC_NAME=C
[9] LC_ADDRESS=C LC_TELEPHONE=C
[11] LC_MEASUREMENT=en_GB.UTF-8 LC_IDENTIFICATION=C
attached base packages:
[1] stats graphics grDevices utils datasets methods base
other attached packages:
[1] glmmTMB_0.2.3 testthat_2.3.1
loaded via a namespace (and not attached):
[1] Rcpp_1.0.3 lattice_0.20-38 MASS_7.3-51.5 grid_4.0.0
[5] R6_2.4.1 nlme_3.1-143 magrittr_1.5 rlang_0.4.3
[9] minqa_1.2.4 nloptr_1.2.1 Matrix_1.2-18 boot_1.3-24
[13] splines_4.0.0 lme4_1.1-21 TMB_1.7.16 compiler_4.0.0
VarCorr: .........1
Very basic glmmTMB fitting: .................................
trickier examples: ..............
glmmTMBControl: ..
Testing dispersion: ..
emmeans: ...
car::Anova: ..
effects: .W.
test edge cases: .
basic examples: ...
alternative binomial specifications: ..........
fitting exotic families: ..............................
trunc compois: ...
compois: ...
genpois: ..
tweedie: .....
link function info available: ............
link info added to family: ...
formula parsing: ................
basic methods: ........................WW.................................
simulate consistency with glm/lm: ...
Ranef etc.: .......
refit: ...
offsets: ..........
Predicting new levels: .
Catch invalid predictions: ...
Predict two-column response case: .
Prediction with dispformula=~0: .
Handling NA values in predictions: ....W.W..
prediction with different binomial specs: ..
zero-inflation prediction: .....
deprecated zitype parameter: .
complex bases: ........
REML: ......
Saving and loading glmmTMB objects: .
..variance structures: ..............
weight: ....
ZI models: ..
══ Warnings ════════════════════════════════════════════════════════════════════
1. (unknown) (@test-downstream.R#49) - overriding variance function for effects: computed variances may be incorrect
2. terms (@test-methods.R#137) - Model convergence problem; non-positive-definite Hessian matrix. See vignette('troubleshooting')
3. terms (@test-methods.R#137) - Model convergence problem; function evaluation limit reached without convergence (9). See vignette('troubleshooting')
4. (unknown) (@test-predict.R#75) - `failure_message` is missing, with no default.
5. (unknown) (@test-predict.R#77) - `failure_message` is missing, with no default.
══ Failed ══════════════════════════════════════════════════════════════════════
── 1. Failure: (unknown) (@test-VarCorr.R#167) ────────────────────────────────
`c3` not equal to structure(...).
Component "V3": Mean relative difference: 1.444528e-05
══ DONE ════════════════════════════════════════════════════════════════════════
Error: Test failures
Execution halted
Flavor: r-devel-linux-x86_64-fedora-gcc
Version: 0.2.3
Flags: --no-vignettes
Check: installed package size
Result: NOTE
installed size is 23.5Mb
sub-directories of 1Mb or more:
doc 1.0Mb
libs 21.2Mb
Flavors: r-devel-windows-ix86+x86_64, r-devel-windows-ix86+x86_64-gcc8, r-release-windows-ix86+x86_64, r-oldrel-windows-ix86+x86_64
Version: 0.2.3
Flags: --no-vignettes
Check: running tests for arch ‘x64’
Result: ERROR
Running 'AAAtest-all.R' [164s]
Running the tests in 'tests/AAAtest-all.R' failed.
Complete output:
> if(require("testthat")) {
+ pkg <- "glmmTMB"
+ require(pkg, character.only=TRUE)
+ print(sessionInfo())
+ test_check(pkg, reporter="summary")
+ print(warnings()) # TODO? catch most of these by expect_warning(..)
+ } else {
+ warnings("Package 'testthat' not available, cannot run unit tests for package",
+ sQuote(pkg))
+ }
Loading required package: testthat
Loading required package: glmmTMB
R Under development (unstable) (2020-01-24 r77710)
Platform: x86_64-w64-mingw32/x64 (64-bit)
Running under: Windows Server 2008 x64 (build 6003) Service Pack 2
Matrix products: default
locale:
[1] LC_COLLATE=C LC_CTYPE=German_Germany.1252
[3] LC_MONETARY=C LC_NUMERIC=C
[5] LC_TIME=C
attached base packages:
[1] stats graphics grDevices utils datasets methods base
other attached packages:
[1] glmmTMB_0.2.3 testthat_2.3.1
loaded via a namespace (and not attached):
[1] Rcpp_1.0.3 lattice_0.20-38 MASS_7.3-51.5 grid_4.0.0
[5] R6_2.4.1 nlme_3.1-143 magrittr_1.5 rlang_0.4.3
[9] minqa_1.2.4 nloptr_1.2.1 Matrix_1.2-18 boot_1.3-24
[13] splines_4.0.0 lme4_1.1-21 TMB_1.7.16 compiler_4.0.0
VarCorr: .........1
Very basic glmmTMB fitting: .................................
trickier examples: ..............
glmmTMBControl: ..
Testing dispersion: .WW.
emmeans: ...
car::Anova: ..
effects: .W.
test edge cases: .
basic examples: ...
alternative binomial specifications: ..........
fitting exotic families: ..............................
trunc compois: ...
compois: ...
genpois: ..
tweedie: .....
link function info available: ............
link info added to family: ...
formula parsing: ................
basic methods: ........................WW.................................
simulate consistency with glm/lm: ...
Ranef etc.: .......
refit: ...
offsets: ..........
Predicting new levels: .
Catch invalid predictions: ...
Predict two-column response case: .
Prediction with dispformula=~0: .
Handling NA values in predictions: ....W.W..
prediction with different binomial specs: ..
zero-inflation prediction: .....
deprecated zitype parameter: .
complex bases: ........
REML: ......
Saving and loading glmmTMB objects: .
..variance structures: ..............
weight: ....
ZI models: ..
== Warnings ====================================================================
1. (unknown) (@test-disp.R#39) - Model convergence problem; false convergence (8). See vignette('troubleshooting')
2. (unknown) - Model convergence problem; false convergence (8). See vignette('troubleshooting')
3. (unknown) (@test-downstream.R#49) - overriding variance function for effects: computed variances may be incorrect
4. terms (@test-methods.R#137) - Model convergence problem; non-positive-definite Hessian matrix. See vignette('troubleshooting')
5. terms (@test-methods.R#137) - Model convergence problem; function evaluation limit reached without convergence (9). See vignette('troubleshooting')
6. (unknown) (@test-predict.R#75) - `failure_message` is missing, with no default.
7. (unknown) (@test-predict.R#77) - `failure_message` is missing, with no default.
== Failed ======================================================================
-- 1. Failure: (unknown) (@test-VarCorr.R#167) --------------------------------
`c3` not equal to structure(...).
Component "V3": Mean relative difference: 1.444528e-05
== DONE ========================================================================
Error: Test failures
Execution halted
Flavor: r-devel-windows-ix86+x86_64
Version: 0.2.3
Flags: --no-vignettes
Check: running tests for arch ‘x64’
Result: ERROR
Running 'AAAtest-all.R' [184s]
Running the tests in 'tests/AAAtest-all.R' failed.
Complete output:
> if(require("testthat")) {
+ pkg <- "glmmTMB"
+ require(pkg, character.only=TRUE)
+ print(sessionInfo())
+ test_check(pkg, reporter="summary")
+ print(warnings()) # TODO? catch most of these by expect_warning(..)
+ } else {
+ warnings("Package 'testthat' not available, cannot run unit tests for package",
+ sQuote(pkg))
+ }
Loading required package: testthat
Loading required package: glmmTMB
R Under development (unstable) (2020-01-07 r77633)
Platform: x86_64-w64-mingw32/x64 (64-bit)
Running under: Windows Server 2008 x64 (build 6003) Service Pack 2
Matrix products: default
locale:
[1] LC_COLLATE=C LC_CTYPE=German_Germany.1252
[3] LC_MONETARY=C LC_NUMERIC=C
[5] LC_TIME=C
attached base packages:
[1] stats graphics grDevices utils datasets methods base
other attached packages:
[1] glmmTMB_0.2.3 testthat_2.3.1
loaded via a namespace (and not attached):
[1] Rcpp_1.0.3 lattice_0.20-38 MASS_7.3-51.5 grid_4.0.0
[5] R6_2.4.1 nlme_3.1-143 magrittr_1.5 rlang_0.4.2
[9] minqa_1.2.4 nloptr_1.2.1 Matrix_1.2-18 boot_1.3-24
[13] splines_4.0.0 lme4_1.1-21 TMB_1.7.16 compiler_4.0.0
VarCorr: .........1
Very basic glmmTMB fitting: .................................
trickier examples: ..............
glmmTMBControl: ..
Testing dispersion: .WW.
emmeans: ...
car::Anova: ..
effects: .W.
test edge cases: .
basic examples: ...
alternative binomial specifications: ..........
fitting exotic families: ..............................
trunc compois: ...
compois: ...
genpois: ..
tweedie: .....
link function info available: ............
link info added to family: ...
formula parsing: ................
basic methods: ........................WW.................................
simulate consistency with glm/lm: ...
Ranef etc.: .......
refit: ...
offsets: ..........
Predicting new levels: .
Catch invalid predictions: ...
Predict two-column response case: .
Prediction with dispformula=~0: .
Handling NA values in predictions: ....W.W..
prediction with different binomial specs: ..
zero-inflation prediction: .....
deprecated zitype parameter: .
complex bases: ........
REML: ......
Saving and loading glmmTMB objects: .
..variance structures: ..............
weight: ....
ZI models: ..
== Warnings ====================================================================
1. (unknown) (@test-disp.R#39) - Model convergence problem; false convergence (8). See vignette('troubleshooting')
2. (unknown) - Model convergence problem; false convergence (8). See vignette('troubleshooting')
3. (unknown) (@test-downstream.R#49) - overriding variance function for effects: computed variances may be incorrect
4. terms (@test-methods.R#137) - Model convergence problem; non-positive-definite Hessian matrix. See vignette('troubleshooting')
5. terms (@test-methods.R#137) - Model convergence problem; function evaluation limit reached without convergence (9). See vignette('troubleshooting')
6. (unknown) (@test-predict.R#75) - `failure_message` is missing, with no default.
7. (unknown) (@test-predict.R#77) - `failure_message` is missing, with no default.
== Failed ======================================================================
-- 1. Failure: (unknown) (@test-VarCorr.R#167) --------------------------------
`c3` not equal to structure(...).
Component "V3": Mean relative difference: 1.444528e-05
== DONE ========================================================================
Error: Test failures
Execution halted
Flavor: r-devel-windows-ix86+x86_64-gcc8
Version: 0.2.3
Check: tests
Result: ERROR
Running ‘AAAtest-all.R’ [141s/150s]
Running the tests in ‘tests/AAAtest-all.R’ failed.
Complete output:
> if(require("testthat")) {
+ pkg <- "glmmTMB"
+ require(pkg, character.only=TRUE)
+ print(sessionInfo())
+ test_check(pkg, reporter="summary")
+ print(warnings()) # TODO? catch most of these by expect_warning(..)
+ } else {
+ warnings("Package 'testthat' not available, cannot run unit tests for package",
+ sQuote(pkg))
+ }
Loading required package: testthat
Loading required package: glmmTMB
R version 3.6.2 Patched (2020-01-25 r77715)
Platform: x86_64-pc-linux-gnu (64-bit)
Running under: Debian GNU/Linux bullseye/sid
Matrix products: default
BLAS: /home/hornik/tmp/R.check/r-patched-gcc/Work/build/lib/libRblas.so
LAPACK: /home/hornik/tmp/R.check/r-patched-gcc/Work/build/lib/libRlapack.so
locale:
[1] LC_CTYPE=en_US.UTF-8 LC_NUMERIC=C
[3] LC_TIME=en_US.UTF-8 LC_COLLATE=C
[5] LC_MONETARY=en_US.UTF-8 LC_MESSAGES=en_US.UTF-8
[7] LC_PAPER=en_US.UTF-8 LC_NAME=C
[9] LC_ADDRESS=C LC_TELEPHONE=C
[11] LC_MEASUREMENT=en_US.UTF-8 LC_IDENTIFICATION=C
attached base packages:
[1] stats graphics grDevices utils datasets methods base
other attached packages:
[1] glmmTMB_0.2.3 testthat_2.3.1
loaded via a namespace (and not attached):
[1] Rcpp_1.0.3 lattice_0.20-38 MASS_7.3-51.5 grid_3.6.2
[5] R6_2.4.1 nlme_3.1-143 magrittr_1.5 rlang_0.4.3
[9] minqa_1.2.4 nloptr_1.2.1 Matrix_1.2-18 boot_1.3-24
[13] splines_3.6.2 lme4_1.1-21 TMB_1.7.16 compiler_3.6.2
VarCorr: .........1
Very basic glmmTMB fitting: .................................
trickier examples: ..............
glmmTMBControl: ..
Testing dispersion: ..
emmeans: ...
car::Anova: ..
effects: .W.
test edge cases: .
basic examples: ...
alternative binomial specifications: ..........
fitting exotic families: ..............................
trunc compois: ...
compois: ...
genpois: ..
tweedie: .....
link function info available: ............
link info added to family: ...
formula parsing: ................
basic methods: ........................WW.................................
simulate consistency with glm/lm: ...
Ranef etc.: .......
refit: ...
offsets: ..........
Predicting new levels: .
Catch invalid predictions: ...
Predict two-column response case: .
Prediction with dispformula=~0: .
Handling NA values in predictions: ....W.W..
prediction with different binomial specs: ..
zero-inflation prediction: .....
deprecated zitype parameter: .
complex bases: ........
REML: ......
Saving and loading glmmTMB objects: .
..variance structures: ..............
weight: ....
ZI models: ..
══ Warnings ════════════════════════════════════════════════════════════════════
1. (unknown) (@test-downstream.R#49) - overriding variance function for effects: computed variances may be incorrect
2. terms (@test-methods.R#137) - Model convergence problem; non-positive-definite Hessian matrix. See vignette('troubleshooting')
3. terms (@test-methods.R#137) - Model convergence problem; function evaluation limit reached without convergence (9). See vignette('troubleshooting')
4. (unknown) (@test-predict.R#75) - `failure_message` is missing, with no default.
5. (unknown) (@test-predict.R#77) - `failure_message` is missing, with no default.
══ Failed ══════════════════════════════════════════════════════════════════════
── 1. Failure: (unknown) (@test-VarCorr.R#167) ────────────────────────────────
`c3` not equal to structure(...).
Component "V3": Mean relative difference: 1.444528e-05
══ DONE ════════════════════════════════════════════════════════════════════════
Error: Test failures
Execution halted
Flavor: r-patched-linux-x86_64
Version: 0.2.3
Check: tests
Result: ERROR
Running ‘AAAtest-all.R’ [142s/150s]
Running the tests in ‘tests/AAAtest-all.R’ failed.
Complete output:
> if(require("testthat")) {
+ pkg <- "glmmTMB"
+ require(pkg, character.only=TRUE)
+ print(sessionInfo())
+ test_check(pkg, reporter="summary")
+ print(warnings()) # TODO? catch most of these by expect_warning(..)
+ } else {
+ warnings("Package 'testthat' not available, cannot run unit tests for package",
+ sQuote(pkg))
+ }
Loading required package: testthat
Loading required package: glmmTMB
R version 3.6.2 (2019-12-12)
Platform: x86_64-pc-linux-gnu (64-bit)
Running under: Debian GNU/Linux bullseye/sid
Matrix products: default
BLAS: /home/hornik/tmp/R.check/r-release-gcc/Work/build/lib/libRblas.so
LAPACK: /home/hornik/tmp/R.check/r-release-gcc/Work/build/lib/libRlapack.so
locale:
[1] LC_CTYPE=en_US.UTF-8 LC_NUMERIC=C
[3] LC_TIME=en_US.UTF-8 LC_COLLATE=C
[5] LC_MONETARY=en_US.UTF-8 LC_MESSAGES=en_US.UTF-8
[7] LC_PAPER=en_US.UTF-8 LC_NAME=C
[9] LC_ADDRESS=C LC_TELEPHONE=C
[11] LC_MEASUREMENT=en_US.UTF-8 LC_IDENTIFICATION=C
attached base packages:
[1] stats graphics grDevices utils datasets methods base
other attached packages:
[1] glmmTMB_0.2.3 testthat_2.3.1
loaded via a namespace (and not attached):
[1] Rcpp_1.0.3 lattice_0.20-38 MASS_7.3-51.5 grid_3.6.2
[5] R6_2.4.1 nlme_3.1-143 magrittr_1.5 rlang_0.4.3
[9] minqa_1.2.4 nloptr_1.2.1 Matrix_1.2-18 boot_1.3-24
[13] splines_3.6.2 lme4_1.1-21 TMB_1.7.16 compiler_3.6.2
VarCorr: .........1
Very basic glmmTMB fitting: .................................
trickier examples: ..............
glmmTMBControl: ..
Testing dispersion: ..
emmeans: ...
car::Anova: ..
effects: .W.
test edge cases: .
basic examples: ...
alternative binomial specifications: ..........
fitting exotic families: ..............................
trunc compois: ...
compois: ...
genpois: ..
tweedie: .....
link function info available: ............
link info added to family: ...
formula parsing: ................
basic methods: ........................WW.................................
simulate consistency with glm/lm: ...
Ranef etc.: .......
refit: ...
offsets: ..........
Predicting new levels: .
Catch invalid predictions: ...
Predict two-column response case: .
Prediction with dispformula=~0: .
Handling NA values in predictions: ....W.W..
prediction with different binomial specs: ..
zero-inflation prediction: .....
deprecated zitype parameter: .
complex bases: ........
REML: ......
Saving and loading glmmTMB objects: .
..variance structures: ..............
weight: ....
ZI models: ..
══ Warnings ════════════════════════════════════════════════════════════════════
1. (unknown) (@test-downstream.R#49) - overriding variance function for effects: computed variances may be incorrect
2. terms (@test-methods.R#137) - Model convergence problem; non-positive-definite Hessian matrix. See vignette('troubleshooting')
3. terms (@test-methods.R#137) - Model convergence problem; function evaluation limit reached without convergence (9). See vignette('troubleshooting')
4. (unknown) (@test-predict.R#75) - `failure_message` is missing, with no default.
5. (unknown) (@test-predict.R#77) - `failure_message` is missing, with no default.
══ Failed ══════════════════════════════════════════════════════════════════════
── 1. Failure: (unknown) (@test-VarCorr.R#167) ────────────────────────────────
`c3` not equal to structure(...).
Component "V3": Mean relative difference: 1.444528e-05
══ DONE ════════════════════════════════════════════════════════════════════════
Error: Test failures
Execution halted
Flavor: r-release-linux-x86_64
Version: 0.2.3
Flags: --no-vignettes
Check: running tests for arch ‘x64’
Result: ERROR
Running 'AAAtest-all.R' [188s]
Running the tests in 'tests/AAAtest-all.R' failed.
Complete output:
> if(require("testthat")) {
+ pkg <- "glmmTMB"
+ require(pkg, character.only=TRUE)
+ print(sessionInfo())
+ test_check(pkg, reporter="summary")
+ print(warnings()) # TODO? catch most of these by expect_warning(..)
+ } else {
+ warnings("Package 'testthat' not available, cannot run unit tests for package",
+ sQuote(pkg))
+ }
Loading required package: testthat
Loading required package: glmmTMB
R version 3.6.2 (2019-12-12)
Platform: x86_64-w64-mingw32/x64 (64-bit)
Running under: Windows Server 2008 x64 (build 6003) Service Pack 2
Matrix products: default
locale:
[1] LC_COLLATE=C LC_CTYPE=German_Germany.1252
[3] LC_MONETARY=C LC_NUMERIC=C
[5] LC_TIME=C
attached base packages:
[1] stats graphics grDevices utils datasets methods base
other attached packages:
[1] glmmTMB_0.2.3 testthat_2.3.1
loaded via a namespace (and not attached):
[1] Rcpp_1.0.3 lattice_0.20-38 MASS_7.3-51.5 grid_3.6.2
[5] R6_2.4.1 nlme_3.1-142 magrittr_1.5 rlang_0.4.2
[9] minqa_1.2.4 nloptr_1.2.1 Matrix_1.2-18 boot_1.3-24
[13] splines_3.6.2 lme4_1.1-21 TMB_1.7.16 compiler_3.6.2
VarCorr: .........1
Very basic glmmTMB fitting: .................................
trickier examples: ..............
glmmTMBControl: ..
Testing dispersion: .WW.
emmeans: ...
car::Anova: ..
effects: .W.
test edge cases: .
basic examples: ...
alternative binomial specifications: ..........
fitting exotic families: ..............................
trunc compois: ...
compois: ...
genpois: ..
tweedie: .....
link function info available: ............
link info added to family: ...
formula parsing: ................
basic methods: ........................WW.................................
simulate consistency with glm/lm: ...
Ranef etc.: .......
refit: ...
offsets: ..........
Predicting new levels: .
Catch invalid predictions: ...
Predict two-column response case: .
Prediction with dispformula=~0: .
Handling NA values in predictions: ....W.W..
prediction with different binomial specs: ..
zero-inflation prediction: .....
deprecated zitype parameter: .
complex bases: ........
REML: ......
Saving and loading glmmTMB objects: .
..variance structures: ..............
weight: ....
ZI models: ..
== Warnings ====================================================================
1. (unknown) (@test-disp.R#39) - Model convergence problem; false convergence (8). See vignette('troubleshooting')
2. (unknown) - Model convergence problem; false convergence (8). See vignette('troubleshooting')
3. (unknown) (@test-downstream.R#49) - overriding variance function for effects: computed variances may be incorrect
4. terms (@test-methods.R#137) - Model convergence problem; non-positive-definite Hessian matrix. See vignette('troubleshooting')
5. terms (@test-methods.R#137) - Model convergence problem; function evaluation limit reached without convergence (9). See vignette('troubleshooting')
6. (unknown) (@test-predict.R#75) - `failure_message` is missing, with no default.
7. (unknown) (@test-predict.R#77) - `failure_message` is missing, with no default.
== Failed ======================================================================
-- 1. Failure: (unknown) (@test-VarCorr.R#167) --------------------------------
`c3` not equal to structure(...).
Component "V3": Mean relative difference: 1.444528e-05
== DONE ========================================================================
Error: Test failures
Execution halted
Flavor: r-release-windows-ix86+x86_64
Version: 0.2.3
Flags: --no-vignettes
Check: running tests for arch ‘x64’
Result: ERROR
Running 'AAAtest-all.R' [175s]
Running the tests in 'tests/AAAtest-all.R' failed.
Complete output:
> if(require("testthat")) {
+ pkg <- "glmmTMB"
+ require(pkg, character.only=TRUE)
+ print(sessionInfo())
+ test_check(pkg, reporter="summary")
+ print(warnings()) # TODO? catch most of these by expect_warning(..)
+ } else {
+ warnings("Package 'testthat' not available, cannot run unit tests for package",
+ sQuote(pkg))
+ }
Loading required package: testthat
Loading required package: glmmTMB
R version 3.5.3 (2019-03-11)
Platform: x86_64-w64-mingw32/x64 (64-bit)
Running under: Windows Server 2008 x64 (build 6003) Service Pack 2
Matrix products: default
locale:
[1] LC_COLLATE=C LC_CTYPE=German_Germany.1252
[3] LC_MONETARY=C LC_NUMERIC=C
[5] LC_TIME=C
attached base packages:
[1] stats graphics grDevices utils datasets methods base
other attached packages:
[1] glmmTMB_0.2.3 testthat_2.3.1
loaded via a namespace (and not attached):
[1] Rcpp_1.0.3 lattice_0.20-38 MASS_7.3-51.5 grid_3.5.3
[5] R6_2.4.1 nlme_3.1-137 magrittr_1.5 rlang_0.4.3
[9] minqa_1.2.4 nloptr_1.2.1 Matrix_1.2-18 boot_1.3-24
[13] splines_3.5.3 lme4_1.1-21 TMB_1.7.16 compiler_3.5.3
VarCorr: .........1
Very basic glmmTMB fitting: .................................
trickier examples: ..............
glmmTMBControl: ..
Testing dispersion: .WW.
emmeans: ...
car::Anova: ..
effects: .W.
test edge cases: .
basic examples: ...
alternative binomial specifications: ..........
fitting exotic families: ..............................
trunc compois: ...
compois: ...
genpois: ..
tweedie: .....
link function info available: ............
link info added to family: ...
formula parsing: ................
basic methods: ........................WW.................................
simulate consistency with glm/lm: ...
Ranef etc.: .......
refit: ...
offsets: ..........
Predicting new levels: .
Catch invalid predictions: ...
Predict two-column response case: .
Prediction with dispformula=~0: .
Handling NA values in predictions: ....W.W..
prediction with different binomial specs: ..
zero-inflation prediction: .....
deprecated zitype parameter: .
complex bases: ........
REML: ......
Saving and loading glmmTMB objects: .
..variance structures: ..............
weight: ....
ZI models: ..
== Warnings ====================================================================
1. (unknown) (@test-disp.R#39) - Model convergence problem; false convergence (8). See vignette('troubleshooting')
2. (unknown) - Model convergence problem; false convergence (8). See vignette('troubleshooting')
3. (unknown) (@test-downstream.R#49) - overriding variance function for effects: computed variances may be incorrect
4. terms (@test-methods.R#137) - Model convergence problem; non-positive-definite Hessian matrix. See vignette('troubleshooting')
5. terms (@test-methods.R#137) - Model convergence problem; function evaluation limit reached without convergence (9). See vignette('troubleshooting')
6. (unknown) (@test-predict.R#75) - `failure_message` is missing, with no default.
7. (unknown) (@test-predict.R#77) - `failure_message` is missing, with no default.
== Failed ======================================================================
-- 1. Failure: (unknown) (@test-VarCorr.R#167) --------------------------------
`c3` not equal to structure(...).
Component "V3": Mean relative difference: 1.444528e-05
== DONE ========================================================================
Error: Test failures
Execution halted
Flavor: r-oldrel-windows-ix86+x86_64