CRAN Package Check Results for Package surveillance

Last updated on 2017-06-25 18:48:06.

Flavor Version Tinstall Tcheck Ttotal Status Flags
r-devel-linux-x86_64-debian-clang 1.13.1 24.45 333.64 358.09 ERROR
r-devel-linux-x86_64-debian-gcc 1.13.1 23.78 324.45 348.23 ERROR
r-devel-linux-x86_64-fedora-clang 1.13.1 722.38 ERROR
r-devel-linux-x86_64-fedora-gcc 1.13.1 666.74 ERROR
r-devel-windows-ix86+x86_64 1.13.1 95.00 610.00 705.00 ERROR --no-vignettes
r-patched-linux-x86_64 1.13.1 20.72 322.38 343.10 ERROR
r-patched-solaris-sparc 1.13.1 3794.70 ERROR
r-patched-solaris-x86 1.13.1 820.10 ERROR
r-release-linux-x86_64 1.13.1 23.64 330.80 354.44 ERROR
r-release-windows-ix86+x86_64 1.13.1 105.00 654.00 759.00 ERROR --no-vignettes
r-release-osx-x86_64 1.13.1 NOTE
r-oldrel-windows-ix86+x86_64 1.13.1 79.00 582.00 661.00 ERROR --no-vignettes
r-oldrel-osx-x86_64 1.13.1 NOTE

Check Details

Version: 1.13.1
Check: package dependencies
Result: NOTE
    Package suggested but not available for checking: ‘INLA’
Flavors: r-devel-linux-x86_64-debian-clang, r-devel-linux-x86_64-debian-gcc, r-patched-linux-x86_64, r-patched-solaris-sparc, r-patched-solaris-x86, r-release-linux-x86_64, r-release-osx-x86_64, r-oldrel-osx-x86_64

Version: 1.13.1
Check: tests
Result: ERROR
     Running ‘testthat.R’ [26s/26s]
    Running the tests in ‘tests/testthat.R’ failed.
    Complete output:
     > if (require("testthat")) {
     + test_check("surveillance")
     + }
     Loading required package: testthat
     Loading required package: surveillance
     Loading required package: sp
     Loading required package: xtable
     Loading required package: polyCub
     This is surveillance 1.13.1. For overview type 'help(surveillance)'.
    
     Penalized log-likelihood:
     Checking analytical score vector using numDeriv::grad() ...
     [1] TRUE
     Checking analytical Fisher information matrix using numDeriv::hessian() ...
     [1] "Mean relative difference: 3.881263e-07"
    
     Penalized log-likelihood:
     Checking analytical score vector using numDeriv::grad() ...
     [1] TRUE
     Checking analytical Fisher information matrix using numDeriv::hessian() ...
     [1] "Mean relative difference: 1.551014e-07"
     'F' vs. cubature using method = "midpoint" ... TRUE
     'Fcircle' vs. cubature using method = "midpoint" ... TRUE
     'deriv' vs. numerical derivative ... TRUE
     'Deriv' vs. cubature using method = "midpoint" ... TRUE
     Checking 'intrfr' against a numeric approximation ... OK
     Checking 'intrfr' against a numeric approximation ... OK
     Checking 'intrfr' against a numeric approximation ... OK
     Checking 'intrfr' against a numeric approximation ... OK
     Checking 'intrfr' against a numeric approximation ... OK
     Checking 'intrfr' against a numeric approximation ... OK
     Checking 'intrfr' against a numeric approximation ... OK
     Checking 'intrfr' against a numeric approximation ... OK
     Checking 'intrfr' against a numeric approximation ... OK
     'F' vs. cubature using method = "SV" ... TRUE
     'Fcircle' vs. cubature using method = "SV" ... TRUE
     'deriv' vs. numerical derivative ... TRUE
     'Deriv' vs. cubature using method = "SV" ...
     siaf parameter 1: TRUE
     siaf parameter 2: TRUE
     Checking 'intrfr' against a numeric approximation ... OK
     Checking 'intrfr' against a numeric approximation ... OK
     Checking 'intrfr' against a numeric approximation ... OK
     Checking 'intrfr' against a numeric approximation ... OK
     Checking 'intrfr' against a numeric approximation ... OK
     Checking 'intrfr' against a numeric approximation ... OK
     Checking 'intrfr' against a numeric approximation ... OK
     Checking 'intrfr' against a numeric approximation ... OK
     Checking 'intrfr' against a numeric approximation ... OK
     'F' vs. cubature using method = "midpoint" ... TRUE
     'Fcircle' vs. cubature using method = "midpoint" ... TRUE
     'deriv' vs. numerical derivative ... TRUE
     'Deriv' vs. cubature using method = "midpoint" ...
     siaf parameter 1: TRUE
     siaf parameter 2: TRUE
     Checking 'intrfr' against a numeric approximation ... OK
     Checking 'intrfr' against a numeric approximation ... OK
     Checking 'intrfr' against a numeric approximation ... OK
     Checking 'intrfr' against a numeric approximation ... OK
     Checking 'intrfr' against a numeric approximation ... OK
     Checking 'intrfr' against a numeric approximation ... OK
     Checking 'intrfr' against a numeric approximation ... OK
     Checking 'intrfr' against a numeric approximation ... OK
     Checking 'intrfr' against a numeric approximation ... OK
     'F' vs. cubature using method = "SV" ... TRUE
     'deriv' vs. numerical derivative ... TRUE
     'Deriv' vs. cubature using method = "SV" ...
     siaf parameter 1: TRUE
     siaf parameter 2: TRUE
     'F' vs. cubature using method = "midpoint" ... TRUE
     'Fcircle' vs. cubature using method = "midpoint" ... TRUE
     'deriv' vs. numerical derivative ... TRUE
     'Deriv' vs. cubature using method = "midpoint" ...
     siaf parameter 1: TRUE
     siaf parameter 2: TRUE
     siaf parameter 3: TRUE
     1. Error: Step kernel with maxRange>max(eps.t) is equivalent to maxRange=Inf (@test-tiafs.R#45)
     argument "new" is missing, with no default
     1: update(imdfit_steptiafInf, tiaf = tiaf.step(c(7, 20), maxRange = maxepst + 0.1)) at testthat/test-tiafs.R:45
     2: update.list(imdfit_steptiafInf, tiaf = tiaf.step(c(7, 20), maxRange = maxepst + 0.1))
    
     Error in update.list(model, siaf = NULL, tiaf = NULL, epidemic = ~1, epilink = "log") :
     argument "new" is missing, with no default
     Calls: test_check ... source_file -> eval -> eval -> update -> update.list
     testthat results ================================================================
     OK: 234 SKIPPED: 0 FAILED: 1
     1. Error: Step kernel with maxRange>max(eps.t) is equivalent to maxRange=Inf (@test-tiafs.R#45)
    
     Error: testthat unit tests failed
     Execution halted
Flavor: r-devel-linux-x86_64-debian-clang

Version: 1.13.1
Check: tests
Result: ERROR
     Running ‘testthat.R’ [23s/23s]
    Running the tests in ‘tests/testthat.R’ failed.
    Complete output:
     > if (require("testthat")) {
     + test_check("surveillance")
     + }
     Loading required package: testthat
     Loading required package: surveillance
     Loading required package: sp
     Loading required package: xtable
     Loading required package: polyCub
     This is surveillance 1.13.1. For overview type 'help(surveillance)'.
    
     Penalized log-likelihood:
     Checking analytical score vector using numDeriv::grad() ...
     [1] TRUE
     Checking analytical Fisher information matrix using numDeriv::hessian() ...
     [1] "Mean relative difference: 3.881263e-07"
    
     Penalized log-likelihood:
     Checking analytical score vector using numDeriv::grad() ...
     [1] TRUE
     Checking analytical Fisher information matrix using numDeriv::hessian() ...
     [1] "Mean relative difference: 1.551014e-07"
     'F' vs. cubature using method = "midpoint" ... TRUE
     'Fcircle' vs. cubature using method = "midpoint" ... TRUE
     'deriv' vs. numerical derivative ... TRUE
     'Deriv' vs. cubature using method = "midpoint" ... TRUE
     Checking 'intrfr' against a numeric approximation ... OK
     Checking 'intrfr' against a numeric approximation ... OK
     Checking 'intrfr' against a numeric approximation ... OK
     Checking 'intrfr' against a numeric approximation ... OK
     Checking 'intrfr' against a numeric approximation ... OK
     Checking 'intrfr' against a numeric approximation ... OK
     Checking 'intrfr' against a numeric approximation ... OK
     Checking 'intrfr' against a numeric approximation ... OK
     Checking 'intrfr' against a numeric approximation ... OK
     'F' vs. cubature using method = "SV" ... TRUE
     'Fcircle' vs. cubature using method = "SV" ... TRUE
     'deriv' vs. numerical derivative ... TRUE
     'Deriv' vs. cubature using method = "SV" ...
     siaf parameter 1: TRUE
     siaf parameter 2: TRUE
     Checking 'intrfr' against a numeric approximation ... OK
     Checking 'intrfr' against a numeric approximation ... OK
     Checking 'intrfr' against a numeric approximation ... OK
     Checking 'intrfr' against a numeric approximation ... OK
     Checking 'intrfr' against a numeric approximation ... OK
     Checking 'intrfr' against a numeric approximation ... OK
     Checking 'intrfr' against a numeric approximation ... OK
     Checking 'intrfr' against a numeric approximation ... OK
     Checking 'intrfr' against a numeric approximation ... OK
     'F' vs. cubature using method = "midpoint" ... TRUE
     'Fcircle' vs. cubature using method = "midpoint" ... TRUE
     'deriv' vs. numerical derivative ... TRUE
     'Deriv' vs. cubature using method = "midpoint" ...
     siaf parameter 1: TRUE
     siaf parameter 2: TRUE
     Checking 'intrfr' against a numeric approximation ... OK
     Checking 'intrfr' against a numeric approximation ... OK
     Checking 'intrfr' against a numeric approximation ... OK
     Checking 'intrfr' against a numeric approximation ... OK
     Checking 'intrfr' against a numeric approximation ... OK
     Checking 'intrfr' against a numeric approximation ... OK
     Checking 'intrfr' against a numeric approximation ... OK
     Checking 'intrfr' against a numeric approximation ... OK
     Checking 'intrfr' against a numeric approximation ... OK
     'F' vs. cubature using method = "SV" ... TRUE
     'deriv' vs. numerical derivative ... TRUE
     'Deriv' vs. cubature using method = "SV" ...
     siaf parameter 1: TRUE
     siaf parameter 2: TRUE
     'F' vs. cubature using method = "midpoint" ... TRUE
     'Fcircle' vs. cubature using method = "midpoint" ... TRUE
     'deriv' vs. numerical derivative ... TRUE
     'Deriv' vs. cubature using method = "midpoint" ...
     siaf parameter 1: TRUE
     siaf parameter 2: TRUE
     siaf parameter 3: TRUE
     1. Error: Step kernel with maxRange>max(eps.t) is equivalent to maxRange=Inf (@test-tiafs.R#45)
     argument "new" is missing, with no default
     1: update(imdfit_steptiafInf, tiaf = tiaf.step(c(7, 20), maxRange = maxepst + 0.1)) at testthat/test-tiafs.R:45
     2: update.list(imdfit_steptiafInf, tiaf = tiaf.step(c(7, 20), maxRange = maxepst + 0.1))
    
     Error in update.list(model, siaf = NULL, tiaf = NULL, epidemic = ~1, epilink = "log") :
     argument "new" is missing, with no default
     Calls: test_check ... source_file -> eval -> eval -> update -> update.list
     testthat results ================================================================
     OK: 234 SKIPPED: 0 FAILED: 1
     1. Error: Step kernel with maxRange>max(eps.t) is equivalent to maxRange=Inf (@test-tiafs.R#45)
    
     Error: testthat unit tests failed
     Execution halted
Flavors: r-devel-linux-x86_64-debian-gcc, r-patched-linux-x86_64

Version: 1.13.1
Check: installed package size
Result: NOTE
     installed size is 7.0Mb
     sub-directories of 1Mb or more:
     doc 2.3Mb
     libs 1.4Mb
Flavors: r-devel-linux-x86_64-fedora-clang, r-devel-linux-x86_64-fedora-gcc, r-patched-solaris-sparc, r-patched-solaris-x86, r-release-osx-x86_64, r-oldrel-osx-x86_64

Version: 1.13.1
Check: tests
Result: ERROR
     Running ‘testthat.R’ [50s/59s]
    Running the tests in ‘tests/testthat.R’ failed.
    Complete output:
     > if (require("testthat")) {
     + test_check("surveillance")
     + }
     Loading required package: testthat
     Loading required package: surveillance
     Loading required package: sp
     Loading required package: xtable
     Loading required package: polyCub
     This is surveillance 1.13.1. For overview type 'help(surveillance)'.
    
     Penalized log-likelihood:
     Checking analytical score vector using numDeriv::grad() ...
     [1] TRUE
     Checking analytical Fisher information matrix using numDeriv::hessian() ...
     [1] "Mean relative difference: 3.881263e-07"
    
     Penalized log-likelihood:
     Checking analytical score vector using numDeriv::grad() ...
     [1] TRUE
     Checking analytical Fisher information matrix using numDeriv::hessian() ...
     [1] "Mean relative difference: 1.551014e-07"
     'F' vs. cubature using method = "midpoint" ... TRUE
     'Fcircle' vs. cubature using method = "midpoint" ... TRUE
     'deriv' vs. numerical derivative ... TRUE
     'Deriv' vs. cubature using method = "midpoint" ... TRUE
     Checking 'intrfr' against a numeric approximation ... OK
     Checking 'intrfr' against a numeric approximation ... OK
     Checking 'intrfr' against a numeric approximation ... OK
     Checking 'intrfr' against a numeric approximation ... OK
     Checking 'intrfr' against a numeric approximation ... OK
     Checking 'intrfr' against a numeric approximation ... OK
     Checking 'intrfr' against a numeric approximation ... OK
     Checking 'intrfr' against a numeric approximation ... OK
     Checking 'intrfr' against a numeric approximation ... OK
     'F' vs. cubature using method = "SV" ... TRUE
     'Fcircle' vs. cubature using method = "SV" ... TRUE
     'deriv' vs. numerical derivative ... TRUE
     'Deriv' vs. cubature using method = "SV" ...
     siaf parameter 1: TRUE
     siaf parameter 2: TRUE
     Checking 'intrfr' against a numeric approximation ... OK
     Checking 'intrfr' against a numeric approximation ... OK
     Checking 'intrfr' against a numeric approximation ... OK
     Checking 'intrfr' against a numeric approximation ... OK
     Checking 'intrfr' against a numeric approximation ... OK
     Checking 'intrfr' against a numeric approximation ... OK
     Checking 'intrfr' against a numeric approximation ... OK
     Checking 'intrfr' against a numeric approximation ... OK
     Checking 'intrfr' against a numeric approximation ... OK
     'F' vs. cubature using method = "midpoint" ... TRUE
     'Fcircle' vs. cubature using method = "midpoint" ... TRUE
     'deriv' vs. numerical derivative ... TRUE
     'Deriv' vs. cubature using method = "midpoint" ...
     siaf parameter 1: TRUE
     siaf parameter 2: TRUE
     Checking 'intrfr' against a numeric approximation ... OK
     Checking 'intrfr' against a numeric approximation ... OK
     Checking 'intrfr' against a numeric approximation ... OK
     Checking 'intrfr' against a numeric approximation ... OK
     Checking 'intrfr' against a numeric approximation ... OK
     Checking 'intrfr' against a numeric approximation ... OK
     Checking 'intrfr' against a numeric approximation ... OK
     Checking 'intrfr' against a numeric approximation ... OK
     Checking 'intrfr' against a numeric approximation ... OK
     'F' vs. cubature using method = "SV" ... TRUE
     'deriv' vs. numerical derivative ... TRUE
     'Deriv' vs. cubature using method = "SV" ...
     siaf parameter 1: TRUE
     siaf parameter 2: TRUE
     'F' vs. cubature using method = "midpoint" ... TRUE
     'Fcircle' vs. cubature using method = "midpoint" ... TRUE
     'deriv' vs. numerical derivative ... TRUE
     'Deriv' vs. cubature using method = "midpoint" ...
     siaf parameter 1: TRUE
     siaf parameter 2: TRUE
     siaf parameter 3: TRUE
     1. Error: Step kernel with maxRange>max(eps.t) is equivalent to maxRange=Inf (@test-tiafs.R#45)
     argument "new" is missing, with no default
     1: update(imdfit_steptiafInf, tiaf = tiaf.step(c(7, 20), maxRange = maxepst + 0.1)) at testthat/test-tiafs.R:45
     2: update.list(imdfit_steptiafInf, tiaf = tiaf.step(c(7, 20), maxRange = maxepst + 0.1))
    
     Error in update.list(model, siaf = NULL, tiaf = NULL, epidemic = ~1, epilink = "log") :
     argument "new" is missing, with no default
     Calls: test_check ... source_file -> eval -> eval -> update -> update.list
     testthat results ================================================================
     OK: 234 SKIPPED: 0 FAILED: 1
     1. Error: Step kernel with maxRange>max(eps.t) is equivalent to maxRange=Inf (@test-tiafs.R#45)
    
     Error: testthat unit tests failed
     Execution halted
Flavor: r-devel-linux-x86_64-fedora-clang

Version: 1.13.1
Check: tests
Result: ERROR
     Running ‘testthat.R’ [49s/60s]
    Running the tests in ‘tests/testthat.R’ failed.
    Complete output:
     > if (require("testthat")) {
     + test_check("surveillance")
     + }
     Loading required package: testthat
     Loading required package: surveillance
     Loading required package: sp
     Loading required package: xtable
     Loading required package: polyCub
     This is surveillance 1.13.1. For overview type 'help(surveillance)'.
    
     Penalized log-likelihood:
     Checking analytical score vector using numDeriv::grad() ...
     [1] TRUE
     Checking analytical Fisher information matrix using numDeriv::hessian() ...
     [1] "Mean relative difference: 3.881263e-07"
    
     Penalized log-likelihood:
     Checking analytical score vector using numDeriv::grad() ...
     [1] TRUE
     Checking analytical Fisher information matrix using numDeriv::hessian() ...
     [1] "Mean relative difference: 1.551014e-07"
     'F' vs. cubature using method = "midpoint" ... TRUE
     'Fcircle' vs. cubature using method = "midpoint" ... TRUE
     'deriv' vs. numerical derivative ... TRUE
     'Deriv' vs. cubature using method = "midpoint" ... TRUE
     Checking 'intrfr' against a numeric approximation ... OK
     Checking 'intrfr' against a numeric approximation ... OK
     Checking 'intrfr' against a numeric approximation ... OK
     Checking 'intrfr' against a numeric approximation ... OK
     Checking 'intrfr' against a numeric approximation ... OK
     Checking 'intrfr' against a numeric approximation ... OK
     Checking 'intrfr' against a numeric approximation ... OK
     Checking 'intrfr' against a numeric approximation ... OK
     Checking 'intrfr' against a numeric approximation ... OK
     'F' vs. cubature using method = "SV" ... TRUE
     'Fcircle' vs. cubature using method = "SV" ... TRUE
     'deriv' vs. numerical derivative ... TRUE
     'Deriv' vs. cubature using method = "SV" ...
     siaf parameter 1: TRUE
     siaf parameter 2: TRUE
     Checking 'intrfr' against a numeric approximation ... OK
     Checking 'intrfr' against a numeric approximation ... OK
     Checking 'intrfr' against a numeric approximation ... OK
     Checking 'intrfr' against a numeric approximation ... OK
     Checking 'intrfr' against a numeric approximation ... OK
     Checking 'intrfr' against a numeric approximation ... OK
     Checking 'intrfr' against a numeric approximation ... OK
     Checking 'intrfr' against a numeric approximation ... OK
     Checking 'intrfr' against a numeric approximation ... OK
     'F' vs. cubature using method = "midpoint" ... TRUE
     'Fcircle' vs. cubature using method = "midpoint" ... TRUE
     'deriv' vs. numerical derivative ... TRUE
     'Deriv' vs. cubature using method = "midpoint" ...
     siaf parameter 1: TRUE
     siaf parameter 2: TRUE
     Checking 'intrfr' against a numeric approximation ... OK
     Checking 'intrfr' against a numeric approximation ... OK
     Checking 'intrfr' against a numeric approximation ... OK
     Checking 'intrfr' against a numeric approximation ... OK
     Checking 'intrfr' against a numeric approximation ... OK
     Checking 'intrfr' against a numeric approximation ... OK
     Checking 'intrfr' against a numeric approximation ... OK
     Checking 'intrfr' against a numeric approximation ... OK
     Checking 'intrfr' against a numeric approximation ... OK
     'F' vs. cubature using method = "SV" ... TRUE
     'deriv' vs. numerical derivative ... TRUE
     'Deriv' vs. cubature using method = "SV" ...
     siaf parameter 1: TRUE
     siaf parameter 2: TRUE
     'F' vs. cubature using method = "midpoint" ... TRUE
     'Fcircle' vs. cubature using method = "midpoint" ... TRUE
     'deriv' vs. numerical derivative ... TRUE
     'Deriv' vs. cubature using method = "midpoint" ...
     siaf parameter 1: TRUE
     siaf parameter 2: TRUE
     siaf parameter 3: TRUE
     1. Error: Step kernel with maxRange>max(eps.t) is equivalent to maxRange=Inf (@test-tiafs.R#45)
     argument "new" is missing, with no default
     1: update(imdfit_steptiafInf, tiaf = tiaf.step(c(7, 20), maxRange = maxepst + 0.1)) at testthat/test-tiafs.R:45
     2: update.list(imdfit_steptiafInf, tiaf = tiaf.step(c(7, 20), maxRange = maxepst + 0.1))
    
     Error in update.list(model, siaf = NULL, tiaf = NULL, epidemic = ~1, epilink = "log") :
     argument "new" is missing, with no default
     Calls: test_check ... source_file -> eval -> eval -> update -> update.list
     testthat results ================================================================
     OK: 234 SKIPPED: 0 FAILED: 1
     1. Error: Step kernel with maxRange>max(eps.t) is equivalent to maxRange=Inf (@test-tiafs.R#45)
    
     Error: testthat unit tests failed
     Execution halted
Flavor: r-devel-linux-x86_64-fedora-gcc

Version: 1.13.1
Flags: --no-vignettes
Check: installed package size
Result: NOTE
     installed size is 7.1Mb
     sub-directories of 1Mb or more:
     doc 2.3Mb
     libs 1.7Mb
Flavors: r-devel-windows-ix86+x86_64, r-release-windows-ix86+x86_64, r-oldrel-windows-ix86+x86_64

Version: 1.13.1
Flags: --no-vignettes
Check: running tests for arch ‘i386’
Result: ERROR
     Running 'testthat.R' [37s]
    Running the tests in 'tests/testthat.R' failed.
    Last 13 lines of output:
     siaf parameter 3: TRUE
     1. Error: Step kernel with maxRange>max(eps.t) is equivalent to maxRange=Inf (@test-tiafs.R#45)
     argument "new" is missing, with no default
     1: update(imdfit_steptiafInf, tiaf = tiaf.step(c(7, 20), maxRange = maxepst + 0.1)) at testthat/test-tiafs.R:45
     2: update.list(imdfit_steptiafInf, tiaf = tiaf.step(c(7, 20), maxRange = maxepst + 0.1))
    
     Error in update.list(model, siaf = NULL, tiaf = NULL, epidemic = ~1, epilink = "log") :
     argument "new" is missing, with no default
     Calls: test_check ... source_file -> eval -> eval -> update -> update.list
     testthat results ================================================================
     OK: 233 SKIPPED: 1 FAILED: 1
     1. Error: Step kernel with maxRange>max(eps.t) is equivalent to maxRange=Inf (@test-tiafs.R#45)
    
     Error: testthat unit tests failed
     Execution halted
Flavor: r-devel-windows-ix86+x86_64

Version: 1.13.1
Flags: --no-vignettes
Check: running tests for arch ‘x64’
Result: ERROR
     Running 'testthat.R' [42s]
    Running the tests in 'tests/testthat.R' failed.
    Last 13 lines of output:
     siaf parameter 3: TRUE
     1. Error: Step kernel with maxRange>max(eps.t) is equivalent to maxRange=Inf (@test-tiafs.R#45)
     argument "new" is missing, with no default
     1: update(imdfit_steptiafInf, tiaf = tiaf.step(c(7, 20), maxRange = maxepst + 0.1)) at testthat/test-tiafs.R:45
     2: update.list(imdfit_steptiafInf, tiaf = tiaf.step(c(7, 20), maxRange = maxepst + 0.1))
    
     Error in update.list(model, siaf = NULL, tiaf = NULL, epidemic = ~1, epilink = "log") :
     argument "new" is missing, with no default
     Calls: test_check ... source_file -> eval -> eval -> update -> update.list
     testthat results ================================================================
     OK: 233 SKIPPED: 1 FAILED: 1
     1. Error: Step kernel with maxRange>max(eps.t) is equivalent to maxRange=Inf (@test-tiafs.R#45)
    
     Error: testthat unit tests failed
     Execution halted
Flavor: r-devel-windows-ix86+x86_64

Version: 1.13.1
Check: tests
Result: ERROR
     Running ‘testthat.R’ [289s/288s]
    Running the tests in ‘tests/testthat.R’ failed.
    Complete output:
     > if (require("testthat")) {
     + test_check("surveillance")
     + }
     Loading required package: testthat
     Loading required package: surveillance
     Loading required package: sp
     Loading required package: xtable
     Loading required package: polyCub
     This is surveillance 1.13.1. For overview type 'help(surveillance)'.
    
     Penalized log-likelihood:
     Checking analytical score vector using numDeriv::grad() ...
     [1] TRUE
     Checking analytical Fisher information matrix using numDeriv::hessian() ...
     [1] "Mean relative difference: 1.559496e-06"
    
     Penalized log-likelihood:
     Checking analytical score vector using numDeriv::grad() ...
     [1] TRUE
     Checking analytical Fisher information matrix using numDeriv::hessian() ...
     [1] "Mean relative difference: 5.015489e-07"
     'F' vs. cubature using method = "midpoint" ... TRUE
     'Fcircle' vs. cubature using method = "midpoint" ... TRUE
     'deriv' vs. numerical derivative ... TRUE
     'Deriv' vs. cubature using method = "midpoint" ... TRUE
     Checking 'intrfr' against a numeric approximation ... OK
     Checking 'intrfr' against a numeric approximation ... OK
     Checking 'intrfr' against a numeric approximation ... OK
     Checking 'intrfr' against a numeric approximation ... OK
     Checking 'intrfr' against a numeric approximation ... OK
     Checking 'intrfr' against a numeric approximation ... OK
     Checking 'intrfr' against a numeric approximation ... OK
     Checking 'intrfr' against a numeric approximation ... OK
     Checking 'intrfr' against a numeric approximation ... OK
     'F' vs. cubature using method = "SV" ... TRUE
     'Fcircle' vs. cubature using method = "SV" ... TRUE
     'deriv' vs. numerical derivative ... TRUE
     'Deriv' vs. cubature using method = "SV" ...
     siaf parameter 1: TRUE
     siaf parameter 2: TRUE
     Checking 'intrfr' against a numeric approximation ... OK
     Checking 'intrfr' against a numeric approximation ... OK
     Checking 'intrfr' against a numeric approximation ... OK
     Checking 'intrfr' against a numeric approximation ... OK
     Checking 'intrfr' against a numeric approximation ... OK
     Checking 'intrfr' against a numeric approximation ... OK
     Checking 'intrfr' against a numeric approximation ... OK
     Checking 'intrfr' against a numeric approximation ... OK
     Checking 'intrfr' against a numeric approximation ... OK
     'F' vs. cubature using method = "midpoint" ... TRUE
     'Fcircle' vs. cubature using method = "midpoint" ... TRUE
     'deriv' vs. numerical derivative ... TRUE
     'Deriv' vs. cubature using method = "midpoint" ...
     siaf parameter 1: TRUE
     siaf parameter 2: TRUE
     Checking 'intrfr' against a numeric approximation ... OK
     Checking 'intrfr' against a numeric approximation ... OK
     Checking 'intrfr' against a numeric approximation ... OK
     Checking 'intrfr' against a numeric approximation ... OK
     Checking 'intrfr' against a numeric approximation ... OK
     Checking 'intrfr' against a numeric approximation ... OK
     Checking 'intrfr' against a numeric approximation ... OK
     Checking 'intrfr' against a numeric approximation ... OK
     Checking 'intrfr' against a numeric approximation ... OK
     'F' vs. cubature using method = "SV" ... TRUE
     'deriv' vs. numerical derivative ... TRUE
     'Deriv' vs. cubature using method = "SV" ...
     siaf parameter 1: TRUE
     siaf parameter 2: TRUE
     'F' vs. cubature using method = "midpoint" ... TRUE
     'Fcircle' vs. cubature using method = "midpoint" ... TRUE
     'deriv' vs. numerical derivative ... TRUE
     'Deriv' vs. cubature using method = "midpoint" ...
     siaf parameter 1: TRUE
     siaf parameter 2: TRUE
     siaf parameter 3: TRUE
     1. Error: Step kernel with maxRange>max(eps.t) is equivalent to maxRange=Inf (@test-tiafs.R#45)
     argument "new" is missing, with no default
     1: update(imdfit_steptiafInf, tiaf = tiaf.step(c(7, 20), maxRange = maxepst + 0.1)) at testthat/test-tiafs.R:45
     2: update.list(imdfit_steptiafInf, tiaf = tiaf.step(c(7, 20), maxRange = maxepst + 0.1))
    
     Error in update.list(model, siaf = NULL, tiaf = NULL, epidemic = ~1, epilink = "log") :
     argument "new" is missing, with no default
     Calls: test_check ... source_file -> eval -> eval -> update -> update.list
     testthat results ================================================================
     OK: 234 SKIPPED: 0 FAILED: 1
     1. Error: Step kernel with maxRange>max(eps.t) is equivalent to maxRange=Inf (@test-tiafs.R#45)
    
     Error: testthat unit tests failed
     Execution halted
Flavor: r-patched-solaris-sparc

Version: 1.13.1
Check: tests
Result: ERROR
     Running ‘testthat.R’ [61s/73s]
    Running the tests in ‘tests/testthat.R’ failed.
    Complete output:
     > if (require("testthat")) {
     + test_check("surveillance")
     + }
     Loading required package: testthat
     Loading required package: surveillance
     Loading required package: sp
     Loading required package: xtable
     Loading required package: polyCub
     This is surveillance 1.13.1. For overview type 'help(surveillance)'.
    
     Penalized log-likelihood:
     Checking analytical score vector using numDeriv::grad() ...
     [1] TRUE
     Checking analytical Fisher information matrix using numDeriv::hessian() ...
     [1] "Mean relative difference: 3.802109e-07"
    
     Penalized log-likelihood:
     Checking analytical score vector using numDeriv::grad() ...
     [1] TRUE
     Checking analytical Fisher information matrix using numDeriv::hessian() ...
     [1] "Mean relative difference: 1.551014e-07"
     'F' vs. cubature using method = "midpoint" ... TRUE
     'Fcircle' vs. cubature using method = "midpoint" ... TRUE
     'deriv' vs. numerical derivative ... TRUE
     'Deriv' vs. cubature using method = "midpoint" ... TRUE
     Checking 'intrfr' against a numeric approximation ... OK
     Checking 'intrfr' against a numeric approximation ... OK
     Checking 'intrfr' against a numeric approximation ... OK
     Checking 'intrfr' against a numeric approximation ... OK
     Checking 'intrfr' against a numeric approximation ... OK
     Checking 'intrfr' against a numeric approximation ... OK
     Checking 'intrfr' against a numeric approximation ... OK
     Checking 'intrfr' against a numeric approximation ... OK
     Checking 'intrfr' against a numeric approximation ... OK
     'F' vs. cubature using method = "SV" ... TRUE
     'Fcircle' vs. cubature using method = "SV" ... TRUE
     'deriv' vs. numerical derivative ... TRUE
     'Deriv' vs. cubature using method = "SV" ...
     siaf parameter 1: TRUE
     siaf parameter 2: TRUE
     Checking 'intrfr' against a numeric approximation ... OK
     Checking 'intrfr' against a numeric approximation ... OK
     Checking 'intrfr' against a numeric approximation ... OK
     Checking 'intrfr' against a numeric approximation ... OK
     Checking 'intrfr' against a numeric approximation ... OK
     Checking 'intrfr' against a numeric approximation ... OK
     Checking 'intrfr' against a numeric approximation ... OK
     Checking 'intrfr' against a numeric approximation ... OK
     Checking 'intrfr' against a numeric approximation ... OK
     'F' vs. cubature using method = "midpoint" ... TRUE
     'Fcircle' vs. cubature using method = "midpoint" ... TRUE
     'deriv' vs. numerical derivative ... TRUE
     'Deriv' vs. cubature using method = "midpoint" ...
     siaf parameter 1: TRUE
     siaf parameter 2: TRUE
     Checking 'intrfr' against a numeric approximation ... OK
     Checking 'intrfr' against a numeric approximation ... OK
     Checking 'intrfr' against a numeric approximation ... OK
     Checking 'intrfr' against a numeric approximation ... OK
     Checking 'intrfr' against a numeric approximation ... OK
     Checking 'intrfr' against a numeric approximation ... OK
     Checking 'intrfr' against a numeric approximation ... OK
     Checking 'intrfr' against a numeric approximation ... OK
     Checking 'intrfr' against a numeric approximation ... OK
     'F' vs. cubature using method = "SV" ... TRUE
     'deriv' vs. numerical derivative ... TRUE
     'Deriv' vs. cubature using method = "SV" ...
     siaf parameter 1: TRUE
     siaf parameter 2: TRUE
     'F' vs. cubature using method = "midpoint" ... TRUE
     'Fcircle' vs. cubature using method = "midpoint" ... TRUE
     'deriv' vs. numerical derivative ... TRUE
     'Deriv' vs. cubature using method = "midpoint" ...
     siaf parameter 1: TRUE
     siaf parameter 2: TRUE
     siaf parameter 3: TRUE
     1. Error: Step kernel with maxRange>max(eps.t) is equivalent to maxRange=Inf (@test-tiafs.R#45)
     argument "new" is missing, with no default
     1: update(imdfit_steptiafInf, tiaf = tiaf.step(c(7, 20), maxRange = maxepst + 0.1)) at testthat/test-tiafs.R:45
     2: update.list(imdfit_steptiafInf, tiaf = tiaf.step(c(7, 20), maxRange = maxepst + 0.1))
    
     Error in update.list(model, siaf = NULL, tiaf = NULL, epidemic = ~1, epilink = "log") :
     argument "new" is missing, with no default
     Calls: test_check ... source_file -> eval -> eval -> update -> update.list
     testthat results ================================================================
     OK: 234 SKIPPED: 0 FAILED: 1
     1. Error: Step kernel with maxRange>max(eps.t) is equivalent to maxRange=Inf (@test-tiafs.R#45)
    
     Error: testthat unit tests failed
     Execution halted
Flavor: r-patched-solaris-x86

Version: 1.13.1
Check: tests
Result: ERROR
     Running ‘testthat.R’ [27s/27s]
    Running the tests in ‘tests/testthat.R’ failed.
    Complete output:
     > if (require("testthat")) {
     + test_check("surveillance")
     + }
     Loading required package: testthat
     Loading required package: surveillance
     Loading required package: sp
     Loading required package: xtable
     Loading required package: polyCub
     This is surveillance 1.13.1. For overview type 'help(surveillance)'.
    
     Penalized log-likelihood:
     Checking analytical score vector using numDeriv::grad() ...
     [1] TRUE
     Checking analytical Fisher information matrix using numDeriv::hessian() ...
     [1] "Mean relative difference: 3.881263e-07"
    
     Penalized log-likelihood:
     Checking analytical score vector using numDeriv::grad() ...
     [1] TRUE
     Checking analytical Fisher information matrix using numDeriv::hessian() ...
     [1] "Mean relative difference: 1.551014e-07"
     'F' vs. cubature using method = "midpoint" ... TRUE
     'Fcircle' vs. cubature using method = "midpoint" ... TRUE
     'deriv' vs. numerical derivative ... TRUE
     'Deriv' vs. cubature using method = "midpoint" ... TRUE
     Checking 'intrfr' against a numeric approximation ... OK
     Checking 'intrfr' against a numeric approximation ... OK
     Checking 'intrfr' against a numeric approximation ... OK
     Checking 'intrfr' against a numeric approximation ... OK
     Checking 'intrfr' against a numeric approximation ... OK
     Checking 'intrfr' against a numeric approximation ... OK
     Checking 'intrfr' against a numeric approximation ... OK
     Checking 'intrfr' against a numeric approximation ... OK
     Checking 'intrfr' against a numeric approximation ... OK
     'F' vs. cubature using method = "SV" ... TRUE
     'Fcircle' vs. cubature using method = "SV" ... TRUE
     'deriv' vs. numerical derivative ... TRUE
     'Deriv' vs. cubature using method = "SV" ...
     siaf parameter 1: TRUE
     siaf parameter 2: TRUE
     Checking 'intrfr' against a numeric approximation ... OK
     Checking 'intrfr' against a numeric approximation ... OK
     Checking 'intrfr' against a numeric approximation ... OK
     Checking 'intrfr' against a numeric approximation ... OK
     Checking 'intrfr' against a numeric approximation ... OK
     Checking 'intrfr' against a numeric approximation ... OK
     Checking 'intrfr' against a numeric approximation ... OK
     Checking 'intrfr' against a numeric approximation ... OK
     Checking 'intrfr' against a numeric approximation ... OK
     'F' vs. cubature using method = "midpoint" ... TRUE
     'Fcircle' vs. cubature using method = "midpoint" ... TRUE
     'deriv' vs. numerical derivative ... TRUE
     'Deriv' vs. cubature using method = "midpoint" ...
     siaf parameter 1: TRUE
     siaf parameter 2: TRUE
     Checking 'intrfr' against a numeric approximation ... OK
     Checking 'intrfr' against a numeric approximation ... OK
     Checking 'intrfr' against a numeric approximation ... OK
     Checking 'intrfr' against a numeric approximation ... OK
     Checking 'intrfr' against a numeric approximation ... OK
     Checking 'intrfr' against a numeric approximation ... OK
     Checking 'intrfr' against a numeric approximation ... OK
     Checking 'intrfr' against a numeric approximation ... OK
     Checking 'intrfr' against a numeric approximation ... OK
     'F' vs. cubature using method = "SV" ... TRUE
     'deriv' vs. numerical derivative ... TRUE
     'Deriv' vs. cubature using method = "SV" ...
     siaf parameter 1: TRUE
     siaf parameter 2: TRUE
     'F' vs. cubature using method = "midpoint" ... TRUE
     'Fcircle' vs. cubature using method = "midpoint" ... TRUE
     'deriv' vs. numerical derivative ... TRUE
     'Deriv' vs. cubature using method = "midpoint" ...
     siaf parameter 1: TRUE
     siaf parameter 2: TRUE
     siaf parameter 3: TRUE
     1. Error: Step kernel with maxRange>max(eps.t) is equivalent to maxRange=Inf (@test-tiafs.R#45)
     argument "new" is missing, with no default
     1: update(imdfit_steptiafInf, tiaf = tiaf.step(c(7, 20), maxRange = maxepst + 0.1)) at testthat/test-tiafs.R:45
     2: update.list(imdfit_steptiafInf, tiaf = tiaf.step(c(7, 20), maxRange = maxepst + 0.1))
    
     Error in update.list(model, siaf = NULL, tiaf = NULL, epidemic = ~1, epilink = "log") :
     argument "new" is missing, with no default
     Calls: test_check ... source_file -> eval -> eval -> update -> update.list
     testthat results ================================================================
     OK: 234 SKIPPED: 0 FAILED: 1
     1. Error: Step kernel with maxRange>max(eps.t) is equivalent to maxRange=Inf (@test-tiafs.R#45)
    
     Error: testthat unit tests failed
     Execution halted
Flavor: r-release-linux-x86_64

Version: 1.13.1
Flags: --no-vignettes
Check: running tests for arch ‘i386’
Result: ERROR
     Running 'testthat.R' [36s]
    Running the tests in 'tests/testthat.R' failed.
    Last 13 lines of output:
     siaf parameter 3: TRUE
     1. Error: Step kernel with maxRange>max(eps.t) is equivalent to maxRange=Inf (@test-tiafs.R#45)
     argument "new" is missing, with no default
     1: update(imdfit_steptiafInf, tiaf = tiaf.step(c(7, 20), maxRange = maxepst + 0.1)) at testthat/test-tiafs.R:45
     2: update.list(imdfit_steptiafInf, tiaf = tiaf.step(c(7, 20), maxRange = maxepst + 0.1))
    
     Error in update.list(model, siaf = NULL, tiaf = NULL, epidemic = ~1, epilink = "log") :
     argument "new" is missing, with no default
     Calls: test_check ... source_file -> eval -> eval -> update -> update.list
     testthat results ================================================================
     OK: 233 SKIPPED: 1 FAILED: 1
     1. Error: Step kernel with maxRange>max(eps.t) is equivalent to maxRange=Inf (@test-tiafs.R#45)
    
     Error: testthat unit tests failed
     Execution halted
Flavor: r-release-windows-ix86+x86_64

Version: 1.13.1
Flags: --no-vignettes
Check: running tests for arch ‘x64’
Result: ERROR
     Running 'testthat.R' [39s]
    Running the tests in 'tests/testthat.R' failed.
    Last 13 lines of output:
     siaf parameter 3: TRUE
     1. Error: Step kernel with maxRange>max(eps.t) is equivalent to maxRange=Inf (@test-tiafs.R#45)
     argument "new" is missing, with no default
     1: update(imdfit_steptiafInf, tiaf = tiaf.step(c(7, 20), maxRange = maxepst + 0.1)) at testthat/test-tiafs.R:45
     2: update.list(imdfit_steptiafInf, tiaf = tiaf.step(c(7, 20), maxRange = maxepst + 0.1))
    
     Error in update.list(model, siaf = NULL, tiaf = NULL, epidemic = ~1, epilink = "log") :
     argument "new" is missing, with no default
     Calls: test_check ... source_file -> eval -> eval -> update -> update.list
     testthat results ================================================================
     OK: 233 SKIPPED: 1 FAILED: 1
     1. Error: Step kernel with maxRange>max(eps.t) is equivalent to maxRange=Inf (@test-tiafs.R#45)
    
     Error: testthat unit tests failed
     Execution halted
Flavor: r-release-windows-ix86+x86_64

Version: 1.13.1
Check: re-building of vignette outputs
Result: NOTE
    Error in re-building vignettes:
     ...
    Type gamlssNews() to see new features/changes/bug fixes.
    
    Doing computations: FALSE
    Warning: running command 'kpsewhich framed.sty' had status 1
    Warning in test_latex_pkg("framed", system.file("misc", "framed.sty", package = "knitr")) :
     unable to find LaTeX package 'framed'; will use a copy from knitr
    Doing computations: FALSE
    Loading required namespace: spdep
    Note: range of maximum neighbour order by region is 3-5
    Error in texi2dvi(file = file, pdf = TRUE, clean = clean, quiet = quiet, :
     Running 'texi2dvi' on 'hhh4_spacetime.tex' failed.
    LaTeX errors:
    ! LaTeX Error: File `bbm.sty' not found.
    
    Type X to quit or <RETURN> to proceed,
    or enter new name. (Default extension: sty)
    
    ! Emergency stop.
    <read *>
    
    l.53 ^^M
    
    ! ==> Fatal error occurred, no output PDF file produced!
    Calls: buildVignettes -> texi2pdf -> texi2dvi
    Execution halted
Flavor: r-release-osx-x86_64

Version: 1.13.1
Flags: --no-vignettes
Check: running tests for arch ‘i386’
Result: ERROR
     Running 'testthat.R' [31s]
    Running the tests in 'tests/testthat.R' failed.
    Last 13 lines of output:
     siaf parameter 3: TRUE
     1. Error: Step kernel with maxRange>max(eps.t) is equivalent to maxRange=Inf (@test-tiafs.R#45)
     argument "new" is missing, with no default
     1: update(imdfit_steptiafInf, tiaf = tiaf.step(c(7, 20), maxRange = maxepst + 0.1)) at testthat/test-tiafs.R:45
     2: update.list(imdfit_steptiafInf, tiaf = tiaf.step(c(7, 20), maxRange = maxepst + 0.1))
    
     Error in update.list(model, siaf = NULL, tiaf = NULL, epidemic = ~1, epilink = "log") :
     argument "new" is missing, with no default
     Calls: test_check ... source_file -> eval -> eval -> update -> update.list
     testthat results ================================================================
     OK: 233 SKIPPED: 1 FAILED: 1
     1. Error: Step kernel with maxRange>max(eps.t) is equivalent to maxRange=Inf (@test-tiafs.R#45)
    
     Error: testthat unit tests failed
     Execution halted
Flavor: r-oldrel-windows-ix86+x86_64

Version: 1.13.1
Flags: --no-vignettes
Check: running tests for arch ‘x64’
Result: ERROR
     Running 'testthat.R' [31s]
    Running the tests in 'tests/testthat.R' failed.
    Last 13 lines of output:
     siaf parameter 3: TRUE
     1. Error: Step kernel with maxRange>max(eps.t) is equivalent to maxRange=Inf (@test-tiafs.R#45)
     argument "new" is missing, with no default
     1: update(imdfit_steptiafInf, tiaf = tiaf.step(c(7, 20), maxRange = maxepst + 0.1)) at testthat/test-tiafs.R:45
     2: update.list(imdfit_steptiafInf, tiaf = tiaf.step(c(7, 20), maxRange = maxepst + 0.1))
    
     Error in update.list(model, siaf = NULL, tiaf = NULL, epidemic = ~1, epilink = "log") :
     argument "new" is missing, with no default
     Calls: test_check ... source_file -> eval -> eval -> update -> update.list
     testthat results ================================================================
     OK: 233 SKIPPED: 1 FAILED: 1
     1. Error: Step kernel with maxRange>max(eps.t) is equivalent to maxRange=Inf (@test-tiafs.R#45)
    
     Error: testthat unit tests failed
     Execution halted
Flavor: r-oldrel-windows-ix86+x86_64