CRAN Package Check Results for Package rstanarm

Last updated on 2017-03-27 05:48:14.

Flavor Version Tinstall Tcheck Ttotal Status Flags
r-devel-linux-x86_64-debian-clang 2.14.1 205.15 433.01 638.16 NOTE
r-devel-linux-x86_64-debian-gcc 2.14.1 183.03 432.03 615.05 NOTE
r-devel-linux-x86_64-fedora-clang 2.14.1 1352.47 NOTE --no-stop-on-test-error
r-devel-linux-x86_64-fedora-gcc 2.14.1 1264.11 NOTE --no-stop-on-test-error
r-devel-macos-x86_64-clang 2.14.1 890.09 NOTE --no-stop-on-test-error
r-patched-linux-x86_64 2.14.1 172.24 428.72 600.96 NOTE
r-patched-solaris-sparc 2.14.1 2391.50 ERROR
r-patched-solaris-x86 2.14.1 1410.40 WARN
r-release-linux-x86_64 2.14.1 172.04 411.42 583.45 ERROR
r-release-osx-x86_64-mavericks 2.14.1 WARN
r-release-windows-ix86+x86_64 2.14.1 515.00 0.00 515.00 FAIL
r-oldrel-windows-ix86+x86_64 2.14.1 332.00 0.00 332.00 FAIL

Memtest notes: clang-UBSAN

Check Details

Version: 2.14.1
Check: compiled code
Result: NOTE
    File ‘rstanarm/libs/rstanarm.so’:
     Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’
    
    It is good practice to register native routines and to disable symbol
    search.
    
    See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
Flavors: r-devel-linux-x86_64-debian-clang, r-devel-linux-x86_64-debian-gcc, r-patched-linux-x86_64

Version: 2.14.1
Flags: --no-stop-on-test-error
Check: installed package size
Result: NOTE
     installed size is 58.3Mb
     sub-directories of 1Mb or more:
     doc 2.1Mb
     libs 55.1Mb
Flavors: r-devel-linux-x86_64-fedora-clang, r-devel-linux-x86_64-fedora-gcc, r-devel-macos-x86_64-clang

Version: 2.14.1
Flags: --no-stop-on-test-error
Check: compiled code
Result: NOTE
    File ‘rstanarm/libs/rstanarm.so’:
     Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’
    
    It is good practice to register native routines and to disable symbol
    search.
    
    See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
Flavors: r-devel-linux-x86_64-fedora-clang, r-devel-linux-x86_64-fedora-gcc, r-devel-macos-x86_64-clang

Version: 2.14.1
Check: installed package size
Result: NOTE
     installed size is 8.6Mb
     sub-directories of 1Mb or more:
     doc 2.2Mb
     libs 5.2Mb
Flavors: r-patched-solaris-sparc, r-patched-solaris-x86, r-release-osx-x86_64-mavericks, r-release-windows-ix86+x86_64, r-oldrel-windows-ix86+x86_64

Version: 2.14.1
Check: examples
Result: ERROR
    Running examples in ‘rstanarm-Ex.R’ failed
    The error most likely occurred in:
    
    > ### Name: example_model
    > ### Title: Example model
    > ### Aliases: example_model
    >
    > ### ** Examples
    >
    > example_model <-
    + stan_glmer(cbind(incidence, size - incidence) ~ size + period + (1|herd),
    + data = lme4::cbpp, family = binomial,
    + # this next line is only to keep the example small in size!
    + chains = 2, cores = 1, seed = 12345, iter = 500)
    
    SAMPLING FOR MODEL 'binomial' NOW (CHAIN 1).
Flavor: r-patched-solaris-sparc

Version: 2.14.1
Check: tests
Result: ERROR
     Running ‘testthat.R’ [36s/45s]
    Running the tests in ‘tests/testthat.R’ failed.
    Complete output:
     > # Part of the rstanarm package for estimating model parameters
     > # Copyright (C) 2015 Trustees of Columbia University
     > #
     > # This program is free software; you can redistribute it and/or
     > # modify it under the terms of the GNU General Public License
     > # as published by the Free Software Foundation; either version 3
     > # of the License, or (at your option) any later version.
     > #
     > # This program is distributed in the hope that it will be useful,
     > # but WITHOUT ANY WARRANTY; without even the implied warranty of
     > # MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
     > # GNU General Public License for more details.
     > #
     > # You should have received a copy of the GNU General Public License
     > # along with this program; if not, write to the Free Software
     > # Foundation, Inc., 51 Franklin Street, Fifth Floor, Boston, MA 02110-1301, USA.
     >
     > library(testthat)
     > library(rstanarm)
     Loading required package: Rcpp
     rstanarm (Version 2.14.1, packaged: 2017-01-16 18:47:11 UTC)
     - Do not expect the default priors to remain the same in future rstanarm versions.
     Thus, R scripts should specify priors explicitly, even if they are just the defaults.
     - For execution on a local, multicore CPU with excess RAM we recommend calling
     options(mc.cores = parallel::detectCores())
     > Sys.unsetenv("R_TESTS")
     > example(example_model)
    
     exmpl_> example_model <-
     exmpl_+ stan_glmer(cbind(incidence, size - incidence) ~ size + period + (1|herd),
     exmpl_+ data = lme4::cbpp, family = binomial,
     exmpl_+ # this next line is only to keep the example small in size!
     exmpl_+ chains = 2, cores = 1, seed = 12345, iter = 500)
    
     SAMPLING FOR MODEL 'binomial' NOW (CHAIN 1).
Flavor: r-patched-solaris-sparc

Version: 2.14.1
Check: re-building of vignette outputs
Result: WARN
    Error in re-building vignettes:
     ...
    Warning in engine$weave(file, quiet = quiet, encoding = enc) :
     Pandoc (>= 1.12.3) and/or pandoc-citeproc not available. Falling back to R Markdown v1.
    Quitting from lines 2-15 (./children/SETTINGS-knitr.txt)
    Quitting from lines NA-15 (./children/SETTINGS-knitr.txt)
    Error: processing vignette 'aov.Rmd' failed with diagnostics:
    object 'params' not found
    Execution halted
Flavors: r-patched-solaris-sparc, r-patched-solaris-x86, r-release-osx-x86_64-mavericks

Version: 2.14.1
Check: tests
Result: ERROR
     Running ‘testthat.R’ [278s/276s]
    Running the tests in ‘tests/testthat.R’ failed.
    Last 13 lines of output:
     testthat results ================================================================
     OK: 1730 SKIPPED: 0 FAILED: 4
     1. Error: kfold works on some examples (@test_loo.R#272)
     2. Error: kfold works on some examples (@test_loo.R#272)
     3. Error: kfold works on some examples (@test_loo.R#272)
     4. Error: kfold works on some examples (@test_loo.R#272)
    
     Error: testthat unit tests failed
     In addition: Warning messages:
     1: There were 10 divergent transitions after warmup. Increasing adapt_delta above 0.95 may help. See
     http://mc-stan.org/misc/warnings.html#divergent-transitions-after-warmup
     2: Examine the pairs() plot to diagnose sampling problems
    
     3: Markov chains did not converge! Do not analyze results!
     Execution halted
Flavor: r-release-linux-x86_64

Version: 2.14.1
Check: running tests for arch ‘x64’
Result: FAIL
    Check process probably crashed or hung up for 20 minutes ... killed
    Most likely this happened in the example checks (?),
    if not, ignore the following last lines of example output:
    
    ======== End of example output (where/before crash/hang up occured ?) ========
Flavors: r-release-windows-ix86+x86_64, r-oldrel-windows-ix86+x86_64