CRAN Package Check Results for Package ClinReport

Last updated on 2020-02-21 17:47:42 CET.

Flavor Version Tinstall Tcheck Ttotal Status Flags
r-devel-linux-x86_64-debian-clang 0.9.1.14 13.35 174.20 187.55 ERROR
r-devel-linux-x86_64-debian-gcc 0.9.1.14 11.50 172.48 183.98 OK
r-devel-linux-x86_64-fedora-clang 0.9.1.14 221.69 NOTE
r-devel-linux-x86_64-fedora-gcc 0.9.1.14 232.58 NOTE
r-devel-windows-ix86+x86_64 0.9.1.14 31.00 173.00 204.00 OK
r-devel-windows-ix86+x86_64-gcc8 0.9.1.14 53.00 212.00 265.00 OK
r-patched-linux-x86_64 0.9.1.14 11.46 163.44 174.90 OK
r-patched-solaris-x86 0.9.1.14 273.70 NOTE
r-release-linux-x86_64 0.9.1.14 10.90 164.79 175.69 OK
r-release-windows-ix86+x86_64 0.9.1.14 27.00 166.00 193.00 OK
r-release-osx-x86_64 0.9.1.14 NOTE
r-oldrel-windows-ix86+x86_64 0.9.1.14 19.00 141.00 160.00 OK
r-oldrel-osx-x86_64 0.9.1.14 NOTE

Check Details

Version: 0.9.1.14
Check: examples
Result: ERROR
    Running examples in 'ClinReport-Ex.R' failed
    The error most likely occurred in:
    
    > base::assign(".ptime", proc.time(), pos = "CheckExEnv")
    > ### Name: report.quali.hlev
    > ### Title: 'Hierarchical Qualitative' statistics reporting (experimental)
    > ### Aliases: report.quali.hlev
    >
    > ### ** Examples
    >
    >
    > data(adverse_event)
    >
    > test=report.quali.hlev(data=adverse_event,subjid="SUBJID",var_upper="PTNAME",
    + var_lower="SOCNAME",lower.levels="System Organ Class",upper.levels="Prefered Terms",x1="randtrt")
    Error in match.names(clabs, names(xi)) :
     names do not match previous names
    Calls: report.quali.hlev -> report.quali.hlev -> rbind -> rbind -> match.names
    Execution halted
Flavor: r-devel-linux-x86_64-debian-clang

Version: 0.9.1.14
Check: re-building of vignette outputs
Result: WARN
    Error(s) in re-building vignettes:
     ...
    --- re-building 'clinreport_graphics.Rmd' using knitr
    
    Attaching package: 'dplyr'
    
    The following object is masked from 'package:ClinReport':
    
     desc
    
    The following objects are masked from 'package:stats':
    
     filter, lag
    
    The following objects are masked from 'package:base':
    
     intersect, setdiff, setequal, union
    
    
    Attaching package: 'nlme'
    
    The following object is masked from 'package:dplyr':
    
     collapse
    
    Welcome to emmeans.
    NOTE -- Important change from versions <= 1.41:
     Indicator predictors are now treated as 2-level factors by default.
     To revert to old behavior, use emm_options(cov.keep = character(0))
    Loading required package: carData
    
    Attaching package: 'car'
    
    The following object is masked from 'package:dplyr':
    
     recode
    
    --- finished re-building 'clinreport_graphics.Rmd'
    
    --- re-building 'clinreport_modify_outputs.Rmd' using knitr
    Welcome to emmeans.
    NOTE -- Important change from versions <= 1.41:
     Indicator predictors are now treated as 2-level factors by default.
     To revert to old behavior, use emm_options(cov.keep = character(0))
    --- finished re-building 'clinreport_modify_outputs.Rmd'
    
    --- re-building 'clinreport_vignette_get_started.Rmd' using knitr
    
    Attaching package: 'dplyr'
    
    The following object is masked from 'package:ClinReport':
    
     desc
    
    The following objects are masked from 'package:stats':
    
     filter, lag
    
    The following objects are masked from 'package:base':
    
     intersect, setdiff, setequal, union
    
    
    Attaching package: 'nlme'
    
    The following object is masked from 'package:dplyr':
    
     collapse
    
    Welcome to emmeans.
    NOTE -- Important change from versions <= 1.41:
     Indicator predictors are now treated as 2-level factors by default.
     To revert to old behavior, use emm_options(cov.keep = character(0))
    Loading required package: carData
    
    Attaching package: 'car'
    
    The following object is masked from 'package:dplyr':
    
     recode
    
    Quitting from lines 202-220 (clinreport_vignette_get_started.Rmd)
    Error: processing vignette 'clinreport_vignette_get_started.Rmd' failed with diagnostics:
    names do not match previous names
    --- failed re-building 'clinreport_vignette_get_started.Rmd'
    
    --- re-building 'clinreport_vignette_standard.Rmd' using knitr
    
    Attaching package: 'dplyr'
    
    The following objects are masked from 'package:stats':
    
     filter, lag
    
    The following objects are masked from 'package:base':
    
     intersect, setdiff, setequal, union
    
    
    Attaching package: 'nlme'
    
    The following object is masked from 'package:dplyr':
    
     collapse
    
    Welcome to emmeans.
    NOTE -- Important change from versions <= 1.41:
     Indicator predictors are now treated as 2-level factors by default.
     To revert to old behavior, use emm_options(cov.keep = character(0))
    Loading required package: carData
    
    Attaching package: 'car'
    
    The following object is masked from 'package:dplyr':
    
     recode
    
    --- finished re-building 'clinreport_vignette_standard.Rmd'
    
    SUMMARY: processing the following file failed:
     'clinreport_vignette_get_started.Rmd'
    
    Error: Vignette re-building failed.
    Execution halted
Flavor: r-devel-linux-x86_64-debian-clang

Version: 0.9.1.14
Check: dependencies in R code
Result: NOTE
    Namespaces in Imports field not imported from:
     ‘car’ ‘emmeans’
     All declared Imports should be used.
Flavors: r-devel-linux-x86_64-fedora-clang, r-devel-linux-x86_64-fedora-gcc, r-patched-solaris-x86, r-release-osx-x86_64, r-oldrel-osx-x86_64