• using R version 4.2.0 (2022-04-22)
  • using platform: aarch64-apple-darwin20 (64-bit)
  • using session charset: UTF-8
  • checking for file ‘RMark/DESCRIPTION’ ... OK
  • this is package ‘RMark’ version ‘3.0.0’
  • package encoding: UTF-8
  • checking package namespace information ... OK
  • checking package dependencies ... OK
  • checking if this is a source package ... OK
  • checking if there is a namespace ... OK
  • checking for executable files ... OK
  • checking for hidden files and directories ... OK
  • checking for portable file names ... OK
  • checking for sufficient/correct file permissions ... OK
  • checking whether package ‘RMark’ can be installed ... [7s/7s] WARNING
    Found the following significant warnings:
      Warning: Software mark not found in path.
    See https://www.r-project.org/nosvn/R.check/r-oldrel-macos-arm64/RMark-00install.html for details.
  • checking installed package size ... OK
  • checking package directory ... OK
  • checking DESCRIPTION meta-information ... OK
  • checking top-level files ... OK
  • checking for left-over files ... OK
  • checking index information ... OK
  • checking package subdirectories ... OK
  • checking R files for non-ASCII characters ... OK
  • checking R files for syntax errors ... OK
  • checking whether the package can be loaded ... OK
  • checking whether the package can be loaded with stated dependencies ... OK
  • checking whether the package can be unloaded cleanly ... OK
  • checking whether the namespace can be loaded with stated dependencies ... OK
  • checking whether the namespace can be unloaded cleanly ... OK
  • checking loading without being on the library search path ... OK
  • checking dependencies in R code ... OK
  • checking S3 generic/method consistency ... OK
  • checking replacement functions ... OK
  • checking foreign function calls ... OK
  • checking R code for possible problems ... [8s/9s] OK
  • checking Rd files ... [0s/1s] OK
  • checking Rd metadata ... OK
  • checking Rd cross-references ... OK
  • checking for missing documentation entries ... OK
  • checking for code/documentation mismatches ... OK
  • checking Rd \usage sections ... OK
  • checking Rd contents ... OK
  • checking for unstated dependencies in examples ... OK
  • checking contents of ‘data’ directory ... OK
  • checking data for non-ASCII characters ... OK
  • checking data for ASCII and uncompressed saves ... OK
  • checking examples ... [1s/1s] ERROR
    Running examples in ‘RMark-Ex.R’ failed
    The error most likely occurred in:

    > ### Name: Blackduck
    > ### Title: Black duck known fate data
    > ### Aliases: Blackduck
    > ### Keywords: datasets
    >
    > ### ** Examples
    >
    >
    > data(Blackduck)
    > # Change BirdAge to numeric; starting with version 1.6.3 factor variables are
    > # no longer allowed. They can work as in this example but they can be misleading
    > # and fail if the levels are non-numeric. The real parameters will remain
    > # unchanged but the betas will be different.
    > Blackduck$BirdAge=as.numeric(Blackduck$BirdAge)-1
    > run.Blackduck=function()
    + {
    + #
    + # Process data
    + #
    + bduck.processed=process.data(Blackduck,model="Known")
    + #
    + # Create default design data
    + #
    + bduck.ddl=make.design.data(bduck.processed)
    + #
    + # Add occasion specific data min < 0; I have no idea what it is
    + #
    + bduck.ddl$S$min=c(4,6,7,7,7,6,5,5)
    + #
    + # Define range of models for S
    + #
    + S.dot=list(formula=~1)
    + S.time=list(formula=~time)
    + S.min=list(formula=~min)
    + S.BirdAge=list(formula=~BirdAge)
    + #
    + # Note that in the following model in the MARK example, the covariates
    + # have been standardized. That means that the beta parameters will be different
    + # for BirdAge, Weight and their interaction but the likelihood and real parameter
    + # estimates are the same.
    + #
    + S.BirdAgexWeight.min=list(formula=~min+BirdAge*Weight)
    + S.BirdAge.Weight=list(formula=~BirdAge+Weight)
    + #
    + # Create model list and run assortment of models
    + #
    + model.list=create.model.list("Known")
    + bduck.results=mark.wrapper(model.list,data=bduck.processed,ddl=bduck.ddl,
    + invisible=FALSE,threads=1,delete=TRUE)
    +
    + #
    + # Return model table and list of models
    + #
    + return(bduck.results)
    + }
    > bduck.results=run.Blackduck()

    S.BirdAge

    sh: mark: command not found
    Warning in system(paste("mark i=", inputfile, " o=", outfile, " v=", vcvfile, :
      error in running command
    Error in run.mark.model(model, invisible = invisible, adjust = adjust, :
      
    Output file does not exist. Unable to find or run mark.exe


    S.BirdAge.Weight

    sh: mark: command not found
    Warning in system(paste("mark i=", inputfile, " o=", outfile, " v=", vcvfile, :
      error in running command
    Error in run.mark.model(model, invisible = invisible, adjust = adjust, :
      
    Output file does not exist. Unable to find or run mark.exe


    S.BirdAgexWeight.min

    sh: mark: command not found
    Warning in system(paste("mark i=", inputfile, " o=", outfile, " v=", vcvfile, :
      error in running command
    Error in run.mark.model(model, invisible = invisible, adjust = adjust, :
      
    Output file does not exist. Unable to find or run mark.exe


    S.dot

    sh: mark: command not found
    Warning in system(paste("mark i=", inputfile, " o=", outfile, " v=", vcvfile, :
      error in running command
    Error in run.mark.model(model, invisible = invisible, adjust = adjust, :
      
    Output file does not exist. Unable to find or run mark.exe


    S.min

    sh: mark: command not found
    Warning in system(paste("mark i=", inputfile, " o=", outfile, " v=", vcvfile, :
      error in running command
    Error in run.mark.model(model, invisible = invisible, adjust = adjust, :
      
    Output file does not exist. Unable to find or run mark.exe


    S.time

    sh: mark: command not found
    Warning in system(paste("mark i=", inputfile, " o=", outfile, " v=", vcvfile, :
      error in running command
    Error in run.mark.model(model, invisible = invisible, adjust = adjust, :
      
    Output file does not exist. Unable to find or run mark.exe


    No mark models found

    Error in collect.models() :
    Calls: run.Blackduck -> mark.wrapper -> collect.models
    Execution halted
  • checking PDF version of manual ... OK
  • DONE
    Status: 1 ERROR, 1 WARNING
  • using check arguments '--no-clean-on-error '