CRAN Package Check Results for Package phmm

Last updated on 2017-10-19 19:47:16.

Flavor Version Tinstall Tcheck Ttotal Status Flags
r-devel-linux-x86_64-debian-clang 0.7-5 4.77 66.03 70.80 NOTE
r-devel-linux-x86_64-debian-gcc 0.7-5 5.70 73.02 78.72 NOTE
r-devel-linux-x86_64-fedora-clang 0.7-5 155.53 NOTE
r-devel-linux-x86_64-fedora-gcc 0.7-5 157.38 NOTE
r-devel-windows-ix86+x86_64 0.7-5 20.00 157.00 177.00 NOTE
r-patched-linux-x86_64 0.7-5 4.72 69.26 73.98 NOTE
r-patched-solaris-x86 0.7-5 211.00 NOTE
r-release-linux-x86_64 0.7-5 4.77 69.16 73.93 NOTE
r-release-windows-ix86+x86_64 0.7-5 30.00 203.00 233.00 NOTE
r-release-osx-x86_64 0.7-5 NOTE
r-oldrel-windows-ix86+x86_64 0.7-5 25.00 168.00 193.00 NOTE
r-oldrel-osx-x86_64 0.7-5 NOTE

Additional issues

clang-ASAN valgrind

Check Details

Version: 0.7-5
Check: R code for possible problems
Result: NOTE
    phmm: no visible binding for global variable ‘na.fail’
    phmm: no visible global function definition for ‘model.extract’
    phmm: no visible global function definition for ‘terms’
    phmm: no visible global function definition for ‘model.matrix’
    phmm: no visible global function definition for ‘as.formula’
    plot.phmm: no visible global function definition for ‘formula’
    print.phmm: no visible global function definition for ‘coef’
    print.summary.phmm: no visible global function definition for ‘coef’
    Undefined global functions or variables:
     as.formula coef formula model.extract model.matrix na.fail terms
    Consider adding
     importFrom("stats", "as.formula", "coef", "formula", "model.extract",
     "model.matrix", "na.fail", "terms")
    to your NAMESPACE file.
Flavors: r-devel-linux-x86_64-debian-clang, r-devel-linux-x86_64-debian-gcc, r-devel-linux-x86_64-fedora-clang, r-devel-linux-x86_64-fedora-gcc, r-devel-windows-ix86+x86_64, r-patched-linux-x86_64, r-patched-solaris-x86, r-release-linux-x86_64, r-release-windows-ix86+x86_64, r-release-osx-x86_64, r-oldrel-windows-ix86+x86_64, r-oldrel-osx-x86_64

Version: 0.7-5
Check: compiled code
Result: NOTE
    File ‘phmm/libs/phmm.so’:
     Found ‘rand’, possibly from ‘rand’ (C)
     Object: ‘arms.o’
    
    Compiled code should not call entry points which might terminate R nor
    write to stdout/stderr instead of to the console, nor the system RNG.
    
    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-devel-linux-x86_64-fedora-clang, r-devel-linux-x86_64-fedora-gcc, r-patched-linux-x86_64, r-patched-solaris-x86, r-release-linux-x86_64

Version: 0.7-5
Check: compiled code
Result: NOTE
    File 'phmm/libs/i386/phmm.dll':
     Found 'rand', possibly from 'rand' (C)
     Object: 'arms.o'
    File 'phmm/libs/x64/phmm.dll':
     Found 'rand', possibly from 'rand' (C)
     Object: 'arms.o'
    
    Compiled code should not call entry points which might terminate R nor
    write to stdout/stderr instead of to the console, nor the system RNG.
    
    See 'Writing portable packages' in the 'Writing R Extensions' manual.
Flavors: r-devel-windows-ix86+x86_64, r-release-windows-ix86+x86_64, r-oldrel-windows-ix86+x86_64

Version: 0.7-5
Check: compiled code
Result: NOTE
    File ‘phmm/libs/phmm.so’:
     Found ‘_rand’, possibly from ‘rand’ (C)
     Object: ‘arms.o’
    
    Compiled code should not call entry points which might terminate R nor
    write to stdout/stderr instead of to the console, nor the system RNG.
    
    See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
Flavors: r-release-osx-x86_64, r-oldrel-osx-x86_64

Version: 0.7-5
Check: re-building of vignette outputs
Result: NOTE
    Error in re-building vignettes:
     ...
    Loading required package: survival
    Loading required package: lattice
    Loading required package: Matrix
    Warning in lmer(m ~ -1 + t + z1 + z2 + (z1 + z2 | cluster) + offset(log(N)), :
     calling lmer with 'family' is deprecated; please use glmer() instead
    Warning in (function (fn, par, lower = rep.int(-Inf, n), upper = rep.int(Inf, :
     failure to converge in 10000 evaluations
    Warning in checkConv(attr(opt, "derivs"), opt$par, ctrl = control$checkConv, :
     Model failed to converge with max|grad| = 0.0102246 (tol = 0.001, component 1)
    Error in texi2dvi(file = file, pdf = TRUE, clean = clean, quiet = quiet, :
     Running 'texi2dvi' on 'phmm_poisson_df.tex' failed.
    LaTeX errors:
    ! LaTeX Error: File `utf8x.def' not found.
    
    Type X to quit or <RETURN> to proceed,
    or enter new name. (Default extension: def)
    
    ! Emergency stop.
    <read *>
    
    l.158 \endinput
     ^^M
    ! ==> Fatal error occurred, no output PDF file produced!
    Calls: buildVignettes -> texi2pdf -> texi2dvi
    Execution halted
Flavor: r-release-osx-x86_64