CRAN Package Check Results for Package NMF

Last updated on 2016-07-30 23:47:36.

Flavor Version Tinstall Tcheck Ttotal Status Flags
r-devel-linux-x86_64-debian-clang 0.20.6 7.69 264.16 271.85 NOTE
r-devel-linux-x86_64-debian-gcc 0.20.6 7.00 270.39 277.39 NOTE
r-devel-linux-x86_64-fedora-clang 0.20.6 387.12 WARN
r-devel-linux-x86_64-fedora-gcc 0.20.6 373.29 WARN
r-devel-osx-x86_64-clang 0.20.6 300.04 WARN
r-devel-windows-ix86+x86_64 0.20.6 19.00 442.00 461.00 NOTE
r-patched-linux-x86_64 0.20.6 6.70 263.20 269.89 NOTE
r-patched-solaris-sparc 0.20.6 990.50 NOTE --no-tests --no-vignettes
r-patched-solaris-x86 0.20.6 216.50 NOTE --no-build-vignettes
r-release-linux-x86_64 0.20.6 7.55 133.74 141.29 ERROR
r-release-osx-x86_64-mavericks 0.20.6 NOTE
r-release-windows-ix86+x86_64 0.20.6 31.00 575.00 606.00 NOTE
r-oldrel-windows-ix86+x86_64 0.20.6 42.00 618.00 660.00 NOTE

Check Details

Version: 0.20.6
Check: R code for possible problems
Result: NOTE
    algorithm,NMFStrategyOctave: no visible global function definition for
     ‘fstop’
    evar,ANY: no visible binding for global variable ‘Biobase’
    nmf,matrix-numeric-NMFStrategy : run.all: no visible binding for global
     variable ‘n’
    nmf,matrix-numeric-NMFStrategy : run.all: no visible binding for global
     variable ‘RNGobj’
    rss,matrix: no visible binding for global variable ‘Biobase’
    Undefined global functions or variables:
     Biobase RNGobj fstop n
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-osx-x86_64-clang, r-devel-windows-ix86+x86_64, r-patched-linux-x86_64, r-release-linux-x86_64, r-release-osx-x86_64-mavericks, r-release-windows-ix86+x86_64

Version: 0.20.6
Check: package dependencies
Result: NOTE
    Package suggested but not available for checking: ‘RcppOctave’
Flavors: r-devel-linux-x86_64-fedora-clang, r-devel-osx-x86_64-clang

Version: 0.20.6
Check: Rd cross-references
Result: NOTE
    Package unavailable to check Rd xrefs: ‘RcppOctave’
Flavors: r-devel-linux-x86_64-fedora-clang, r-devel-osx-x86_64-clang, r-release-osx-x86_64-mavericks

Version: 0.20.6
Check: re-building of vignette outputs
Result: WARN
    Error in re-building vignettes:
     ...
    Converted 10 of 10 package citations to BibTeX
    Writing 12 Bibtex entries ... OK
    Results written to file 'Rpackages.bib'
    Warning in grepl("(Rerun to get|biblatex.*\\(re\\)run)", readLines(log, :
     input string 947 is invalid in this locale
    Warning in grepl("(Rerun to get|biblatex.*\\(re\\)run)", readLines(log, :
     input string 948 is invalid in this locale
    Warning in grepl("(Rerun to get|biblatex.*\\(re\\)run)", readLines(log, :
     input string 949 is invalid in this locale
    Error in texi2dvi(file = file, pdf = TRUE, clean = clean, quiet = quiet, :
     Running 'texi2dvi' on 'NMF-vignette.tex' failed.
    LaTeX errors:
    ! Use of \blx@bbl@verbadd@i doesn't match its definition.
    l.68 \verb
    
    If you say, e.g., `\def\a1{...}', then you must always
    put `1' after `\a', since control sequence names are
    ! Illegal parameter number in definition of \NewCount.
    <to be read again>
     1
    l.245 \begin{itemize}
    
    ! Illegal parameter number in definition of \NewCount.
    <to be read again>
     1
    l.245 \begin{itemize}
    
    ! Missing \endcsname inserted.
    <to be read again>
     \global
    l.245 \begin{itemize}
    
    ! Missing \endcsname inserted.
    <to be read again>
     \global
    l.245 \begin{itemize}
    
    ! TeX capacity exceeded, sorry [input stack size=5000].
    \font@name ->
     \OT1/cmr/m/it/10
    l.245 \begin{itemize}
    
    ! ==> Fatal error occurred, no output PDF file produced!
    Calls: buildVignettes -> texi2pdf -> texi2dvi
    Execution halted
Flavors: r-devel-linux-x86_64-fedora-clang, r-devel-linux-x86_64-fedora-gcc

Version: 0.20.6
Check: re-building of vignette outputs
Result: WARN
    Error in re-building vignettes:
     ...
    l.245 \begin{itemize}
    
    ! Illegal parameter number in definition of \NewCount.
    <to be read again>
     1
    l.245 \begin{itemize}
    
    ! Missing \endcsname inserted.
    <to be read again>
     \global
    l.245 \begin{itemize}
    
    ! Missing \endcsname inserted.
    <to be read again>
     \global
    l.245 \begin{itemize}
    
    ! TeX capacity exceeded, sorry [input stack size=5000].
    \font@name ->
     \OT1/cmr/m/it/10
    l.245 \begin{itemize}
    
    ! ==> Fatal error occurred, no output PDF file produced!
    Calls: buildVignettes -> texi2pdf -> texi2dvi
    Execution halted
Flavor: r-devel-osx-x86_64-clang

Version: 0.20.6
Check: package dependencies
Result: NOTE
    Package suggested but not available for checking: 'synchronicity'
Flavors: r-devel-windows-ix86+x86_64, r-release-windows-ix86+x86_64, r-oldrel-windows-ix86+x86_64

Version: 0.20.6
Check: Rd cross-references
Result: NOTE
    Package unavailable to check Rd xrefs: 'synchronicity'
Flavors: r-devel-windows-ix86+x86_64, r-release-windows-ix86+x86_64, r-oldrel-windows-ix86+x86_64

Version: 0.20.6
Flags: --no-tests --no-vignettes
Check: package dependencies
Result: NOTE
    Package suggested but not available for checking: ‘RcppOctave’
Flavor: r-patched-solaris-sparc

Version: 0.20.6
Flags: --no-tests --no-vignettes
Check: R code for possible problems
Result: NOTE
    algorithm,NMFStrategyOctave: no visible global function definition for
     ‘fstop’
    evar,ANY: no visible binding for global variable ‘Biobase’
    nmf,matrix-numeric-NMFStrategy : run.all: no visible binding for global
     variable ‘n’
    nmf,matrix-numeric-NMFStrategy : run.all: no visible binding for global
     variable ‘RNGobj’
    rss,matrix: no visible binding for global variable ‘Biobase’
    Undefined global functions or variables:
     Biobase RNGobj fstop n
Flavor: r-patched-solaris-sparc

Version: 0.20.6
Flags: --no-tests --no-vignettes
Check: Rd cross-references
Result: NOTE
    Package unavailable to check Rd xrefs: ‘RcppOctave’
Flavor: r-patched-solaris-sparc

Version: 0.20.6
Flags: --no-build-vignettes
Check: package dependencies
Result: NOTE
    Package suggested but not available for checking: ‘RcppOctave’
Flavor: r-patched-solaris-x86

Version: 0.20.6
Flags: --no-build-vignettes
Check: R code for possible problems
Result: NOTE
    algorithm,NMFStrategyOctave: no visible global function definition for
     ‘fstop’
    evar,ANY: no visible binding for global variable ‘Biobase’
    nmf,matrix-numeric-NMFStrategy : run.all: no visible binding for global
     variable ‘n’
    nmf,matrix-numeric-NMFStrategy : run.all: no visible binding for global
     variable ‘RNGobj’
    rss,matrix: no visible binding for global variable ‘Biobase’
    Undefined global functions or variables:
     Biobase RNGobj fstop n
Flavor: r-patched-solaris-x86

Version: 0.20.6
Flags: --no-build-vignettes
Check: Rd cross-references
Result: NOTE
    Package unavailable to check Rd xrefs: ‘RcppOctave’
Flavor: r-patched-solaris-x86

Version: 0.20.6
Check: examples
Result: ERROR
    Running examples in ‘NMF-Ex.R’ failed
    The error most likely occurred in:
    
    > ### Name: getRNG1
    > ### Title: Extracting RNG Data from NMF Objects
    > ### Aliases: .getRNG getRNG1 getRNG1-methods getRNG1,NMFfitX1-method
    > ### getRNG1,NMFfitX-method getRNG1,NMFfitXn-method .getRNG-methods
    > ### .getRNG,NMFfitXn-method
    > ### Keywords: methods
    >
    > ### ** Examples
    >
    > ## Don't show:
    > # roxygen generated flag
    > options(R_CHECK_RUNNING_EXAMPLES_=TRUE)
    > ## End(Don't show)
    >
    > # For multiple NMF runs, the RNG settings used for the first run is also stored
    > V <- rmatrix(20,10)
    > res <- nmf(V, 3, nrun=4)
    # NOTE - CRAN check detected: limiting maximum number of cores [2/32]
    Error in big.matrix(nrow = nrow(x), ncol = ncol(x), type = type, init = NULL, :
     Error: memory could not be allocated for instance of type big.matrix
    Calls: nmf ... gVariable -> <Anonymous> -> <Anonymous> -> big.matrix
    Timing stopped at: 0.012 0.008 0.068
    Execution halted
Flavor: r-release-linux-x86_64

Version: 0.20.6
Check: re-building of vignette outputs
Result: WARN
    Error in re-building vignettes:
     ...
    Quitting from lines 846-861 (NMF-vignette.Rnw)
    Error: processing vignette ‘NMF-vignette.Rnw’ failed with diagnostics:
    Error: memory could not be allocated for instance of type big.matrix
    Execution halted
Flavor: r-release-linux-x86_64

Version: 0.20.6
Check: package dependencies
Result: NOTE
    Packages suggested but not available for checking: ‘RcppOctave’ ‘doMPI’
Flavor: r-release-osx-x86_64-mavericks

Version: 0.20.6
Check: R code for possible problems
Result: NOTE
    algorithm,NMFStrategyOctave : .local: no visible global function
     definition for 'fstop'
    evar,ANY : .local: no visible binding for global variable 'Biobase'
    nmf,matrix-numeric-NMFStrategy : .local : run.all: no visible binding
     for global variable 'n'
    nmf,matrix-numeric-NMFStrategy : .local : run.all: no visible binding
     for global variable 'RNGobj'
    rss,matrix : .local: no visible binding for global variable 'Biobase'
Flavor: r-oldrel-windows-ix86+x86_64