CRAN Package Check Results for Package rbamtools

Last updated on 2014-08-23 06:48:40.

Flavor Version Tinstall Tcheck Ttotal Status Flags
r-devel-linux-x86_64-debian-clang 2.9.14 5.16 23.19 28.35 OK
r-devel-linux-x86_64-debian-gcc 2.9.14 8.97 22.64 31.60 OK
r-devel-linux-x86_64-fedora-clang 2.9.14 61.40 OK
r-devel-linux-x86_64-fedora-gcc 2.9.14 62.60 OK
r-devel-osx-x86_64-clang 2.9.14 56.91 OK
r-devel-windows-ix86+x86_64 2.9.14 33.00 49.00 82.00 OK
r-patched-linux-x86_64 2.9.14 9.40 23.00 32.40 OK
r-patched-solaris-sparc 2.9.14 404.30 OK
r-patched-solaris-x86 2.9.14 90.50 OK
r-release-linux-ix86 2.9.14 11.76 32.77 44.53 OK
r-release-linux-x86_64 2.9.14 9.17 23.80 32.98 OK
r-release-osx-x86_64-mavericks 2.9.14 NOTE
r-release-osx-x86_64-snowleopard 2.9.14 ERROR
r-release-windows-ix86+x86_64 2.9.14 29.00 50.00 79.00 OK
r-oldrel-windows-ix86+x86_64 2.9.14 30.00 54.00 84.00 OK

Check Details

Version: 2.9.14
Check: re-building of vignette outputs
Result: NOTE
    Error in re-building vignettes:
     ...
    Warning in text.default(xlim[1], 2, transcript, adj = 0, cex = 1.2) :
     font width unknown for character 0x9
    Warning in text.default(xlim[1], 2, transcript, adj = 0, cex = 1.2) :
     font width unknown for character 0x9
    Warning in text.default(xlim[1], 2, transcript, adj = 0, cex = 1.2) :
     font metrics unknown for character 0x9
    Warning in text.default(xlim[1], 2, transcript, adj = 0, cex = 1.2) :
     font metrics unknown for character 0x9
    Error in texi2dvi(file = file, pdf = TRUE, clean = clean, quiet = quiet, :
     Running 'texi2dvi' on 'rbamtools.tex' failed.
    LaTeX errors:
    ! LaTeX Error: File `sectsty.sty' not found.
    
    Type X to quit or <RETURN> to proceed,
    or enter new name. (Default extension: sty)
    
    gn_test/rbamtools/vignettes/rbamtools.tex:25: ==> Fatal error occurred, no out
    put PDF file produced!
    Calls: buildVignettes -> texi2pdf -> texi2dvi
    Execution halted
Flavor: r-release-osx-x86_64-mavericks

Version: 2.9.14
Check: examples
Result: ERROR
    Running examples in ‘rbamtools-Ex.R’ failed
    The error most likely occurred in:
    
    > ### Name: range2fastq
    > ### Title: range2fastq
    > ### Aliases: range2fastq range2fastq-methods range2fastq,bamRange-method
    > ### Keywords: range2fastq range2fastq
    >
    > ### ** Examples
    >
    > bam<-system.file("extdata","accepted_hits.bam",package="rbamtools")
    > reader<-bamReader(bam,idx=TRUE)
    > coords<-as.integer(c(0,0,249250621))
    > range<-bamRange(reader,coords)
    > range2fastq(range,"range.fq.gz")
    Error in range2fastq(range, "range.fq.gz") :
     [bam_range_write_fastq] File could not be opened!
    Calls: range2fastq -> range2fastq -> .Call
    Execution halted
Flavor: r-release-osx-x86_64-snowleopard