CRAN Package Check Results for Package cghFLasso

Last updated on 2015-03-29 05:49:14.

Flavor Version Tinstall Tcheck Ttotal Status Flags
r-devel-linux-x86_64-debian-clang 0.2-1 1.20 13.68 14.88 NOTE
r-devel-linux-x86_64-debian-gcc 0.2-1 1.21 13.79 15.00 NOTE
r-devel-linux-x86_64-fedora-clang 0.2-1 30.46 NOTE
r-devel-linux-x86_64-fedora-gcc 0.2-1 28.05 NOTE
r-devel-osx-x86_64-clang 0.2-1 30.86 NOTE
r-prerel-windows-ix86+x86_64 0.2-1 10.00 31.00 41.00 NOTE
r-prerel-linux-x86_64 0.2-1 1.15 13.77 14.92 NOTE
r-prerel-solaris-sparc 0.2-1 200.10 NOTE
r-prerel-solaris-x86 0.2-1 39.80 NOTE
r-release-linux-x86_64 0.2-1 1.17 15.13 16.30 NOTE
r-release-osx-x86_64-mavericks 0.2-1 NOTE
r-release-windows-ix86+x86_64 0.2-1 9.00 34.00 43.00 NOTE
r-oldrel-windows-ix86+x86_64 0.2-1 6.00 36.00 42.00 NOTE

Check Details

Version: 0.2-1
Check: DESCRIPTION meta-information
Result: NOTE
    Malformed Title field: should not end in a period.
    Malformed Description field: should contain one or more complete sentences.
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-prerel-windows-ix86+x86_64, r-prerel-linux-x86_64, r-prerel-solaris-sparc, r-prerel-solaris-x86

Version: 0.2-1
Check: S3 generic/method consistency
Result: NOTE
    Found the following apparent S3 methods exported but not registered:
     plot.cghFLasso print.summary.cghFLasso summary.cghFLasso
    See section ‘Registering S3 methods’ 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-devel-osx-x86_64-clang, r-prerel-linux-x86_64

Version: 0.2-1
Check: R code for possible problems
Result: NOTE
    L2L1ExpandFit: no visible global function definition for
     ‘L2L1PathExtract’
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-prerel-windows-ix86+x86_64, r-prerel-linux-x86_64, r-prerel-solaris-sparc, r-prerel-solaris-x86, r-release-linux-x86_64, r-release-osx-x86_64-mavericks, r-release-windows-ix86+x86_64, r-oldrel-windows-ix86+x86_64

Version: 0.2-1
Check: Rd line widths
Result: NOTE
    Rd file 'cghFLasso.Rd':
     \usage lines wider than 90 characters:
     cghFLasso(CGH.Array, chromosome=NULL, nucleotide.position=NULL, FL.norm=NULL, FDR=NULL, filter=NULL, missing.PlugIn=TRUE, smooth.size=5 ... [TRUNCATED]
     \examples lines wider than 100 characters:
     Disease.FL<-cghFLasso(CGH$DiseaseArray, chromosome=CGH$chromosome, nucleotide.position=CGH$nucposition, FL.norm=Normal.FL, FDR=0.01)
    
    Rd file 'cghFLasso.ref.Rd':
     \examples lines wider than 100 characters:
     Disease.FL<-cghFLasso(CGH$DiseaseArray, chromosome=CGH$chromosome, nucleotide.position=CGH$nucposition, FL.norm=Normal.FL, FDR=0.01)
    
    Rd file 'output.cghFLasso.Rd':
     \examples lines wider than 100 characters:
     Disease.FL<-cghFLasso(CGH$DiseaseArray, chromosome=CGH$chromosome, nucleotide.position=CGH$nucposition, FL.norm=Normal.FL, FDR=0.01)
    
    Rd file 'plot.cghFLasso.Rd':
     \examples lines wider than 100 characters:
     Disease.FL<-cghFLasso(CGH$DiseaseArray, chromosome=CGH$chromosome, nucleotide.position=CGH$nucposition, FL.norm=Normal.FL, FDR=0.01)
    
    Rd file 'summary.cghFLasso.Rd':
     \examples lines wider than 100 characters:
     Disease.FL<-cghFLasso(CGH$DiseaseArray, chromosome=CGH$chromosome, nucleotide.position=CGH$nucposition, FL.norm=Normal.FL, FDR=0.01)
    
    These lines will be truncated in the PDF 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-prerel-linux-x86_64, r-release-linux-x86_64

Version: 0.2-1
Check: Rd \usage sections
Result: NOTE
    S3 methods shown with full name in documentation object 'plot.cghFLasso':
     ‘plot.cghFLasso’
    
    S3 methods shown with full name in documentation object 'summary.cghFLasso':
     ‘summary.cghFLasso’ ‘print.summary.cghFLasso’
    
    The \usage entries for S3 methods should use the \method markup and not
    their full name.
    See chapter ‘Writing R documentation files’ 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-devel-osx-x86_64-clang, r-prerel-windows-ix86+x86_64, r-prerel-linux-x86_64, r-prerel-solaris-sparc, r-prerel-solaris-x86, r-release-linux-x86_64, r-release-windows-ix86+x86_64

Version: 0.2-1
Check: Rd \usage sections
Result: NOTE
    S3 methods shown with full name in documentation object 'plot.cghFLasso':
     ‘plot.cghFLasso’
    
    S3 methods shown with full name in documentation object 'summary.cghFLasso':
     ‘summary.cghFLasso’ ‘print.summary.cghFLasso’
    
    The \usage entries for S3 methods should use the \method markup and not
    their full name.
    See the chapter ‘Writing R documentation files’ in the ‘Writing R
    Extensions’ manual.
Flavors: r-release-osx-x86_64-mavericks, r-oldrel-windows-ix86+x86_64