CRAN Package Check Results for Package STARSEQ

Last updated on 2014-10-25 11:48:48.

Flavor Version Tinstall Tcheck Ttotal Status Flags
r-devel-linux-x86_64-debian-clang 1.2.1 2.62 16.00 18.62 NOTE
r-devel-linux-x86_64-debian-gcc 1.2.1 3.15 16.52 19.67 NOTE
r-devel-linux-x86_64-fedora-clang 1.2.1 18.19 NOTE
r-devel-linux-x86_64-fedora-gcc 1.2.1 16.68 NOTE
r-devel-osx-x86_64-clang 1.2.1 31.44 NOTE
r-devel-windows-ix86+x86_64 1.2.1 14.00 34.00 48.00 NOTE
r-patched-linux-x86_64 1.2.1 3.19 16.14 19.33 NOTE
r-patched-solaris-sparc 1.2.1 160.50 NOTE
r-patched-solaris-x86 1.2.1 43.00 NOTE
r-release-linux-ix86 1.02 4.41 21.83 26.24 NOTE
r-release-linux-x86_64 1.02 3.24 15.67 18.90 NOTE
r-release-osx-x86_64-mavericks 1.2.1 NOTE
r-release-osx-x86_64-snowleopard 1.2.1 NOTE
r-release-windows-ix86+x86_64 1.2.1 15.00 34.00 49.00 NOTE
r-oldrel-windows-ix86+x86_64 1.2.1 13.00 41.00 54.00 NOTE

Check Details

Version: 1.2.1
Check: dependencies in R code
Result: NOTE
    Packages in Depends field not imported from:
     ‘CompQuadForm’ ‘numDeriv’ ‘seqminer’
     These packages need to be imported from (in the NAMESPACE file)
     for when this namespace is loaded but not attached.
    See the information on DESCRIPTION files in the chapter ‘Creating R
    packages’ of 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-devel-windows-ix86+x86_64, r-patched-linux-x86_64, r-patched-solaris-sparc, r-patched-solaris-x86, r-release-osx-x86_64-mavericks, r-release-osx-x86_64-snowleopard, r-release-windows-ix86+x86_64, r-oldrel-windows-ix86+x86_64

Version: 1.2.1
Check: R code for possible problems
Result: NOTE
    mySKAT: no visible global function definition for ‘davies’
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-patched-solaris-sparc, r-patched-solaris-x86, r-release-osx-x86_64-mavericks, r-release-osx-x86_64-snowleopard

Version: 1.2.1
Check: Rd line widths
Result: NOTE
    Rd file 'STAR.test.Rd':
     \usage lines wider than 90 characters:
     STAR.test(dat.ped, y2.vec, covar.mat, rv.count.cutoff, maf.vec, maf.cutoff, pct.upper, pct.lower, yub, ylb, no.perm = 1000, method = "C ... [TRUNCATED]
    
    Rd file 'cmc.uniqtl.pop.Rd':
     \usage lines wider than 90 characters:
     cmc.uniqtl.pop(dat.ped, par.dat, maf.vec, maf.cutoff, no.perm = 1000, alternative = "greater")
    
    Rd file 'fit.null.2nd.ex.full.pleiomap.Rd':
     \usage lines wider than 90 characters:
     fit.null.2nd.ex.full.pleiomap(marker, rv.count.cutoff, covar.mat, y1.vec, y2.vec, yub, ylb, pct.upper, pct.lower, Nub, Nlb)
    
    Rd file 'kbac.uniqtl.pop.C.Rd':
     \usage lines wider than 90 characters:
     kbac.uniqtl.pop.C(dat.ped, par.dat, maf.vec, maf.cutoff, no.perm = 1000, alternative = "greater")
    
    Rd file 'minus.L0.2nd.ex.full.pleiomap.Rd':
     \usage lines wider than 90 characters:
     minus.L0.2nd.ex.full.pleiomap(pars, marker, covar.mat, y1.vec, y2.vec, yub, ylb, pct.upper, pct.lower, Nub, Nlb)
    
    Rd file 'vt.uniqtl.pop.C.Rd':
     \usage lines wider than 90 characters:
     vt.uniqtl.pop.C(dat.ped, par.dat, maf.vec, maf.cutoff, no.perm = 1000, alternative = c("two.sided","greater","less"))
    
    Rd file 'wss.lin.simple.C.Rd':
     \usage lines wider than 90 characters:
     wss.lin.simple.C(dat.ped, par.dat, maf.vec, maf.cutoff, no.perm = 1000, alternative = c("two.sided", "greater", "less"))
    
    Rd file 'wss.uniqtl.pop.C.Rd':
     \usage lines wider than 90 characters:
     wss.uniqtl.pop.C(dat.ped, par.dat, maf.vec, maf.cutoff, no.perm = 1000, alternative = "greater")
    
    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-patched-linux-x86_64

Version: 1.2.1
Check: compiled code
Result: NOTE
    File ‘STARSEQ/libs/STARSEQ.so’:
     Found ‘rand’, possibly from ‘rand’ (C)
     Object: ‘genericPerm.o’
    
    Compiled code should not call entry points which might terminate R nor
    write to stdout/stderr instead of to the console, nor the C 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-gcc, r-patched-linux-x86_64, r-patched-solaris-sparc, r-patched-solaris-x86

Version: 1.2.1
Check: compiled code
Result: NOTE
    File 'STARSEQ/libs/i386/STARSEQ.dll':
     Found 'rand', possibly from 'rand' (C)
     Object: 'genericPerm.o'
    File 'STARSEQ/libs/x64/STARSEQ.dll':
     Found 'rand', possibly from 'rand' (C)
     Object: 'genericPerm.o'
    
    Compiled code should not call entry points which might terminate R nor
    write to stdout/stderr instead of to the console, nor the C RNG.
    
    See 'Writing portable packages' in the 'Writing R Extensions' manual.
Flavor: r-devel-windows-ix86+x86_64

Version: 1.02
Check: dependencies in R code
Result: NOTE
    Packages in Depends field not imported from:
     ‘CompQuadForm’ ‘numDeriv’ ‘vcf2geno’
     These packages need to be imported from (in the NAMESPACE file)
     for when this namespace is loaded but not attached.
    See the information on DESCRIPTION files in the chapter ‘Creating R
    packages’ of the ‘Writing R Extensions’ manual.
Flavors: r-release-linux-ix86, r-release-linux-x86_64

Version: 1.02
Check: Rd line widths
Result: NOTE
    Rd file 'STAR.test.Rd':
     \usage lines wider than 90 characters:
     STAR.test(dat.ped, y2.vec, covar.mat, rv.count.cutoff, maf.vec, maf.cutoff, pct.upper, pct.lower, yub, ylb, no.perm = 1000, method = "C ... [TRUNCATED]
    
    Rd file 'cmc.uniqtl.pop.Rd':
     \usage lines wider than 90 characters:
     cmc.uniqtl.pop(dat.ped, par.dat, maf.vec, maf.cutoff, no.perm = 1000, alternative = "greater")
    
    Rd file 'fit.null.2nd.ex.full.pleiomap.Rd':
     \usage lines wider than 90 characters:
     fit.null.2nd.ex.full.pleiomap(marker, rv.count.cutoff, covar.mat, y1.vec, y2.vec, yub, ylb, pct.upper, pct.lower, Nub, Nlb)
    
    Rd file 'kbac.uniqtl.pop.C.Rd':
     \usage lines wider than 90 characters:
     kbac.uniqtl.pop.C(dat.ped, par.dat, maf.vec, maf.cutoff, no.perm = 1000, alternative = "greater")
    
    Rd file 'minus.L0.2nd.ex.full.pleiomap.Rd':
     \usage lines wider than 90 characters:
     minus.L0.2nd.ex.full.pleiomap(pars, marker, covar.mat, y1.vec, y2.vec, yub, ylb, pct.upper, pct.lower, Nub, Nlb)
    
    Rd file 'vt.uniqtl.pop.C.Rd':
     \usage lines wider than 90 characters:
     vt.uniqtl.pop.C(dat.ped, par.dat, maf.vec, maf.cutoff, no.perm = 1000, alternative = c("two.sided","greater","less"))
    
    Rd file 'wss.lin.simple.C.Rd':
     \usage lines wider than 90 characters:
     wss.lin.simple.C(dat.ped, par.dat, maf.vec, maf.cutoff, no.perm = 1000, alternative = c("two.sided", "greater", "less"))
    
    Rd file 'wss.uniqtl.pop.C.Rd':
     \usage lines wider than 90 characters:
     wss.uniqtl.pop.C(dat.ped, par.dat, maf.vec, maf.cutoff, no.perm = 1000, alternative = "greater")
    
    These lines will be truncated in the PDF manual.
Flavor: r-release-linux-x86_64

Version: 1.2.1
Check: compiled code
Result: NOTE
    File ‘STARSEQ/libs/STARSEQ.so’:
     Found ‘_rand’, possibly from ‘rand’ (C)
     Object: ‘genericPerm.o’
    
    Compiled code should not call entry points which might terminate R nor
    write to stdout/stderr instead of to the console, nor the C RNG.
    
    See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
Flavor: r-release-osx-x86_64-snowleopard