CRAN Package Check Results for Package adegenet

Last updated on 2014-11-24 23:46:58.

Flavor Version Tinstall Tcheck Ttotal Status Flags
r-devel-linux-x86_64-debian-clang 1.4-2 5.61 72.39 78.00 NOTE
r-devel-linux-x86_64-debian-gcc 1.4-2 5.81 69.82 75.63 NOTE
r-devel-linux-x86_64-fedora-clang 1.4-2 163.34 NOTE
r-devel-linux-x86_64-fedora-gcc 1.4-2 154.21 NOTE
r-devel-osx-x86_64-clang 1.4-2 137.79 NOTE
r-devel-windows-ix86+x86_64 1.4-2 20.00 138.00 158.00 NOTE
r-patched-linux-x86_64 1.4-2 6.10 75.13 81.22 NOTE
r-patched-solaris-sparc 1.4-2 952.40 NOTE --no-vignettes
r-patched-solaris-x86 1.4-2 221.70 NOTE
r-release-linux-ix86 1.4-2 6.97 86.09 93.06 NOTE
r-release-linux-x86_64 1.4-2 5.94 75.18 81.13 NOTE
r-release-osx-x86_64-mavericks 1.4-2 NOTE
r-release-osx-x86_64-snowleopard 1.4-2 OK
r-release-windows-ix86+x86_64 1.4-2 25.00 149.00 174.00 NOTE
r-oldrel-windows-ix86+x86_64 1.4-2 21.00 161.00 182.00 OK

Check Details

Version: 1.4-2
Check: R code for possible problems
Result: NOTE
    HWE.test.genind : ftest: no visible global function definition for
     ‘HWE.chisq’
    HWE.test.genind : ftest: no visible global function definition for
     ‘genotype’
    alignment2genind: no visible binding for global variable ‘s2c’
    chooseCN: no visible global function definition for ‘tri2nb’
    chooseCN: no visible global function definition for ‘gabrielneigh’
    chooseCN: no visible global function definition for ‘graph2nb’
    chooseCN: no visible global function definition for ‘relativeneigh’
    chooseCN: no visible global function definition for ‘dnearneigh’
    chooseCN: no visible global function definition for ‘knearneigh’
    chooseCN: no visible global function definition for ‘knn2nb’
    chooseCN: no visible global function definition for ‘nb2listw’
    chooseCN: no visible global function definition for ‘mat2listw’
    fasta2DNAbin: no visible global function definition for ‘seg.sites’
    fasta2genlight: no visible global function definition for ‘mclapply’
    fstat: no visible global function definition for ‘varcomp.glob’
    genind2genotype : f2: no visible global function definition for
     ‘as.genotype’
    genind2genotype: no visible global function definition for
     ‘makeGenotypes’
    glPca: no visible global function definition for ‘mclapply’
    gstat.randtest: no visible global function definition for
     ‘g.stats.glob’
    gstat.randtest : <anonymous>: no visible global function definition for
     ‘g.stats.glob’
    gstat.randtest : <anonymous>: no visible global function definition for
     ‘samp.within’
    gstat.randtest : <anonymous>: no visible global function definition for
     ‘samp.between’
    plot.spca: no visible global function definition for ‘card’
    read.PLINK: no visible global function definition for ‘mclapply’
    read.snp: no visible global function definition for ‘mclapply’
    snpposi.plot.DNAbin: no visible global function definition for
     ‘seg.sites’
    snpposi.test.DNAbin: no visible global function definition for
     ‘seg.sites’
    spca: no visible global function definition for ‘mat2listw’
    spca: no visible global function definition for ‘nb2listw’
    summary.spca: no visible global function definition for ‘listw2mat’
    summary.spca: no visible binding for global variable ‘lag.listw’
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-x86, r-release-linux-ix86, r-release-linux-x86_64, r-release-windows-ix86+x86_64

Version: 1.4-2
Check: compiled code
Result: NOTE
    File ‘adegenet/libs/adegenet.so’:
     Found ‘rand’, possibly from ‘rand’ (C)
     Object: ‘adesub.o’
     Found ‘srand’, possibly from ‘srand’ (C)
     Object: ‘adesub.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-clang, r-devel-linux-x86_64-fedora-gcc, r-patched-linux-x86_64, r-patched-solaris-x86, r-release-linux-ix86, r-release-linux-x86_64

Version: 1.4-2
Check: compiled code
Result: NOTE
    File ‘adegenet/libs/adegenet.so’:
     Found ‘_rand’, possibly from ‘rand’ (C)
     Object: ‘adesub.o’
     Found ‘_srand’, possibly from ‘srand’ (C)
     Object: ‘adesub.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-osx-x86_64-clang

Version: 1.4-2
Check: compiled code
Result: NOTE
    File 'adegenet/libs/i386/adegenet.dll':
     Found 'rand', possibly from 'rand' (C)
     Object: 'adesub.o'
     Found 'srand', possibly from 'srand' (C)
     Object: 'adesub.o'
    File 'adegenet/libs/x64/adegenet.dll':
     Found 'rand', possibly from 'rand' (C)
     Object: 'adesub.o'
     Found 'srand', possibly from 'srand' (C)
     Object: 'adesub.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-windows-ix86+x86_64, r-release-windows-ix86+x86_64

Version: 1.4-2
Flags: --no-vignettes
Check: R code for possible problems
Result: NOTE
    HWE.test.genind : ftest: no visible global function definition for
     ‘HWE.chisq’
    HWE.test.genind : ftest: no visible global function definition for
     ‘genotype’
    alignment2genind: no visible binding for global variable ‘s2c’
    chooseCN: no visible global function definition for ‘tri2nb’
    chooseCN: no visible global function definition for ‘gabrielneigh’
    chooseCN: no visible global function definition for ‘graph2nb’
    chooseCN: no visible global function definition for ‘relativeneigh’
    chooseCN: no visible global function definition for ‘dnearneigh’
    chooseCN: no visible global function definition for ‘knearneigh’
    chooseCN: no visible global function definition for ‘knn2nb’
    chooseCN: no visible global function definition for ‘nb2listw’
    chooseCN: no visible global function definition for ‘mat2listw’
    fasta2DNAbin: no visible global function definition for ‘seg.sites’
    fasta2genlight: no visible global function definition for ‘mclapply’
    fstat: no visible global function definition for ‘varcomp.glob’
    genind2genotype : f2: no visible global function definition for
     ‘as.genotype’
    genind2genotype: no visible global function definition for
     ‘makeGenotypes’
    glPca: no visible global function definition for ‘mclapply’
    gstat.randtest: no visible global function definition for
     ‘g.stats.glob’
    gstat.randtest : <anonymous>: no visible global function definition for
     ‘g.stats.glob’
    gstat.randtest : <anonymous>: no visible global function definition for
     ‘samp.within’
    gstat.randtest : <anonymous>: no visible global function definition for
     ‘samp.between’
    plot.spca: no visible global function definition for ‘card’
    read.PLINK: no visible global function definition for ‘mclapply’
    read.snp: no visible global function definition for ‘mclapply’
    snpposi.plot.DNAbin: no visible global function definition for
     ‘seg.sites’
    snpposi.test.DNAbin: no visible global function definition for
     ‘seg.sites’
    spca: no visible global function definition for ‘mat2listw’
    spca: no visible global function definition for ‘nb2listw’
    summary.spca: no visible global function definition for ‘listw2mat’
    summary.spca: no visible binding for global variable ‘lag.listw’
Flavor: r-patched-solaris-sparc

Version: 1.4-2
Flags: --no-vignettes
Check: compiled code
Result: NOTE
    File ‘adegenet/libs/adegenet.so’:
     Found ‘rand’, possibly from ‘rand’ (C)
     Object: ‘adesub.o’
     Found ‘srand’, possibly from ‘srand’ (C)
     Object: ‘adesub.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-patched-solaris-sparc

Version: 1.4-2
Check: package dependencies
Result: NOTE
    Package suggested but not available for checking: ‘spdep’
Flavor: r-release-osx-x86_64-mavericks

Version: 1.4-2
Check: R code for possible problems
Result: NOTE
    chooseCN: no visible global function definition for ‘tri2nb’
    chooseCN: no visible global function definition for ‘gabrielneigh’
    chooseCN: no visible global function definition for ‘graph2nb’
    chooseCN: no visible global function definition for ‘relativeneigh’
    chooseCN: no visible global function definition for ‘dnearneigh’
    chooseCN: no visible global function definition for ‘knearneigh’
    chooseCN: no visible global function definition for ‘knn2nb’
    chooseCN: no visible global function definition for ‘nb2listw’
    chooseCN: no visible global function definition for ‘mat2listw’
    plot.spca: no visible global function definition for ‘card’
    spca: no visible global function definition for ‘mat2listw’
    spca: no visible global function definition for ‘nb2listw’
    summary.spca: no visible global function definition for ‘listw2mat’
    summary.spca: no visible binding for global variable ‘lag.listw’
Flavor: r-release-osx-x86_64-mavericks

Version: 1.4-2
Check: Rd cross-references
Result: NOTE
    Package unavailable to check Rd xrefs: ‘spdep’
Flavor: r-release-osx-x86_64-mavericks