CRAN Package Check Results for Package HDMD

Last updated on 2014-04-25 05:47:17.

Flavor Version Tinstall Tcheck Ttotal Status Flags
r-devel-linux-x86_64-debian-clang 1.2 0.76 18.17 18.93 OK
r-devel-linux-x86_64-debian-gcc 1.2 0.80 18.09 18.89 OK
r-devel-linux-x86_64-fedora-clang 1.2 36.52 NOTE
r-devel-linux-x86_64-fedora-gcc 1.2 35.74 NOTE
r-devel-osx-x86_64-clang 1.2 36.78 OK
r-devel-osx-x86_64-gcc 1.2 OK
r-devel-windows-ix86+x86_64 1.2 3.00 26.00 29.00 OK
r-patched-linux-x86_64 1.2 0.74 17.97 18.72 OK
r-patched-solaris-sparc 1.2 202.30 OK
r-patched-solaris-x86 1.2 48.30 OK
r-release-linux-ix86 1.2 1.00 33.00 34.00 OK
r-release-linux-x86_64 1.2 0.77 18.23 19.00 OK
r-release-osx-x86_64-mavericks 1.2 WARN
r-release-osx-x86_64-snowleopard 1.2 OK
r-release-windows-ix86+x86_64 1.2 3.00 28.00 31.00 OK
r-oldrel-windows-ix86+x86_64 1.2 3.00 31.00 34.00 OK

Check Details

Version: 1.2
Check: Rd line widths
Result: NOTE
    Rd file 'AminoAcids.Rd':
     \examples lines wider than 100 characters:
     Factor54 = factor.pa.ginv(AA54, nfactors = 5, m=3, prerotate=TRUE, rotate="Promax", scores="regression")
     Factor3d =scatterplot3d(Factor54$scores[,1:3], pch = AminoAcids, main="Factor Scores", box = FALSE, grid=FALSE, xlab="pah", ylab="pss ... [TRUNCATED]
     legend(x=5, y=4.5, legend=c("hydrophobic", "polar", "small"), col=c("blue", "green", "orange"), pch=21, box.lty =0)
    
    Rd file 'FactorTransform.Rd':
     \usage lines wider than 90 characters:
     FactorTransform(Source, Search = AminoAcids, Replace = AAMetric.Atchley, Factor = 1, bycol = TRUE, SeqName = NULL, alignment=FALSE, fi ... [TRUNCATED]
    
    Rd file 'HDMD-package.Rd':
     \examples lines wider than 100 characters:
     Factor54 = factor.pa.ginv(AA54, nfactors = 5, m=3, prerotate=TRUE, rotate="Promax", scores="regression")
     plot(-1*AA54_lda_RawMetric1Centered[,1], -1*AA54_lda_RawMetric1Centered[,2], pch = grouping, xlab="Canonical Variate 1", ylab="Canonica ... [TRUNCATED]
    
    Rd file 'NMI.Rd':
     \usage lines wider than 90 characters:
     NMI(Hx, Hy, Hxy, type = c("NULL", "marginal", "joint", "min.marginal", "max.marginal", "min.conditional", "max.conditional"))
    
    Rd file 'factor.pa.ginv.Rd':
     \usage lines wider than 90 characters:
     factor.pa.ginv(r, nfactors = 1, residuals = FALSE, prerotate = FALSE, rotate = "varimax", m = 4, n.obs = NA, scores = c("none", "regres ... [TRUNCATED]
     \examples lines wider than 100 characters:
     Factor54 = factor.pa.ginv(AA54, nfactors = 5, m=3, prerotate=TRUE, rotate="Promax", scores="regression")
     Factor3d =scatterplot3d(Factor54$scores[,1:3], pch = AminoAcids, main="Factor Scores", box = FALSE, grid=FALSE, xlab="pah", ylab="pss ... [TRUNCATED]
     legend(x=5, y=4.5, legend=c("hydrophobic", "polar", "small"), col=c("blue", "green", "orange"), pch=21, box.lty =0)
    
    These lines will be truncated in the PDF manual.
Flavors: r-devel-linux-x86_64-fedora-clang, r-devel-linux-x86_64-fedora-gcc

Version: 1.2
Check: PDF version of manual
Result: WARNING
    LaTeX errors when creating PDF version.
    This typically indicates Rd problems.
    LaTeX errors found:
    ! LaTeX Error: File `upquote.sty' not found.
    
    Type X to quit or <RETURN> to proceed,
    or enter new name. (Default extension: sty)
    
    f342391/Rd2.tex:8: ==> Fatal error occurred, no output PDF file produced!
Flavor: r-release-osx-x86_64-mavericks