* using log directory 'd:/Rcompile/CRANpkg/local/2.9/PHYLOGR.Rcheck' * using R version 2.9.2 (2009-08-24) * using session charset: ISO8859-1 * checking for file 'PHYLOGR/DESCRIPTION' ... OK * this is package 'PHYLOGR' version '1.0.6' * checking package dependencies ... OK * checking if this is a source package ... OK * checking whether package 'PHYLOGR' can be installed ... WARNING Found the following significant warnings: Warning: unmatched right brace in file 'Lacertid.IC.Rd' on line 22 Warning: unmatched right brace in file 'Lacertid.IC.Rd' on line 22 Warning: unmatched right brace in file 'Lacertid.Original.Rd' on line 28 Warning: unmatched right brace in file 'Lacertid.Original.Rd' on line 28 Warning: unmatched right brace in file 'Lacertid.varcov.Rd' on line 20 Warning: unmatched right brace in file 'Lacertid.varcov.Rd' on line 20 Warning: unmatched right brace in file 'SimulExample.Rd' on line 10 Warning: unmatched right brace in file 'SimulExample.Rd' on line 34 Warning: unmatched right brace in file 'SimulExample.Rd' on line 10 Warning: unmatched right brace in file 'SimulExample.Rd' on line 34 Warning: invalid whitespace before brace in file 'print.summary.phylog.Rd' at '\item{x} { an object of the appropriate class.}' Warning: invalid whitespace before brace in file 'print.summary.phylog.Rd' at '\item{x} { an object of the appropriate class.}' Warning: invalid whitespace before brace in file 'summary.phylog.cancor.Rd' at ' \item{original.LR.statistic} {the likelihood ratio statistic for the test that all canonical correlations are zero}' Warning: invalid whitespace before brace in file 'summary.phylog.cancor.Rd' at ' \item{p.value.overall.test} {the p-value for the test that all canonical correlations are zero}' Warning: invalid whitespace before brace in file 'summary.phylog.cancor.Rd' at ' \item{original.LR.statistic} {the likelihood ratio statistic for the test that all canonical correlations are zero}' Warning: invalid whitespace before brace in file 'summary.phylog.cancor.Rd' at ' \item{p.value.overall.test} {the p-value for the test that all canonical correlations are zero}' See 'd:/Rcompile/CRANpkg/local/2.9/PHYLOGR.Rcheck/00install.out' for details. * checking package directory ... OK * checking for portable file names ... OK * checking DESCRIPTION meta-information ... OK * checking top-level files ... OK * checking index information ... OK * checking package subdirectories ... OK * checking R files for non-ASCII characters ... OK * checking R files for syntax errors ... OK * checking whether the package can be loaded ... OK * checking whether the package can be loaded with stated dependencies ... OK * checking for unstated dependencies in R code ... OK * checking S3 generic/method consistency ... OK * checking replacement functions ... OK * checking foreign function calls ... OK * checking R code for possible problems ... NOTE lm.phylog: no visible binding for global variable 'sim.counter' * checking Rd files ... OK * checking Rd files against version 2 parser ... WARNING *** error on file ./man/Lacertid.IC.Rd Error in parse_Rd("./man/Lacertid.IC.Rd", encoding = "unknown") : ./man/Lacertid.IC.Rd:22:1: unexpected '}' 21: comparative study. \emph{The American Naturalist}, \bold{149}, 91-11} 22: } ^ *** error on file ./man/Lacertid.Original.Rd Error in parse_Rd("./man/Lacertid.Original.Rd", encoding = "unknown") : ./man/Lacertid.Original.Rd:28:1: unexpected '}' 27: comparative study. \emph{The American Naturalist}, \bold{149}, 91-11} 28: } ^ *** error on file ./man/Lacertid.varcov.Rd Error in parse_Rd("./man/Lacertid.varcov.Rd", encoding = "unknown") : ./man/Lacertid.varcov.Rd:20:1: unexpected '}' 19: comparative study. \emph{The American Naturalist}, \bold{149}, 91-11} 20: } ^ *** error on file ./man/SimulExample.Rd Error in parse_Rd("./man/SimulExample.Rd", encoding = "unknown") : ./man/SimulExample.Rd:10:1: unexpected '}' 9: nothing to do with lacertids (or, for that matter, with any other creatures).} 10: } ^ Warning in parse_Rd("./man/print.summary.phylog.Rd", encoding = "unknown") : bad markup (extra space?) at print.summary.phylog.Rd:19:11 Warning: ./man/print.summary.phylog.Rd:19: Unnecessary braces at '{ an object of the appropriate class.}' Warning in parse_Rd("./man/summary.phylog.cancor.Rd", encoding = "unknown") : bad markup (extra space?) at summary.phylog.cancor.Rd:58:31 Warning in parse_Rd("./man/summary.phylog.cancor.Rd", encoding = "unknown") : bad markup (extra space?) at summary.phylog.cancor.Rd:62:30 Warning: ./man/summary.phylog.cancor.Rd:58-59: Unnecessary braces at '{the likelihood ratio statistic for the test that all canonical correlations are zero}' Warning: ./man/summary.phylog.cancor.Rd:62-63: Unnecessary braces at '{the p-value for the test that all canonical correlations are zero}' problems found in 'Lacertid.IC.Rd', 'Lacertid.Original.Rd', 'Lacertid.varcov.Rd', 'SimulExample.Rd' * checking Rd cross-references ... OK * checking for missing documentation entries ... OK * checking for code/documentation mismatches ... OK * checking Rd \usage sections ... OK * checking data for non-ASCII characters ... OK * checking examples ... OK * checking PDF version of manual ... OK