Try R --vanilla to see if it's a profile problem. Hadley On Friday, November 11, 2011, Bryan Hanson <[email protected]> wrote: > [a variation of this was posted on r-help the other day with no answers] > > I've done something to my installation and can't find the cause. This started up a few days ago, it could be related to the problem that Simon was working on in the past 48, but I increasingly think not. > > My current install is totally fresh this morning off of r.research.att.comand > the problem persists. Here's a couple of examples: > > Example 1: >> ?sd > Error in help("sd", package = NULL) : > could not find function "%is.not.a%" > > Example 2 (from r-help posting): > > I have 3 packages that I authored and they build and check just fine locally. However, when I try to install the local source packages (from the .tar.gz), I get the following message: > > Error in `+.POSIXt`(as.POSIXct(origin, tz = tz, ...), x) : > could not find function "%is.a%" > In addition: Warning message: > In install.packages(file.choose(), .libPaths()[1], NULL, type = "source") : > installation of package /Users/bryanhanson/Documents/Research/MetabolomicsProjects/ChemometricsStuff/BAHpackages/FuncMap_1.0-1.tar.gz had non-zero exit status > > Now this is pretty surprising to me; I don't use this function or any having to do with times or time series. I get the same message no matter which of the 3 packages I try to install locally. Further, if I go looking for whatever this function is, the following occurs, and no browser window opens: > >> findFn("is.a") > found 3 matches > Error in stopifnot(x %is.a% "POSIXct") : could not find function "%is.a%" > > Which is the same error as one gets just asking for help (Example 1), so I think that error is superceding any display of help pages. > > And a google search of the error message doesn't produce anything recent. > > Does anyone recognize this problem/error? I've thrown out and re-installed several times and it persists. I feel like it might be in a hidden file (I have not yet tried to remove all existing .Rhistory files). I also had a development version of ggplot2 installed a few days ago, in an attempt to fix a different problem. My current sessionInfo() is below. > > Thanks for any suggestions about where to look. Bryan > *********** > Bryan Hanson > Professor of Chemistry & Biochemistry > DePauw University > >> sessionInfo() > R version 2.14.0 Patched (2011-11-09 r57624) > Platform: x86_64-apple-darwin9.8.0/x86_64 (64-bit) > > locale: > [1] en_US.UTF-8/en_US.UTF-8/en_US.UTF-8/C/en_US.UTF-8/en_US.UTF-8 > > attached base packages: > [1] graphics utils datasets grid grDevices stats methods base > > other attached packages: > [1] HiveR_0.2-1 FuncMap_1.0-1 ChemoSpec_1.48-4 ggExtra_0.5.1 gridExtra_0.8.5 > [6] GGally_0.3.1 stringr_0.5 ggplot2_0.8.9 proto_0.3-9.2 reshape_0.8.4 > [11] plyr_1.6 sos_1.3-1 brew_1.0-6 xtable_1.6-0 rgl_0.92.798 > > loaded via a namespace (and not attached): > [1] amap_0.8-7 bipartite_1.17 chemometrics_1.3.7 class_7.3-3 > [5] e1071_1.6 igraph_0.5.5-3 lattice_0.20-0 MASS_7.3-16 > [9] mclust_3.4.10 mvbutils_2.5.101 mvoutlier_1.9.4 mvtnorm_0.9-9991 > [13] nnet_7.3-1 pcaPP_1.9-44 pls_2.2-0 R.oo_1.8.3 > [17] R.utils_1.9.3 RColorBrewer_1.0-5 RFOC_2.0-02 robustbase_0.7-8 > [21] rpart_3.1-50 seriation_1.0-6 sna_2.2-0 som_0.3-5 > [25] splines_2.14.0 survival_2.36-10 tnet_3.0.5 tools_2.14.0 > [29] TSP_1.0-5 vegan_2.0-1 > > _______________________________________________ > R-SIG-Mac mailing list > [email protected] > https://stat.ethz.ch/mailman/listinfo/r-sig-mac >
-- Assistant Professor / Dobelman Family Junior Chair Department of Statistics / Rice University http://had.co.nz/ [[alternative HTML version deleted]]
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