similar to: diagnosing a CMD check failure

this is from a fresh svn checkout: [stvjc at stvjc1 R-devel]$ ls -tl Makefile -rw-rw-r-- 1 stvjc stvjc 12833 Jun 26 07:24 Makefile [stvjc at stvjc1 R-devel]$ svn up At revision 45988. [stvjc at stvjc1 R-devel]$ bin/R R version 2.8.0 Under development (unstable) (--) Copyright (C) The R Foundation for Statistical Computing ISBN 3-900051-07-0 .. > sessionInfo() R version 2.8.0 Under

this is not a problem with R but a request for related advice. i am trying to run a lengthy batch job from my home. the OS is ... Linux jedi.bwh.harvard.edu 2.4.22-openmosix1smp #1 SMP Fri Sep 5 01:05:37 CEST 2003 i686 athlon i386 GNU/Linux i start the job and put it in the background. while i am connected, all is well. eventually my ISP shuts down the connection if i do not do any input.

How can R users take advantage of the "active PDF" paradigm for annotation of statistical graphics? The basic objective is to take a small number of locations on a graph and hyperlink them -- add persistent information to the pdf rendering of the graph so that when the user clicks on the location, a browser is (started if necessary and) pointed to a URL specified by the persistent

Hi, in help("R_GSCMD") it says "R_GSCMD: Optional. The path to Ghostscript, used by dev2bitmap, bitmap and embedFonts. Consulted when those functions are invoked.". However, if 'R_GSCMD' contains a full pathname to the Ghostscript executable (as above "path" indicates), e.g. > Sys.getenv("R_GSCMD") [1] "C:\\Program

This is a bug/misfeature report for R CMD check. The function tools:::.check_packages_used_in_tests Gives an apparently unintended error when checking the tests in the contributed package rcdd_1.1-3.tar.gz as found on CRAN. See the script below for details. The actual error reported is totally mysterious. * checking for unstated dependencies in tests ... NOTE Error in

In the recent R-devel version, I receive the following error: * checking whether the package can be loaded with stated dependencies ... WARNING Error in doTryCatch(return(expr), name, parentenv, handler) : could not find function "packageDescription" Error in library(R.oo) : .First.lib failed for 'R.oo' Execution halted It looks like this package (or one of its dependent

i do not have access to the solaris machine on which this error is occuring, the info is coming to me via email. any advice on how to get R 1.6.1 built in the face of configure:12951: error: cannot compute sizeof (int), 77 would be appreciated. here are some snippets from the config.log $ ./configure ## --------- ## ## Platform. ## ## --------- ## hostname = opus uname -m = sun4u uname

R gurus: I'm trying to get another round of rconifers out and I need some advice/help crushing differences in the examples test. I'm trying to make sure the max sdi values are being respected. I've added a tests/rconifers-Ex.Rout.save (from windows i386-pc-mingw32) and when I ran R CMD check (both R-2.13.0), I got the following results: * using log directory

Full_Name: Markus Jantti Version: 1.5.1 OS: GNU/Linux Unstable (Sid) Submission from: (NULL) (193.166.59.44) I was trying to get the package yags 3.20 by Vince Carey <stvjc@channing.harvard.edu> to run, but - after successfull installation -- loading the library failed with the message > library(yags) Error in stop(paste("Duplicated slot names: ", paste(slots[duplicated(slo

Hi the list. I got a probleme with R CMD check. I run a package.skeleton on a very simple code (four toy function, no probleme with the R CMD build). But on the R CMD check packClassique, I get : * checking for unstated dependencies in R code ... WARNING Erreur dans .find.package(package, lib.loc) : aucun package nomm? 'packClassique' n'est trouv? Calls: <Anonymous> ->

The name conflicts in Epi and ROC packages (2 'ROC' functions are the problem) cause the following code to work once, but not twice: library(MASS); data(cats); x = cats[,2] y = ifelse(cats[,1]=='F',0,1) library(Epi); ROC(x,y,grid=0)$AUC library(ROC); AUC(rocdemo.sca(y, x, dxrule.sca)) What is the standard way of resolving name conflicts? Ask maintainers to resolve

Hi R-devels, recently, we have seen a new warning by "R CMD check" appearing for the devel-version of our package distrEx available on r-forge, e.g. as *|install.packages("/distrEx/",repos="http://r-forge.r-project.org")|* Here is the warning: %--------------------- [...snip ...] * checking for unstated dependencies in R code ... WARNING .get_S4_methods_list():

I'm trying to R CMD check a package, and I'm getting the 'checking S3 generic/method consistency' warning. I have written a function 'gamma.dist' which is _not_ an S3 method, but happens to collide with the 'gamma' function from the R::base namespace. Is there a way of telling CMD check that the name is intentional and is not meant to be an S3 method? My function

hello, I am using R 2.5.0 under OS X. I am having " sh: line 1: make: command not found" error message when I run " R CMD check " : Any help would be appreciated. R CMD check backtest * checking for working latex ... OK * using log directory '/backtest/trunk/backtest.Rcheck' * using R version 2.5.0 (2007-04-23) * checking for file 'backtest/DESCRIPTION'

Hi, I'm trying to R CMD check a package, however I have hit a snag. There seems to be a problem with the creation of the /html files (the only file that's constructed here is the 00Index.html). I've tested each of the .Rd files independently with R CMD Rdconv, they all happily create html files without complaint. R CMD check <package> gives the no warnings. I'm therefore

Hi there, I was wondering why I get the following error message: * checking package dependencies ... ERROR Packages required but not available: Rmpi when I run 'R CMD check' on a package that _suggests_ Rmpi? Why isn't it OK to not have all the suggested packages installed? Maybe one of the 3 following behaviours would be more appropriate: a) Having the error saying

Hi the list, I build a package. They was a mistake in it, but R CMD check did not find it. Is that normal ? Here is what Kurt gets (which is right, I did this mistake): --- 8< ---------------- * checking for code/documentation mismatches ... WARNING S4 class codoc mismatches from documentation object 'LongData-class': Slots for class 'LongData' Code: id other time traj

can list names attributes be preserved through S4 class containment? seems to be so but only if the containment relationship is direct ... see below. > setClass("c1", contains="list") [1] "c1" > l1 = list(a=1, b=2) > o1 = new("c1", l1) > names(o1) # pleasant surprise [1] "a" "b" > setClass("c2",

Hi guRus, i'm running R-2.15.1 and the R CMD CHECK output appears to have changed substantially, in that instead of pointing me to the offending functions or files, I get lots of 'call sequence' traces as below. I've been using R CMD CHECK for years & never seen anything like this before. This is on a pretty fresh OSX 10.8 Mountain Lion installation, where I installed R from

I have received the following error for my package oro.nifti under "CRAN checks" for r-devel-linux-ix86; i.e., http://www.r-project.org/nosvn/R.check/r-devel-linux-ix86/oro.nifti-00check.html - using R version 2.12.0 Under development (unstable) (2010-06-12 r52259) - using platform: i686-pc-linux-gnu (32-bit) - using session charset: UTF-8 - checking for file