similar to: bug in codetools/R CMD check?

Hi all, I'm running into an error when using R CMD check on a package I inherited and I'm now trying to clean up. There are known issues with the Rd files (they definitely need to get updated) resulting in a couple of warnings, but the error occurs before check reaches the Rd files. Below is a snippet of my check.log: * using log directory 'F:/RForgePackages/pkg.Rcheck' * using R

Sorry for reposting, i keep forgetting this should be plain text. Will not make this mistake again Hello, The following code moo <- function(a=1){ x=1; x=x+y} funs <- new.env() enter <- function(type, v, e, w){ assign(v, TRUE, funs) } library(codetools) collectUsage(moo, enterGlobal = enter) adds + to the environment funs i.e. funs: "=" "{" "+"

After upgrading to R 2.5.1 on Debian, R CMD check gives * checking Rd cross-references ... WARNING Error in .find.package(package, lib.loc) : there is no package called 'codetools' Execution halted * checking for missing documentation entries ... WARNING etc The NEWS file says (for 2.5.0; I was on 2.4 before the recent upgrade) o New recommended package 'codetools' by Luke

I've put together a package codetools with some tools for examining R source code. It is available at http://www.stat.uiowa.edu/~luke/R/codetools/codetools.tar.gz It requires a reasonably current version of R-devel. The main user functions are: checkUsage, checkUsageEnv, checkUsagePackage: Examine closure, closures in an environment, closures in a package, and report

FYI. There is a Thai vignette - and it went a lot further doing some Thai text processing in R, than the earlier Chinese/Tibetan/LiangshanYi/Arabic vignette, which was in reality just Chinese + Cairo graphics. Managed to cross-compile an R package for Mac OS X from Linux; and it seems to be working. See screenshots below. I'd be interested to know if there are less obvious bugs; however

Dear R-list, Does somebody know how can I read a HUGE data set using R? It is a hapmap data set (txt format) which is around 4GB. After read it, I need to delete some specific rows and columns. I'm running R 2.6.2 patched over XP SP2 using a 2.4 GHz Core 2-Duo processor and 4GB RAM. Any suggestion would be appreciated. Thanks in advance, Jorge [[alternative HTML version deleted]]

Hello, Is this a bug in codetools: > codetools::showTree( body( glm) ) ("{" (<- call (match.call)) (if (is.character family) (<- family (get family "function" (parent.frame)))) (if (is.function family) (<- family(family))) (if (is.null ($ family family)) ("{" (print family) (stop "'family' not recognized"))) (if (missing data)

Dear list members, I frequently program small scripts and wrap them into functions to be able to check them with checkUsage. In case these functions (loaded via source or copy pasted to the R console) use functions from other packages, I get this error: no visible global function definition for ?xxxxxxx? For example: test = function() { require(plotrix) color.legend() }

Dear R Users, Using codetools I obtained the text representation of the parse tree for this snippet z=quote({x[1]<-2}) showTree(z) > ("{" (<- ([ x 1) 2)) (A) If I understand correctly, x[1]<-2 ought to be "[<-"(x,1,2), so shouldn't i see ("{" ( [<- x 1 2 ) ) If indeed the parse tree in (A) is correct, the operation ([ x 1) returns the

Hi the list Is there any tutorial to learn codetools ? It seems to be a very interesting pacakge, but the help gives not that much detail, and there is not that much examples provided... Christophe

In a package, I define a method for not-yet-generic function 'qr.X' like so: > setOldClass("qr") > setMethod("qr.X", signature(qr = "qr"), function(qr, complete, ncol) NULL) The formals of the newly generic 'qr.X' are inherited from the non-generic function in the base namespace. Notably, the inherited default value of formal

Hello all, I''m new to prototype and javascript isn''t my strong point. I''m trying to get a simple test script to work, which is turning out to be a little harder than I thought. I have a bunch of fields that I need to be able to switch on and off using one of a few hashes. In the example below I''m trying to get one to work. The problem occurs when I try to

This is just a note/wishlist/for the record: With foo1 <- function() { res; } foo2 <- function() { for (i in c()) res <- 1; res; } foo3 <- function() { while (FALSE) res <- 1; res; } foo4 <- function() { if (FALSE) res <- 1; res; } we get: > foo1() Error in foo1() : object 'res' not found > foo2() Error in foo2() : object 'res' not

Hi, I'm trying to make a chromosomal map in R by using the locus. I have a list of genes and their locus, and I want to visualise that so you can see if there are multiple genes on a specific place on a chromosome. A example of what I more or less want is below: http://www.nabble.com/file/p21474206/untitled.JPG untitled.JPG The genes and locus are here:

Thanks for the report.? According to my reading, this use of "mv" is ok and the renameat2() call which the invocation of "mv" leads to is also ok and allowed by POSIX in this context. It could only fail with EEXIST if the target directory (path/pkg) was not empty. So far I've not been able to reproduce but we could fall back to copy like on Windows. Best Tomas On

On 5/7/19 6:18 PM, Henrik Bengtsson wrote: > On Tue, May 7, 2019 at 9:05 AM Tomas Kalibera <tomas.kalibera at gmail.com> wrote: >> Thanks for the report. According to my reading, this use of "mv" is ok >> and the renameat2() call which the invocation of "mv" leads to is also >> ok and allowed by POSIX in this context. It could only fail with EEXIST

Hi, I've been toying with the idea of using the Linux machine as a print server. I'm using RedHat 5.2 and Samba 2.0.3. I already have one remote printer share working... but I can't figure out where the PrintTool in RedHat is storing the remote printers IP address. Anyone know where? :) (not important just bugging me - I hate when OS's hide stuff) I have the Samba book

I just uploaded R 2.5.0 to Debian's unstable distribution. As Peter's announcement says, it now contains two new packages'rcompgen' and 'codetools'. About two or three weeks ago, I also packaged these, just like other 'recommended' packages as r-cran-rcompgen and r-cran-codetools. However, as "new" packages, they are still in the NEW queue awaiting

On 4/9/16 10:54 AM, Dirk Eddelbuettel wrote: > On 9 April 2016 at 10:28, Mick Jordan wrote: > | Can someone explain a message of this form from an rscript execution: > | > | Note: no visible global function definition for 'foo' > | > | > | This happens right at the start of execution. 'foo' is only executed in > | a branch of an 'if' that is not

On Tue, May 7, 2019 at 9:05 AM Tomas Kalibera <tomas.kalibera at gmail.com> wrote: > > Thanks for the report. According to my reading, this use of "mv" is ok > and the renameat2() call which the invocation of "mv" leads to is also > ok and allowed by POSIX in this context. It could only fail with EEXIST > if the target directory (path/pkg) was not empty.