similar to: Sort output of apropos

Hello all, I've had the following apropos alternative in my ~/.Rprofile for some time, and have found it more useful than the current version. Basically, my version ignores case when searching. If others find this useful, perhaps apropos could be suitably patched (and I'd be willing to create such a patch). + seth Here is my version of apropos: APROPOS <- function (what, where =

Hi all, One of the things I find most problematic in R is the partial matching of names in lists. Robert and I have discussed this and we believe that having a mechanism that does not do partial matching would be of significant benefit to R programmers. To that end, I have written a patch that modifies the behavior of "[[" as follows: 1. [[ gains an 'exact' argument with

promptClass fails to identify methods associated with the class. Here is a fix: Index: promptClass.R =================================================================== --- promptClass.R (revision 41719) +++ promptClass.R (working copy) @@ -165,7 +165,7 @@ if (nmeths > 0) { .meths.body <- " \\describe{" for (i in 1:nmeths) { - .sigmat

Hi, Using latest R 2.5.0 Patched, I'm unable to install the Matrix package from cran.fhcrc.org. I get: Creating a new generic function for "isSymmetric" in "Matrix" Creating a new generic function for "unname" in "Matrix" Error in conformMethod(signature, mnames, fnames, f) : In method for function "!": formal arguments omitted in

Hi, On Windows, package files in the inst/ subdir are installed after the lazyload creation. This differs from Linux where inst/ is installed _before_ lazyload creation. Since packages may need data in inst, I think the order on Windows should be changed. Perhaps like this: diff --git a/src/gnuwin32/MakePkg b/src/gnuwin32/MakePkg index 57af321..868e8f1 100644 --- a/src/gnuwin32/MakePkg +++

Hi all, The dict package provides a dictionary (hashtable) data structure much like R's built-in environment objects, but with the following differences: - The Dict class can be subclassed. - Four different hashing functions are implemented and the user can specify which to use when creating an instance. I'm sending this here as opposed to R-packages because this package will

I've been experimenting with install.packages and it's new ability to track down dependencies from a list of repositories and encountered this: install.packages(c("foo", "bar"), repos="http://cran.r-project.org", dependencies=c("Depends", "Suggests")) dependencies 'foo' are not availabledependencies 'bar'

Hi all, In some circumstances, as.character applied to a list converts real NA's into the string "NA". Propagation of NAs is something R does very well and unless there are good reasons for losing the NA, it would improve the consistency w.r.t. NA handling for as.character to behave differently. Here's an example: ## Create a list with character, logical, and integer NA

Hi, I would be nice if names() returned the equivalent of ls() for environments. --- a/src/main/attrib.c +++ b/src/main/attrib.c @@ -687,6 +687,8 @@ SEXP attribute_hidden do_names(SEXP call s = CAR(args); if (isVector(s) || isList(s) || isLanguage(s)) return getAttrib(s, R_NamesSymbol); + if (isEnvironment(s)) + return R_lsInternal(s, 0); return R_NilValue; }

Dear developers, has anyone experienced the problem described below? Is it a bug in handling interrupts in R? Best, Oleg -------- Original Message -------- Subject: Re: [BioC] 'recursive default argument' error in GOENTREZID2GO From: Diego Diez <diez at kuicr.kyoto-u.ac.jp> ...steps that use to reach me to that point. It happens with any environment, or at least annotation

Hello, I wonder if this will make it through the spam filters given the subject line. I'm seeing the following when trying to call a dollar method inside of a dollar method. setClass("Foo", representation(d="list")) [1] "Foo" f <- new("Foo", d=list(bob=1, alice=2)) ## We can call dollar at this level and it works as expected

Hello all, An S4 class that contains matrix can be converted into a matrix using as(). When the resulting object is printed implicitly at the command line, all is well. When print() is explicitly called, I see an infinite recursion. Here is an example: ## create a subclass of matrix > setClass("Foo", representation(name="character"), contains="matrix")

I'm looking for ideas for creating high-quality plots for use in projected presentations (powerpoint, etc) --- ideally high-quality png, jpg, bmp. The graphics produced using the postscript device look very good. Those generated with win.graph(), png are plagued by the jaggy lines. So far, the only way I can use the postscript plots in my presentations is using separate screen capture

Hi all, If dimensions are added to a list, it will become a matrix-like hybrid that calls itself a matrix, but returns lists for subset operations. This was brought to my attention by a user that encountered such an object and was quite confused by its behavior. Although I have not found the code that created the object yet, I believe that code is simply incorrect. Nevertheless, I wonder if

I'm trying to follow the example in the R for Windows FAQ on running gdb and am getting stuck because gdb tells me "Cannot access memory at address ...". Here's what my gdb session looks like (This one from a cygwin shell, but same results from plain Windows CMD shell): $ cd R-devel/src/gnuwin32 $ gdb ../../bin/Rgui.exe GNU gdb 5.2.1 Copyright 2002 Free Software Foundation,

Hello, The vignette concept, which started in Bioconductor, seems to be catching on. They are supported by R CMD build/check and documented in the Writing R Extensions manual. I think vignettes are a fantastic way to introduce new users to a package. However, getting new users to realize that a vignette is available can be challenging. For some time now, we have had a function in Biobase that

Hi all, I'm seeing an error on Windows when I try to install a package to a package library path that starts with a digit. I can reproduce the error as follows using R-devel from Feb 24 on Windows advanced server: badLib = "c:\\badExample\\2\\foo" dir.create(badLib, recursive=TRUE) z = .libPaths() z = .libPaths(c(badLib, z)) z [1] "c:\\badExample\\2\\foo"

Hi, namespaceImportFrom in base/R/namespace.R has the following: fdef <- methods:::getGeneric(genName, impenv) The definition of getGeneric is in methods/R/RMethodUtils.R starts with: getGeneric <- ## return the definition of the function named f as a generic. ## ## If there is no definition, throws an error or returns ## NULL according to the value of

Hi, I'm hoping to get some clarification of the intent of some of directives used in NAMESPACE files. 1. Is import(somePkg) also intended to import all classes and methods that are exported via exportClasses and exportMethods in somePkg? I think import pulls in classes and methods, but it isn't clear from the docs whether this is as intended. 2. What is exportMethods intended

Hi, First a bit of disclaimer... I haven't isolated this problem into an easy to reproduce case, and I won't be surprised if the root cause is a fault in my code's use of name spaces or some such. The error I'm seeing is one in which the desired method is not found. What worries me in terms of my expectations of how to debug the problem is that showMethods and selectMethod both