similar to: Capturing all warnings (with messages)

Dear all, The version of readBin() in R-devel includes a use of match(), through `%in%`, which can affect its performance significantly. By using primitives instead of the rather expensive call to match(), I reduce the time spent inside readBin() by more than 30% in some of my code (part of the tractor.base package). A simple patch that does this is given below. This passes "make

Dear all, In R-devel (2011-09-23 r57050), I'm running into a serious problem with seek()ing on connections opened with gzfile(). A warning is generated and the file position does not seek to the requested location. It doesn't seem to occur all the time - I tried to create a small example file to illustrate it, but the problem didn't occur. However, it can be seen with a file I use for

Dear all, Is there a way to force R CMD INSTALL to ignore ~/.Rprofile and similar? I presume it sources these startup files for a reason, but I've found that it can cause confusion or problems. In particular, my ~/.Rprofile loads a few packages which I very frequently use, but this stops me from installing new versions of their dependencies; viz. $ R CMD INSTALL tractor.base * installing to

Dear all, I have a simple front-end program which uses the APIs described in section 8 of "Writing R Extensions" to deviate from the standard R behaviour in fairly minor ways. However, I'm having some difficulty getting it to link reliably across different platforms. R CMD LINK seemed like it would help, but I've had difficulty finding many real-world examples online. I've

Dear all, There have been some recent major updates to the TractoR and RNiftyReg packages, which are available for medical image analysis applications. If you use R for these purposes, I hope you will find the updates useful. RNiftyReg is an image registration package, which provides a clean R-like interface to the NiftyReg library developed at University College London [1]. It is aimed at

Dear all, There have been some recent major updates to the TractoR and RNiftyReg packages, which are available for medical image analysis applications. If you use R for these purposes, I hope you will find the updates useful. RNiftyReg is an image registration package, which provides a clean R-like interface to the NiftyReg library developed at University College London [1]. It is aimed at

Dear all, The "tractor.base" package has recently been added to CRAN. This package provides functions to read, write, visualise and manipulate magnetic resonance images. The standard Analyze, NIfTI and DICOM file formats are supported (read-only for DICOM), and all metadata is stored with the image data internally. The code can be used to visualise image slices or maximum intensity

Dear all, The "tractor.base" package has recently been added to CRAN. This package provides functions to read, write, visualise and manipulate magnetic resonance images. The standard Analyze, NIfTI and DICOM file formats are supported (read-only for DICOM), and all metadata is stored with the image data internally. The code can be used to visualise image slices or maximum intensity

The suppressMessages and suppressWarnings functions currently suppress all the message or warnings that are generated by the input expression. The ability to suppress only specific messages or warnings is sometimes useful, particularly for cases like file import where there are lots of things that can go wrong. Suppressing only messages that match a regular expression has rightly been rejected

Dear all, As of the current R alpha release, I'm seeing timezone-related warnings on installing any package (including the recommended ones), which I haven't seen before. For example, [~/Documents/Source/R-alpha]$ bin/R CMD INSTALL ~/git/tractor/lib/reportr * installing to library '/Users/jon/Documents/Source/R-alpha/library' * installing *source* package 'reportr' ...

Dear all, I have asked before, in R-help [1], about a way to create an interactive session in which commands are taken from a file or standard input - like R CMD BATCH but additionally allowing user input - but there was no response to that question, and the workarounds that I have found (using "expect", creating a temporary .Rprofile) are ugly and problematic. With the

Dear all, I am trying to create an environment object with additional attributes, viz. Foo <- structure(new.env(), name="Foo") Doing this in a standard session works fine: I get the environment with attr(,"name") set as expected. But if the same code appears inside a package source file, I get just the plain environment with no attributes set. Using a non-environment

Dear John and others, I've been wondering about whether there's any way to indicate a "nil" reference class object, which will represent "no value", and be tested for, but not fail the internal type checking. NULL is the obvious choice (or seems so to me), but can only be used if an explicit class union is created: > Foo <- setRefClass("Foo") > Bar

I am using a variant of stopifnot a lot. can I suggest that base R extends its functionality? I know how to do this for myself. this is a suggestion for beginners and students. I don't think it would break anything. first, I think it would be more useful if it had an optional character string, so users could write stopifnot( is.matrix(m), "m is not a matrix" ) this would

Thanks Luke, On 10 September 2015 at 14:47, <luke-tierney at uiowa.edu> wrote: > Conditions have classes and the condition system is designed around > the idea that classes would be used for this sort of thing. That is > already how tryCatch and withCallingHandlers discriminate the > conditions to handle. That makes sense. Though with my sqrt example, it's just a plain

Dear all, The documentation for `all.equal.numeric` says Numerical comparisons for ?scale = NULL? (the default) are done by first computing the mean absolute difference of the two numerical vectors. If this is smaller than ?tolerance? or not finite, absolute differences are used, otherwise relative differences scaled by the mean absolute difference. But the actual behaviour

Hi, A piece of my code that uses readBin() to read a certain file type is behaving strangely with R 2.7.0. This seems to be because of a failure to match() strings after using rawToChar() when the original was terminated with a "\0" character. Direct equality testing with == still works as expected. I can reproduce this as follows: > x <- "foo" > y <-

Dear Jon, thank you for raising the issue, >>>>> Jon Clayden <jon.clayden at gmail.com> >>>>> on Tue, 28 Jul 2015 12:14:48 +0100 writes: > Sorry; minor clarification. The actual test criterion in the example I > gave is of course abs((0.1-0.102)/0.1) < 0.01, not abs(0.1) < 0.01. In > any case, this does not match (my reading of) the docs,

Conditions have classes and the condition system is designed around the idea that classes would be used for this sort of thing. That is already how tryCatch and withCallingHandlers discriminate the conditions to handle. Designing and implementing a condition class hierarchy to support this is indeed the hard/tedious part. Best, luke On Thu, 10 Sep 2015, Richard Cotton wrote: > The

Hello R Users, I am having difficulty deleting the last warning message in a loop so that the only warning that is produced is that from the most recent line of code. I have tried options(warn=1), rm(last.warning), and resetting the last.warning using something like: > warning("Resetting warning message") This problem has been addressed in a previous listserve string,