search for: clayden

...e found is the mention in the language definition that "assigning attributes to an environment can lead to surprises". I'm not sure if this is one of the surprises that the author(s) had in mind! Could someone tell me whether this is expected, please? All the best, Jon -- Jonathan D Clayden, PhD Lecturer in Neuroimaging and Biophysics Radiology and Physics Unit UCL Institute of Child Health 30 Guilford Street LONDON WC1N 1EH United Kingdom t | +44 (0)20 7905 2708 f | +44 (0)20 7905 2358 w | www.homepages.ucl.ac.uk/~sejjjd2/ w | www.diffusion-mri.org.uk/people/1

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...

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

...c("numeric", "double", "integer", "int", "logical", + "complex", "character", "raw"))) what <- typeof(what) .Internal(readBin(con, what, n, size, signed, swap)) -- Jonathan D. Clayden, Ph.D. Research Fellow Radiology and Physics Unit UCL Institute of Child Health 30 Guilford Street LONDON WC1N 1EH United Kingdom t | +44 (0)20 7905 2708 f | +44 (0)20 7905 2358 w | www.homepages.ucl.ac.uk/~sejjjd2/ w | www.diffusion-mri.org.uk/people/1

...ds [8] base other attached packages: [1] tractor.session_1.0.0 tractor.base_1.0.3 tractor.nt_1.0.2 loaded via a namespace (and not attached): [1] tools_2.8.1 Regards, Jon (1) http://code.google.com/p/tractor/ (2) http://finzi.psych.upenn.edu/R/Rhelp02/archive/61872.html -- Jonathan D. Clayden, Ph.D. Research Fellow Radiology and Physics Unit UCL Institute of Child Health 30 Guilford Street LONDON WC1N 1EH United Kingdom t | +44 (0)20 7905 2708 f | +44 (0)20 7905 2358 w | www.homepages.ucl.ac.uk/~sejjjd2/

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 <-

...wonder if there is any way to achieve an interactive session based on a predefined set of commands without writing a completely new front-end (overkill, surely?). Any guidance would be appreciated. Regards, Jon [1] http://finzi.psych.upenn.edu/R/Rhelp02a/archive/117412.html -- Jonathan D. Clayden, Ph.D. Research Fellow Radiology and Physics Unit UCL Institute of Child Health 30 Guilford Street LONDON WC1N 1EH United Kingdom t | +44 (0)20 7905 2708 f | +44 (0)20 7905 2358 w | www.homepages.ucl.ac.uk/~sejjjd2/

...;Foo"), methods=list( + initialize=function (foo=nilObject) { initFields(foo=foo) })) > is.nilObject(Bar$new()$foo) [1] TRUE Is there already something like this that I'm not aware of? If not, would it be possible and generally desirable to create it? All the best, Jon -- Jonathan D Clayden, PhD Lecturer in Neuroimaging and Biophysics Imaging and Biophysics Unit UCL Institute of Child Health 30 Guilford Street LONDON WC1N 1EH United Kingdom

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, and the result is not `TRUE`. Regards, Jon On 28 July 2015 at 11:58, Jon Clayden <jon.clayden at gmail.com> wrote: > 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 s...

...;. This mirror does not modify the content of the manuals at all, but simply injects a new visual style with the aim of making the text easier to read and navigate. It will be updated after each release of R. The code used to generate these versions is freely available at <https://github.com/jonclayden/r-manuals>. I hope some people find this useful. Comments are welcome. All the best, Jon

...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 testing my packages, which is available through the URL <https://github.com/jonclayden/tractor/blob/master/tests/data/nifti/maskedb0_lia.nii.gz?raw=true>: > con <- gzfile("~/Downloads/maskedb0_lia.nii.gz","rb") > seek(con, 352) [1] 0 Warning message: In seek.connection(con, 352) : seek on a gzfile connection returned an internal error > seek(con,...

Dear all, I'm trying to write an efficient binary file reader for a file type that is made up of several fields of variable length, and so requires many small reads. Doing this on the file directly using a sequence of readBin() calls is a bit too slow for my needs, so I tried buffering the file into a raw vector and reading from that ("loc" is the equivalent of the file pointer):

Dear all, I'm trying to write an efficient binary file reader for a file type that is made up of several fields of variable length, and so requires many small reads. Doing this on the file directly using a sequence of readBin() calls is a bit too slow for my needs, so I tried buffering the file into a raw vector and reading from that ("loc" is the equivalent of the file pointer):

Dear all, I am trying to wrap a *nix shell script around R for a particular purpose, for which I need to get R to execute predetermined commands but retain interactivity and allow user input during their execution. A straight redirection of standard input is therefore not appropriate, and I don't think "littler" is the solution because I don't want to write an

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, The current version of my RNiftyReg package is failing to compile on CRAN's Solaris testbed, but I don't have access to a Solaris system to debug on, and Googling the error hasn't been very helpful. The error is CC -library=stlport4 -I/home/ripley/R/cc/include -DNDEBUG -DNDEBUG -DRNIFTYREG -I/usr/local/include -KPIC -O -xlibmil -xtarget=native -nofstore -c niftyreg.cpp

Dear all, I see from some previous threads that support for 64-bit integers in R may be an aim for future versions, but in the meantime I'm wondering whether it is possible to read in integers of greater than 32 bits at all. Judging from ?readBin, it should be possible to read 8-byte integers to some degree, but it is clearly limited in practice by R's internally 32-bit integer type:

.... The package is written in pure R. This package stands alone, but it is also part of the larger TractoR project for working with MR images and diffusion MR based tractography. Further information about TractoR can be found at <http://code.google.com/p/tractor>. Regards, Jon -- Jonathan D. Clayden, Ph.D. Research Fellow Radiology and Physics Unit UCL Institute of Child Health 30 Guilford Street LONDON WC1N 1EH United Kingdom t | +44 (0)20 7905 2708 f | +44 (0)20 7905 2358 w | www.homepages.ucl.ac.uk/~sejjjd2/ _______________________________________________ R-packages mailing list R-packag...

.... The package is written in pure R. This package stands alone, but it is also part of the larger TractoR project for working with MR images and diffusion MR based tractography. Further information about TractoR can be found at <http://code.google.com/p/tractor>. Regards, Jon -- Jonathan D. Clayden, Ph.D. Research Fellow Radiology and Physics Unit UCL Institute of Child Health 30 Guilford Street LONDON WC1N 1EH United Kingdom t | +44 (0)20 7905 2708 f | +44 (0)20 7905 2358 w | www.homepages.ucl.ac.uk/~sejjjd2/ _______________________________________________ R-packages mailing list R-packag...

Dear all, If I load a package which creates reference classes whilst another such package is also loaded, I get a warning about masking of the ".requireCachedGenerics" variable. (FWIW, both packages are lazy-loaded.) Googling this variable name turned up only one previous discussion, which didn't immediately help, except to suggest that it may be related to my defining an S3 method