similar to: Rd2dvi pagination of index in pdf manual

Hello everybody I'm am trying to build a pdf out of the Rd files that i wrote for a package, so that I can attach it to my thesis. if i Run Rd2pdf (or Rd2dvi) I get this error massage: Hmm ... looks like a package Converting Rd files to LaTeX . Creating pdf output from LaTeX ... Error in texi2dvi("Rd2.tex", pdf = (out_ext == "pdf"), quiet = FALSE, : Running

Hi, The following command: R CMD Rd2pdf --no-preview --output=./tmp.pdf --title=test genefu-package.Rd run against this file: https://hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/genefu/man/genefu-package.Rd (username: readonly; password: readonly) produces a very verbose error (see below) with R version 2.15.0 alpha (2012-03-07 r58622). The .Rd file has these lines in it: Version: \tab

I've been having problems building vignettes in bioconductor packages with R-devel. Turns out that Rdevel/share/texmf/hyperref.cfg wants Blue and Red predefined, when only blue and red are defined (as of rsync Rdevel, Sept 10th). This is on a Debian unstable system (Sept 9th version). Might not apply to all other tetex systems. Seems to have bitten the bioconductor build system, though.

> On Apr 10, 2016, at 3:11 AM, Murray Efford <murray.efford at otago.ac.nz> wrote: > > Martin - > Thanks, but although hatvalues() is useful for calculating PRESS, I can't find anything directly relevant to my question in the influence help pages. After some burrowing in the literature I'm doubting there is an answer out there (PRESS R^2 is always presented in a fairly

Martin - Thanks, but although hatvalues() is useful for calculating PRESS, I can't find anything directly relevant to my question in the influence help pages. After some burrowing in the literature I'm doubting there is an answer out there (PRESS R^2 is always presented in a fairly ad hoc way). This is a new topic, as you say, and perhaps better handled on a statistics list. Murray Efford

> On Apr 10, 2016, at 9:38 AM, David Winsemius <dwinsemius at comcast.net> wrote: > >> >> On Apr 10, 2016, at 3:11 AM, Murray Efford <murray.efford at otago.ac.nz> wrote: >> >> Martin - >> Thanks, but although hatvalues() is useful for calculating PRESS, I can't find anything directly relevant to my question in the influence help pages. After

A package I have written makes considerable use of external C code. There appear to be no problems building a Windows binary with the GNU C compiler, but now I would like to make the package available for other platforms. A stringent check of the code with the gcc options '-Wall -pedantic' flags many nested functions and variable-length arrays that are not allowed in ISO C. Is it

On a CentOS 7 machine, I am at a loss with respect to an inability to run a full R CMD check as anything involving tex files ends in tears. We followed the README at CRAN and installed a large number of tex-live packages on this machine. But when a manual is created, we end up with what follows below. Here, I chopped some of the error messages, the key seems to be 'Insufficient extension

Dear list, I am trying to produce a pdf manual using Rtools (version 3.1.0.1936) on Windows 8 (64-bit). I am also aware of the inconsolata issue posted in the forum (https://stat.ethz.ch/pipermail/r-devel/2013-June/066850.html), and then I have installed the patched version of R-3.0.1. However I still have some errors with the following message: R CMD Rd2pdf mypack Hmm ... looks like a package

>>>>> Murray Efford <murray.efford at otago.ac.nz> >>>>> on Fri, 8 Apr 2016 18:45:33 +0000 writes: > Thanks for these perfectly consistent replies - I didn't > understand the purpose of m = sum(w * f/sum(w)) and saw it > merely as a weighted average of the fitted values. My > ultimate concern is how to compute an appropriate

On 29 May 2018 at 16:37, R P Herrold wrote: | On Tue, 29 May 2018, Dirk Eddelbuettel wrote: | | > On a CentOS 7 machine, I am at a loss with respect to an inability to run a | > full R CMD check as anything involving tex files ends in tears. | | Hi, Dirk | | Have fun at the upcoming conference at UIC | | I seem to have 56 font packages installed under CentOS 7 | locally, but then I work

Hi.... I am assembling an R package (under Windows XP, R v.2.3) and have a very basic question. Running R CMD build does not generate a pdf. R CMD check generates a .dvi, but I cannot figure out how to automatically create the pdf. I thought from reading the "writing r extensions' manual that R CMD build was supposed to generate the pdf. I am having no success using various

Do you mean w <- z$residuals ? Type names(z) to see the list of item in your model. I ran your code on a lm and it work fine. You don't need the brackets around mss <- Michael Long On 04/07/2016 02:21 PM, Murray Efford wrote: > Following some old advice on this list, I have been reading the code for summary.lm to understand the computation of R-squared from a weighted

Thanks for these perfectly consistent replies - I didn't understand the purpose of m = sum(w * f/sum(w)) and saw it merely as a weighted average of the fitted values. My ultimate concern is how to compute an appropriate weighted TSS (or equivalently, MSS) for PRESS-R^2 = 1 - PRESS/TSS = 1 - PRESS/ (MSS + PRESS). Do you think it then makes sense to substitute the vector of leave-one-out fitted

Following some old advice on this list, I have been reading the code for summary.lm to understand the computation of R-squared from a weighted regression. Usually weights in lm are applied to squared residuals, but I see that the weighted mean of the observations is calculated as if the weights are on the original scale: [...] f <- z$fitted.values w <- z$weights [...] m

After configure, make and make check on a linux Suse 7.3 box, I run make dvi and make info with no problems but get a lot of garbage to my screen during make pdf. Is this normal? Is there a bug in this part of the installation? This is part of what I get on the screen: humboldt:/usr/local/R-patched # make pdf make[1]: Entering directory `/usr/local/R-patched/doc' make[2]: Entering

Dear all, I am trying to compile and install R from sources on Ubuntu GNU/Linux 64 bit. It usually worked flawlessly for me for more than 4 years (32bit and 64bit on Mandrake/Mandriva, Suse, Debian, Ubuntu). However, I am experiencing some problems now -- not during compiling and installing R itself but with the manuals. Maybe someone can help me with it? I tried to find some information in the

Dear expeRts, below are two examples of using texi2dvi. The problem becomes clear from the second example: on cleaning, texi2dvi also deletes the generated .pdf file. Is there a solution? Cheers, Marius ## Example 1: texi2dvi cleans fine, without deleting the generated .pdf require(tools) sink(file="myLaTeXFile1.tex") cat("\\documentclass{article}\n")

On 08 Apr 2016, at 12:57 , Duncan Murdoch <murdoch.duncan at gmail.com> wrote: > On 07/04/2016 5:21 PM, Murray Efford wrote: >> Following some old advice on this list, I have been reading the code for summary.lm to understand the computation of R-squared from a weighted regression. Usually weights in lm are applied to squared residuals, but I see that the weighted mean of the

Hi all I am trying to build an R package, which I have successfully done many times before, but have an error I cannot trace. I hope someone can help me. Here's is some edited output (full output below if it is useful): pdunn2 at PDunnUbuntu:~/DSdata$ R CMD build GLMsData * checking for file 'GLMsData/DESCRIPTION' ... OK * preparing 'GLMsData': * checking DESCRIPTION