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odfWeave is throwing up a cryptic error, after successfully processing a file with a large number of figures (~30) and many \Sexpr{} calls. The error is (at least to me) cryptic. I am not sure where to look to correct this problem. Here's the error: Post-processing the contents Error in .Call("RS_XML_Parse", file, handlers, endElementHandlers, as.logical(addContext), :

Do I recall correctly that there is an R package that can take an image, and help one estimate the x/y coordinates? I can't find the package, thought it was an R-tool, but would appreciate any leads. Thanks, Rob

I'd like to generate a boxplot that has BOTH the overall distribution of a continuous variable (say age), and then a boxplot for each level of a stratifying variable (e.g. site). Does anyone have prototype code for this? Thanks, -- View this message in context: http://www.nabble.com/GGPLOT-QPLOT-Boxplot-with-summary-tp20095591p20095591.html Sent from the R help mailing list archive at

I am generating images via lattice from Frank Harrell's RMS package. These images are characterized by coloured lines and grey-scale confidence intervals. I need to port them to Openoffice/etc, and have tried both png and jpeg (at high quality), but in neither format can I subsequently see the the grey scale confidence intervals. Other than moving to LaTex, does anyone have other

I have a dataset that does not include native scores, but only serial quantile rankings for a set of units. Clearly these observations are dependent (in that you can't alter one observation without also altering others). Are there methods for dealing with quantile dependent variables. My atempt to find such methods has not bee successful. Any leads to theory, texts or R code would be most

Full_Name: Rob James Version: 2.2.0 OS: Fedora Core 4 64 Bit Submission from: (NULL) (24.79.225.106) Attempting to run the configure script yields the following inscrutable error: configure: error: --with-readline=yes (default) and headers/libs are not available This occurs at the following point in the processing of the configure script: checking for readline/history.h... no checking

I've been happily building a file with odfWeave, and just as the hour draws nigh for it to be sent off, odfWeave or XML throws the following catastrophic error: ...this is the tail of entirely uneventful processing of input file..... 31 : term xml(label=LR_Fall_Model_Results) 32 : term verbatim(label=LR_Model_Fall_graph) 33 : term xml(label=LR_OMC_tab) 'content_1.xml' has

...> ## 2. possibility to get the probability for surviving 20 units of > time > ind <- s$time >= 20 > sum(ind) / length(ind) -- David Winsemius, MD West Hartford, CT ------------------------------ Message: 62 Date: Fri, 10 Dec 2010 12:14:04 -0800 From: Rob James <rob at aetiologic.ca> To: r-help at r-project.org Subject: [R] Reorder factor and address embedded escapes Message-ID: <4D028A0C.3010801 at aetiologic.ca> Content-Type: text/plain; charset=ISO-8859-1; format=flowed I am trying to reorder a factor variable that has embedded escape characters. The data b...

BODY { font-family:Arial, Helvetica, sans-serif;font-size:12px; }I am looking to draw what I hoped was a simple plot of proportion WITHIN a strata, save % males by site. I seem to be able to get proportion of males, by site, where the proportion is across the whole dataset, but not the proportion within each site. thanks in advance, Rob [[alternative HTML version deleted]]

I am looking for the syntax to capture XML tags marked with /DescriptorName MajorTopicYN="Y"/ , but the combination of the internal space (between "Name" and "Major" and the embedded quote marks are defeating me. I can get all the "DescriptorName" tags, but these include both MajroTopicYN = "Y" and "N" variants. Any suggestions?

What causes the error report: logical(0) to arise in the rms function lrm? Here's my data: But both the dependent and the independent variable seem fine... > str(AABB) 'data.frame': 1176425 obs. of 9 variables: $ sex : int 1 1 0 1 1 0 0 0 0 0 ... $ faint : int 0 0 0 0 0 0 0 0 0 0 ... Here's the simplified model and error AABB$model1 < lrm (faint ~ sex)

There is both a technical and a theoretical element to my question... Should I be able to use the outputs which arise from the fastbw function as inputs to nomogram(). I seem to be failing at this, -- I obtain a subscript out of range error. That I can't do this may speak to technical failings, but I suspect it is because Prof Harrell thinks/knows it injudicious. However, I can't

I want to employ a parsimonious model to draw nomograms, as the full model is too complex to draw nomograms readily (several interactions of continuous variables). However, one interesting variable stays or leaves based on whether I choose "p value" or "AIC" options to fastbw(). My question boils down to this: Is there a theoretical reason to prefer one over another?

The integration of plot methods for various outputs from rms packages is a great appreciated aspect of the rms package. I particularly like to use: plot(summary(model)) for my own purposes, but... for publication/presentation I need to modify details like variable names, or the number of signficant digits used in the figure annotations. Is there a simple way to modify the plot inputs

I was hoping to use mi to generate a synthetic version of a database. The strategy (see code below) was simple: use the diamonds dataset from ggplot2, subset it focus on 3K single-color, then create a blank record for every "real" record, and throw the new dataset at mi to see if it would populate the blank records. I kept getting failed convergence. I think I have simplified the

Dear R-help and Prof. Harrell: My question concerns the baseline state for continuous variable in lrm() within the RMS package. I have a model which can be reduced to: lrm(FT ~ rcs(V1, c(0, 1,5)) The model makes perfect sense if the baseline state is where V1>=5 but the model makes no sense if the baseline category is 0 (which I had expected). Can someone point me to a reference, or

I have a situation where the parameter estimates from lrm identify a binary predictor variable ("X") as clearly non-significant (p>0.3), but the ANOVA of that same model gives X a chi^2-df rank of > 200, and adjudicates X and one interaction of X and a continuous measure as highly significant. The N is massive and X has two categories, each with > 100,000 observations.

I am trying to reorder a factor variable that has embedded escape characters. The data begins as a csv file with a factor that includes embedded new line characters. By the time read.table has rendered it into a data frame, the variable now has an extra backslash. e.g. "This\nLabel" in the csv becomes "This\\nLabel" in the data frame. So, I am trying to reorder the

The rms package includes the nomogram function, which generates a list object that can be passed to plot for graphical production of nomograms. I would like to remove the "linear predictor" line in the graph, which means (I suspect) removing it from the nomogram output object. I've looked at the nomogram output object, but it is not clear to me if or how it might be edited to

BODY { font-family:Arial, Helvetica, sans-serif;font-size:12px; }I can't seem to perform an install from CRAN (stat.sfu.ca, specifically) for Ubuntu 64 8.1 (Intrepid) and 2.8.2 of R. Here is the log: Looks like some dependencies cannot be satisfied. Suggestions? Thanks in advance. sudo apt-get install r-base Reading package lists... Done Building dependency tree Reading state