search for: fixinnamespac

...space:zoo> Suppose for whatever reason I want output to be in percent, so I'd like to modify the result to be rval <- 100 * cumsum(y)/k I cannot just copy the function and change it, as the namespace mechanism ensures the rollmean.default in 'zoo' continues to be used. If I use fixInNamespace("rollmean.default", ns = "zoo") I can edit the rval <- cumsum(y)/k line to read rval <- 100 * cumsum(y)/k save the file and exit the R.app GUI editor. But this does not update the exported copy of the function (the documentation for fixInNamespace says this is the case)...

...space:zoo> Suppose for whatever reason I want output to be in percent, so I'd like to modify the result to be rval <- 100 * cumsum(y)/k I cannot just copy the function and change it, as the namespace mechanism ensures the rollmean.default in 'zoo' continues to be used. If I use fixInNamespace("rollmean.default", ns = "zoo") I can edit the rval <- cumsum(y)/k line to read rval <- 100 * cumsum(y)/k save the file and exit the R.app GUI editor. But this does not update the exported copy of the function (the documentation for fixInNamespace says this is the case)...

I would like to edit a function from a package that uses a NAMESPACE, but in place (after the package is loaded). As a simple example, I would like to add a browser() call to a line in one of the functions for debugging purposes. Since the function is in the package namespace, I can't do that directly by simply making a copy of the function and editing it--that copy doesn't get used. I

...e is, panel.loess still calls the original code in package:stats instead of the new loess package, regardless of whether package:loess or package:lattice comes first in the search list. If I export panel.loess from the new package, then it can't see grid.lines anymore. I've tried using fixInNamespace to change the loess.smooth in package:stats to point to the updated simpleLoess, but it is locked. At http://tolstoy.newcastle.edu.au/R/help/04/05/0428.html it was suggested to write a new panel function. However I still need to be able to access grid.lines, and getFromNamespace("grid.lin...

...tats = stats, n = n, conf = conf, out = x[out & nna]) } posted by Mr. Jim Bowers, and additional posts discussing how to make it work. The issue I am having is that all the posts say to edit boxplot.default, but I have no idea how to actually do that. I've tried fix(bowplot.default) and fixInNamespace(...), but what do I actually change? I tried including an argument "stats=myboxplot.stats" but that did not change anything. Once it is changed, can I just use the same "boxplot(...)" code as normal or do I need to use myboxplot? I know this should be simple, but it is gene...

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Hi, In glmmPQL in the MASS library, the function uses repeated calls to the function lme(), using ML. Does anyone know how you can change this to REML? I know that in lme(), the default is actually set to REML and you can also specify this as 'method=REML' or 'method'ML' but this isn't applicable to glmmPQL(). I'd appreciate any help or advice! Thanks, Emma

Hello, assignInNamespace refuses to assign an object to a name that is not already used in the namespace. Something like this would make it possible: --- src/library/utils/R/objects.R (revision 56024) +++ src/library/utils/R/objects.R (working copy) @@ -252,8 +252,9 @@ stop("environment specified is not a package") ns <- asNamespace(substring(nm, 9L))

Hi there. I am receiving an unexpected error message when creating a new distribution for the survreg() function in the survival package. I understand the survival.distributions() function and have been following the Cauchy example provided in the help file. My goal is to use survreg to fit a gamma distribution to interval censored data. Here is a simple example of what I'm trying to do.

This should be an easy one, but I could not find the answer in the obvious places. one <- data.frame(a=c(1,2,3),b=c("x","y","z")) two <- data.frame(a=c(4,5,6),b=c("q","r","s")) > print(one) a b 1 1 x 2 2 y 3 3 z > print(one,row.names=F) a b 1 x 2 y 3 z So far, so good, but how do I do this if the data frames are bound

Hi I have a data.frame with a grouping variable having the levels C, mild AD, mod AD, O and S since I want to compute a lda only for the two groups 'C' and 'mod AD' I call lda with data=subset(mydata.pca,GROUP == 'mod AD' | GROUP == 'C') my.lda <- lda(GROUP ~ Comp.1 + Comp.2 + Comp.3 + Comp.4+ Comp.5 + Comp.6 + Comp.7 + Comp.8 ,

Hi, I would like to step-through a non-visible function. but apparently I don't know enough about namespaces to get that to work: > methods(predict) ... deleted lines ... [27] predict.rpart* predict.smooth.spline* [31] predict.survreg.penal* Non-visible functions are asterisked > debug(predict.rpart) Error: Object "predict.rpart" not found >

Dear list, I''ve had this a few times now, and wonder if this is possible: I''m using a package, often for plotting something, but I want to tune the way the plotting goes, in a way that was not foreseen by the maker of the package. Now, most of the time, these kinds of R functions (say pkg::plot.something) call into other R functions (say pkg::plot.something.internal), and

Hi all, I'm just getting started with R and I would appreciate some help. I'm having trouble creating a boxplot with whiskers at the 95th and 5th percentiles instead of at 1.5 * IQR. I have read the relevant documentation, and checked existing mails on this topic. I found a small modification that should work : https://stat.ethz.ch/pipermail/r-help/2001-November/016817.html and tried to

...uggested by Andy Liaw). o New function file.symlink() to create symbolic file links where supported by the OS. o New generic function flush() with a method to flush connections. o New function force() to force evaluation of a formal argument. o New functions getFromNamespace(), fixInNamespace() and getS3method() to facilitate developing code in packages with namespaces. o glm() now accepts `etastart' and `mustart' as alternative ways to express starting values. o New function gzcon() which wraps a connection and provides (de)compression compatible with gzip. loa...

...uggested by Andy Liaw). o New function file.symlink() to create symbolic file links where supported by the OS. o New generic function flush() with a method to flush connections. o New function force() to force evaluation of a formal argument. o New functions getFromNamespace(), fixInNamespace() and getS3method() to facilitate developing code in packages with namespaces. o glm() now accepts `etastart' and `mustart' as alternative ways to express starting values. o New function gzcon() which wraps a connection and provides (de)compression compatible with gzip. loa...

...Hyndman). o array() and matrix() now allow 0-length `data' arguments for compatibility with S. o as.data.frame() now has a method for arrays. o as.matrix.data.frame() now coerces an all-logical data frame to a logical matrix. o New function assignInNamespace() parallelling fixInNamespace. o There is a new function contourLines() to produce contour lines (but not draw anything). This makes the CRAN package clines (with its clines() function) redundant. o D(), deriv(), etc now also differentiate asin(), acos(), atan(), (thanks to a contribution of Kasper Kristensen)....

...Hyndman). o array() and matrix() now allow 0-length `data' arguments for compatibility with S. o as.data.frame() now has a method for arrays. o as.matrix.data.frame() now coerces an all-logical data frame to a logical matrix. o New function assignInNamespace() parallelling fixInNamespace. o There is a new function contourLines() to produce contour lines (but not draw anything). This makes the CRAN package clines (with its clines() function) redundant. o D(), deriv(), etc now also differentiate asin(), acos(), atan(), (thanks to a contribution of Kasper Kristensen)....