search for: getnamespace

>>>>> Winston Chang <winstonchang1 at gmail.com> >>>>> on Fri, 23 Jan 2015 10:15:53 -0600 writes: > I think you can simplify a little by replacing this: > pkg %in% loadedNamespaces() > with this: > .getNamespace(pkg) almost: It would be !is.null(.getNamespace(pkg)) > Whereas getNamespace(pkg) will load the package if it's not already > loaded, calling .getNamespace(pkg) (note the leading dot) won't load > the package. indeed. And you, Winston, are right that this...

...on Chang <winstonchang1 at gmail.com> on Fri, 23 >>>>>>> Jan 2015 10:15:53 -0600 writes: >> >> > I think you can simplify a little by replacing this: >> >> > pkg %in% loadedNamespaces() > with this: > >> .getNamespace(pkg) >> >> almost: It would be >> >> !is.null(.getNamespace(pkg)) >> >> > Whereas getNamespace(pkg) will load the package if it's >> not already > loaded, calling .getNamespace(pkg) (note >> the leading dot...

...quot;))]) - } + paths <- file.path(lib.loc, pkg) + paths <- paths[ file.exists(file.path(paths, "DESCRIPTION")) ] if(use_loaded && pkg %in% loadedNamespaces()) { dir <- if (pkg == "base") system.file() else getNamespaceInfo(pkg, "path") Pete ____________________ Peter M. Haverty, Ph.D. Genentech, Inc. phaverty at gene.com

...gt;>>> Winston Chang <winstonchang1 at gmail.com> >>>>>> on Fri, 23 Jan 2015 10:15:53 -0600 writes: > > > I think you can simplify a little by replacing this: > > > pkg %in% loadedNamespaces() > > with this: > > .getNamespace(pkg) > > almost: It would be > > !is.null(.getNamespace(pkg)) > > > Whereas getNamespace(pkg) will load the package if it's not already > > loaded, calling .getNamespace(pkg) (note the leading dot) won't load > > the package. > > ind...

...t gmail.com> on Fri, 23 > >>>>>>> Jan 2015 10:15:53 -0600 writes: > >> > >> > I think you can simplify a little by replacing this: > >> > >> > pkg %in% loadedNamespaces() > with this: > > >> .getNamespace(pkg) > >> > >> almost: It would be > >> > >> !is.null(.getNamespace(pkg)) > >> > >> > Whereas getNamespace(pkg) will load the package if it's > >> not already > loaded, calling .getNamespace(pkg) (n...

Hi, I just stumbled on the following apparent oddity: the package "datasets" does not appear to export anything out of its namespace: > ns_datasets <- getNamespace('datasets') > getNamespaceExports(ns_datasets) character(0) Not the case with other packages (example here with "utils"): > ns_utils <- getNamespace('utils') > head(getNamespaceExports(ns_utils)) [1] "?" ".DollarNames" "a...

...some warnings Warning in FUN(X[[1L]], ...) : Created a package name, ‘2013-10-29 17:05:51’, when none found Warning in FUN(X[[1L]], ...) : Created a package name, ‘2013-10-29 17:05:51’, when none found ... The warning is produced by the getPackageName() function. e.g. getPackageName(parent.env(getNamespace('data.table'))) I was wondering what could be done to get rid of these warnings, which I believe in the case "unloadNamespace" case are irrelevant. The stack of calls is: # where 3: sapply(where, getPackageName) # where 4: findClass(what, classWhere) # where 5: .removeSuperclass...

...;> there is no package called ?.GlobalEnv? >> >> distr calls setGeneric("q"), which indirectly causes the environment >> of base::q, .GlobalEnv, to be loaded as a namespace, causing the error. >> Giving his replacement q function the environment getNamespace("base") >> avoids the problem. >> >> I can reproduce the problem by making a package that just calls >> setGeneric("as.hexmode",...) and a NAMEPACE file with >> exportMethods("as.hexmode"). If my .Rprofile puts a vers...

...that the environment of the function being replaced by an S4 generic is (or is the descendent of) the environment in which it lives. E.g., the following demonstrates the problem % R --quiet --vanilla > assignInNamespace("plot", function(x, ...) stop("No plotting allowed!"), getNamespace("graphics")) > library(stats4) Error: package or namespace load failed for ?stats4? in loadNamespace(name): there is no package called ?.GlobalEnv? and defining the bogus plot function in the graphics namespace avoids the problem % R --quiet --vanilla > assignInNamespace("p...

I think you can simplify a little by replacing this: pkg %in% loadedNamespaces() with this: .getNamespace(pkg) Whereas getNamespace(pkg) will load the package if it's not already loaded, calling .getNamespace(pkg) (note the leading dot) won't load the package. I can't speak to whether there are any pitfalls in changing the library path searching, though. -Winston On Thu, Jan 22, 2015 a...

'?removeClass' shows that 'removeClass' is from package 'package:methods'. Is there a command which can show me all the functions and the classed defined in a package such as 'package:methods'?

...rid.Call.graphics(L_raster, x$raster, x$x, x$y, x$width, x$height, resolveHJust(x$just, x$hjust), resolveVJust(x$just, x$vjust), x$interpolate) 2: drawDetails.rastergrob(x, recording = FALSE) 3: drawDetails(x, recording = FALSE) 4: drawGrob(x) 5: recordGraphics(drawGrob(x), list(x = x), getNamespace("grid")) 6: grid.draw.grob(x$children[[i]], recording = FALSE) 7: grid.draw(x$children[[i]], recording = FALSE) 8: drawGTree(x) 9: recordGraphics(drawGTree(x), list(x = x), getNamespace("grid")) 10: grid.draw.gTree(x$children[[i]], recording = FALSE) 11: grid.draw(x$children...

Hi, I'm very confused about R structures and the methods to go with them. I'm using R for microarray analysis with Bioconductors. Suppose without reading the documentations, what's the best way to explore a data structure when you know nothing about it? I am currently using is() / class() to see what the object is. str() / attributes() to probe inside the object, and

...espace load failed for ?distr? in loadNamespace(name): there is no package called ?.GlobalEnv? distr calls setGeneric("q"), which indirectly causes the environment of base::q, .GlobalEnv, to be loaded as a namespace, causing the error. Giving his replacement q function the environment getNamespace("base") avoids the problem. I can reproduce the problem by making a package that just calls setGeneric("as.hexmode",...) and a NAMEPACE file with exportMethods("as.hexmode"). If my .Rprofile puts a version of as.hexmode with environment .GlobalEnv into the base names...

Hi, I have a package where I'm calling an R function (say "foo") from C code. "foo" is in the same package, but is not exported. I construct the call using lang1(install("foo")), but to eval it I need the package's environment. Is there a way to do this? Passing the correct environment through .Call() is not an option. Right now, I'm getting the

...rey60", inherit.aes = FALSE, show_guide = FALSE), scale_x_continuous("", breaks = NULL, expand = c(0.02, 0)), scale_y_continuous("", breaks = NULL, expand = c(0.02, 0))) ggplot()+map_mp but I have such error "Error in recordGraphics(drawGTree(x), list(x = x), getNamespace("grid")) : invalid graphics state" What am I doing wrong?

...for (module in analyses) { library(module, character.only = TRUE) } and I want to add a function isValid to each module, but I've added it only for AnalysisB. When I run this code: # value <- <selected by user> flags <- sapply(analyses, function(module) { namespace <- getNamespace(module) tryCatch({ isValid <- get("isValid", namespace) isValid(value) }, error = function(e) { TRUE }) }) # show analyses analyses[flags] then when R call get for AnalysisA it throw error, for AnalysisB it return function but for AnalysisC it ret...

...nt me to some reasoning? Thanks for all answers. Regards Petr PS. I found mcmcse package which shall compute the standard error but which I could not make to work probably because I do not have recent R-devel version installed Error in eval(expr, envir, enclos) : could not find function ".getNamespace" Error : unable to load R code in package 'mcmcse' Error: package/namespace load failed for 'mcmcse' Maybe I will also something find in quantreg package, but I did not went through it yet.

...rather avoid messing with the search path, which is a best practice if I'm not mistaken, so we tried hard to solve it using Imports. But I came to realize that the problem was in the grid namespace, not in our package namespace. I tested it with the following work-around: parent.env(parent.env(getNamespace('grid'))) <- getNamespace('gridExtra') which works. So my questions are: * did we miss something obvious ? * what is the proper way to handle this situation ? Thanks in advance for your wisdom. Karl Forner

...g the benchmarking and find faster solutions, I'm sharing the following: > library("microbenchmark") > x <- matrix(1:(80*80), nrow=80) > # Not "legal", because it calls .Primitive(). > dim_illegal <- base::dim > dim_R <- function(x) { + ns <- getNamespace("base") + dim <- get("dim", envir=ns, inherits=FALSE, mode="function") + dim(x) + } > dim_R_memoized <- local({ + dim <- NULL + function(x) { + if (is.null(dim)) { + dim <<- get("dim", envir=getNamespace("base"),...