search for: pkgpath

...l(columns) || is.null(columnSeparator)) {* * stop("Usage: mueda(<analysis>, <input>, <output>, <columns>, <columnSeparator>, [<cat.cut.off>], [<percentilePoints>], [<histogram>]")* * }* * * * # Gets the absolute path of the external JARS* * #pkgPath = paste(system.file(package="muEDA"), "/jars", sep="")* * pkgPath = paste("../inst", "/jars", sep="")* * * * # Initializes the JVM specifying the directory where the main Java class resides:* * .jinit("pkgPath")* * * * # Adds al...

...d without restarting R. I want to make it automatic so that you can just pass in the name of the package, and it will unload all the relevant shared libraries. Typically, the name of the shared library is the same as the package. So something like this usually works: pkgname <- 'bitops' pkgpath <- system.file(package=pkgname) library.dynam.unload(pkgname, pkgpath) Some R packages have shared libraries with names that differ from the package, and this strategy won't work for them. I'm aware that the NAMESPACE file will have an entry like this: useDynLib(libname) but I don'...

Hi, just a little wish : Could we have one (or maybe more) standardized optional tag(s) for package DESCRIPTION files to cover svn revision info? This would be very useful for bug reporting... I know that any developer is already free to append corresponding lines to DESCRIPTION files to do something of this sort --- e.g. lines like LastChangedDate: {$LastChangedDate: 2009-03-31 $}

...## and this testdir is not installed. > pkgSrcPath <- file.path(Sys.getenv("SRCDIR"), "Pkgs") > if(file_test("-d", pkgSrcPath)) { + ## could use file.copy(recursive = TRUE) + system(paste('cp -r', shQuote(pkgSrcPath), shQuote(tempdir()))) + pkgPath <- file.path(tempdir(), "Pkgs") + op <- options(warn=2) # There should be *NO* warnings here! + ## pkgB tests an empty R directory + dir.create(file.path(pkgPath, "pkgB", "R"), recursive = TRUE, + showWarnings = FALSE) + p.lis &l...

...|| is.null(input) || is.null(output) || is.null(scalaLib) || is.null(sparkCore)) { stop("Usage: muMST(<mesosMaster>, <input>, <output>, <scalaLib>, <sparkCore>, [<inputSplits>]") } # Gets the absolute path of the external Scala and Java JARS pkgPath = paste(system.file(package="MuMstBig"), "/jars", sep="") # Initializes the JVM specifying the directory where the main Java class resides: .jinit("pkgPath") # Adds all the required JARs to the class path: .jaddClassPath(paste(pkgPath, "Prims.j...

On 14 October 2008 at 09:39, Simon Blomberg wrote: | Hi, is anyone else getting this error? Could this be a bug?: | | > update.packages(ask=FALSE) | Error in read.dcf(pkgpath, fields = fields) : | Line starting 'unix; ...' is malformed! | | > sessionInfo() | R version 2.8.0 RC (2008-10-12 r46696) | x86_64-pc-linux-gnu Confirmed in plain R using the same package built this morning from last night's tarball from Denmark: Running update.packages() yi...

On 14 October 2008 at 09:39, Simon Blomberg wrote: | Hi, is anyone else getting this error? Could this be a bug?: | | > update.packages(ask=FALSE) | Error in read.dcf(pkgpath, fields = fields) : | Line starting 'unix; ...' is malformed! | | > sessionInfo() | R version 2.8.0 RC (2008-10-12 r46696) | x86_64-pc-linux-gnu Confirmed in plain R using the same package built this morning from last night's tarball from Denmark: Running update.packages() yi...

...on("verbose"), setRNG = FALSE, ask = getOption("example.ask"), prompt.prefix = abbreviate(topic, 6), run.dontrun = FALSE) { if (!character.only) { topic <- substitute(topic) if (!is.character(topic)) topic <- deparse(topic)[1L] } pkgpaths <- find.package(package, lib.loc, verbose = verbose) file <- index.search(topic, pkgpaths, TRUE) return(file) } > example2("deMorgan", package="QCA") Error in example2("deMorgan", package = "QCA") : could not find function "index.sea...

...<- as.environment("package:utils2") print(env2) ## <environment: package:utils2> ## attr(,"name") ## [1] "package:utils2" This becomes a problem, because the 'path' attribute is dropped causing: packageDescription("utils2") ## Error in if (pkgpath == "") { : argument is of length zero sessionInfo() ## Error in if (pkgpath == "") { : argument is of length zero Again, this might or might not expected. Finally: > sessionInfo() R version 2.6.0 alpha (2007-09-14 r42843) i386-pc-mingw32 locale: LC_COLLATE=English_United...

...make a cdf package. (My CDF file size is 1.12Go). I tried several methods but the same error occured Method 1 > #Set the working directory > setwd("D:/Analyse R/Cel files") > #library to create cdf env > library("makecdfenv") >#Create cdf environment >pkgpath <- tempdir() >make.cdf.package("file.cdf", cdf.path=getwd(), compress=FALSE, species = "Homo_sapiens", package.path = pkgpath, verbose=TRUE) dir(pkgpath) Method 2 #Set the working directory setwd("D:/Analyse R/Cel f...

Dear R users, I have just upgraded R v1.5.0 to v1.6.1 for Windows but have trouble loading my library of R only functions (no C calls). After examining the "library" script this difference was found: (v1.5.0) which.lib.loc <- dirname(pkgpath) descfile <- system.file("DESCRIPTION", package = package, lib.loc = which.lib.loc) if (nchar(descfile)) testRversion(descfile) if (exists("packageHasNamespace") && packageHasNamespace(package,...

...alled with `library` against installed packages. svn diff: Index: src/library/base/R/library.R =================================================================== --- src/library/base/R/library.R (revision 76727) +++ src/library/base/R/library.R (working copy) @@ -300,8 +300,13 @@ pkgpath <- find.package(package, lib.loc, quiet = TRUE, verbose = verbose) if(length(pkgpath) == 0L) { - if(length(lib.loc) && !logical.return) + if(length(lib.loc) && !logical.return) { +...

Hi, is anyone else getting this error? Could this be a bug?: > update.packages(ask=FALSE) Error in read.dcf(pkgpath, fields = fields) : Line starting 'unix; ...' is malformed! > sessionInfo() R version 2.8.0 RC (2008-10-12 r46696) x86_64-pc-linux-gnu locale: LC_CTYPE=en_AU.UTF-8;LC_NUMERIC=C;LC_TIME=en_AU.UTF-8;LC_COLLATE=en_AU.UTF-8;LC_MONETARY=C;LC_MESSAGES=en_AU.UTF-8;LC_PAPER=en_AU.UTF-8;LC...

...make[2]: *** [test-Reg] Error 2 make[1]: *** [test-all-basics] Error 1 make: *** [check] Error 2 Looking at reg-packages.Rout.fail shows: > > ## else w/o clause: > ## could use file.copy(recursive = TRUE) > system(paste('cp -R', shQuote(pkgSrcPath), shQuote(tempdir()))) > pkgPath <- file.path(tempdir(), "Pkgs") > ## pkgB tests an empty R directory > dir.create(file.path(pkgPath, "pkgB", "R"), recursive = TRUE, + showWarnings = FALSE) > p.lis <- if("Matrix" %in% row.names(installed.packages(.Library))) +...

...## and this testdir is not installed. > pkgSrcPath <- file.path(Sys.getenv("SRCDIR"), "Pkgs") > if(file_test("-d", pkgSrcPath)) { + ## could use file.copy(recursive = TRUE) + system(paste('cp -r', shQuote(pkgSrcPath), shQuote(tempdir()))) + pkgPath <- file.path(tempdir(), "Pkgs") + # op <- options(warn = 2) # There should be *NO* warnings here! + ## pkgB tests an empty R directory + dir.create(file.path(pkgPath, "pkgB", "R"), recursive = TRUE, + showWarnings = FALSE) + p.lis...

...=================== --- src/library/tools/R/Rd2HTML.R (revision 50178) +++ src/library/tools/R/Rd2HTML.R (working copy) @@ -305,7 +305,7 @@ if (!OK) { ## so how about as a topic? file <- utils:::index.search(parts$targetfile, pkgpath) - if (nzchar(file)) { + if (length(file)>0 && nzchar(file)) { warnRd(block, Rdfile, "file link ", sQuote(parts$targetfile), " in package ",...

Dirk Eddelbuettel wrote: > On 14 October 2008 at 09:39, Simon Blomberg wrote: > | Hi, is anyone else getting this error? Could this be a bug?: > | > | > update.packages(ask=FALSE) > | Error in read.dcf(pkgpath, fields = fields) : > | Line starting 'unix; ...' is malformed! > | > | > sessionInfo() > | R version 2.8.0 RC (2008-10-12 r46696) > | x86_64-pc-linux-gnu > > Confirmed in plain R using the same package built this morning from last > night's tarball fro...

...package ) if(warn.conflicts && - !exists(".conflicts.OK", envir = env, inherits = FALSE)) + !exists(".conflicts.OK", envir = ns, inherits = FALSE)) checkConflicts(package, pkgname, pkgpath, nogenerics, ns) runUserHook(package, pkgpath) In order to be consistent, a patch for attach() should also be provided, which requires some more changes, but I won't spend time on that unless the above is a wanted feature. /Henrik

...e is not responding! The full code of the script is this: library(AnnBuilder) list<-options("AnnBuilderSourceUrls") list$AnnBuilderSourceUrls$EG<-"/path/to/file/" options("AnnBuilderSourceUrls"=list$AnnBuilderSourceUrls) GOPkgBuilder(pkgName = "GO", pkgPath = ".", filename = "go_200706-termdb.obo-xml.gz", version = "v.1.0", author = list(author = "author", maintainer = "maintainer <main.tainer at mail.net>") ) Thanks in advance for any help. Daniela Albrecht -- Psssst! Schon vom neuen GMX Mu...

...E needed I've tried debugging this, and the bad lines are these, in loadNamespace: R_version_built_under <- as.numeric_version(built$R) if (R_version_built_under < "3.0.0") stop(gettextf("package %s was built before R 3.0.0: please re-install it", sQuote(basename(pkgpath))), call. = FALSE, domain = NA) These are in the src/library/base/R/namespace.R file, around line 379. If I stop it before the if and evaluate R_version_built_under, it looks fine. If I stop it there and evaluate R_version_built_under < "3.0.0" I get NA. If I evaluate it again wi...