similar to: Using Rscript to read from a file

Hello, I was looking at the R (installed on RHEL6) shell script and saw R_HOME_DIR=/usr/lib64/R. Nowhere (and I could have got it wrong) does it read in the environment value R_HOME_DIR. I have the need to rsync the entire folder below /usr/lib64/R to another computer into another directory location. Without changing the R shell script, how can i force it read in R_HOME_DIR? Or maybe i

Hi, how can I use R in a pipline like this $ ./generate-data | R --script-file=Script.R | ./further-analyse-data > result.dat Assume a column based output of ./generate-data, e.g. something like: 1 1 1 2 4 8 3 9 27 4 16 64 The R commands that process the data should come from Script.R and should print to stdout (Script.R could for example calculate the square of every entry or calculate

I think there's a minor bug in the argument-processing carried out by Rscript. The effect is that if one passes "-g" as a flag to the script, it is erroneously exposed to the main executable's argument processing and therefore generates a message about not being able to comply with the request for a particular GUI. Uppercase G is fine as are the other 25 letters in upper or

Hi, people. I met a little problem for which someone might have a solution. Let's say I have an executable file (named "pp.R") with this contents: #!/usr/bin/Rscript options(echo=TRUE) a <- 1 Sys.sleep(3) a <- 2 If I execute "./pp.R" at the shell prompt, the output shows the timely progress of the script as expected. If I use "./pp.R | tee

I think that's my first true question (rather than answer) to R-help. As R has, for a long time, become my primary scripting and programming language, I'm prefering at times to write Rscript files instead of shell scripts, notably when R has nice ways to do some of the things. On a standard standalone platform with standard R, I would start such a script with

Good Morning, I have recently built R version 2.7.0 on a CentOS release 4.6, 64-bit system using the following command: ./configure --prefix=/usr/local/r-2.7.0 Everything built fine and works properly except for Rscript which is looking for files in the original build directory instead of the specified install directory. Did I forget to add a flag or is this a bug? TIA, Gregg.

Hello, I have found what I believe to be a bug in the Linux version of the Rscript binary. Under Windows (official 64-bit 3.5.1 R distribution running on an up-to-date Win10), I can do the following (e.g. under powershell): PS H:\Users\Cesko> Rscript -e 'ls() >> ls()' character(0) character(0) which works as I expect: I am running Rscript with two arguments, namely (1)

Hi, I have an RData file containing a GeneSetCollection object (Bioconductor), http://www.cs.mu.oz.au/~gabraham/c2.RData. I think it uses lazy loading because packages are only loaded when I access the object (see below) in the R console. When I try the same with Rscript, it segfaults. This happens on 2.9.0 both on Linux and Mac: Rscript -e 'load("c2.RData"); c2[1]' ***

Hi, I have run into a strange issue with Rscript and plyr. When running the following Rscript: #!/usr/bin/Rscript library(plyr) d = ddply(data.frame(a=1:101,b=1:101), .(a,b), nrow) head(d) the script does not terminate. It prints out the results from head(d), but does not return to the shell. By changing the a and b to 1:100, the script returns. The same code running within the R shell works

Hi, I've been using r (the little, but sweet one!), and recently found out about the magic argv vector of the rest of arguments passed to it. How can we process an argument that represents elements of a vector: $ r littler_ex.R 14 '3, 2' Error in ff * ss : non-numeric argument to binary operator where: ,-----[ cat ~/scripts/R/littler_ex.R ] | ff <- as.numeric(argv[1]) | ss

What ? ====== littler - Provides hash-bang (#!) capability for R (www.r-project.org) Why ? ===== GNU R, a language and environment for statistical computing and graphics, provides a wonderful system for 'programming with data' as well as interactive exploratory analysis, often involving graphs. Sometimes, however, simple scripts are desired. While GNU R can be used

Hi Accesses the $new method for a class defined in a package fails if the methods package is not loaded. I have created a test package with the following single code file: newTest <- function() { cl <- get("someClass") cl$new } someClass <- setRefClass("someClass") (This is similar to code actually used in the testthat package.) If methods is not loaded,

Consider this script (with h5 installed): $ cat test.R library(h5) name <- tempfile() f <- h5file(name) file.remove(name) $ Rscript test.R Error in initialize(value, ...) : cannot use object of class "character" in new(): class "H5File" does not extend that class Calls: h5file -> new -> initialize -> initialize Execution halted $ /usr/lib64/R/bin/R --slave

Hello, I have a multi-page display each consisting of two-panels above each other. I need to draw a line from the top panel to bottom panel. Using current.vpTree() i find that "plot1.panel.1.2.vp" and "plot1.panel.1.1.vp" are the top and bottom ones respectively. I am using the following code(inspired by Paul Murrell's R Graphics) to draw a line. (All the

Hello, Suppose I have an expression, E, which accesses some variables present in an environment V. I do this via eval(E,envir=V) however all assignments end up in V. I would like the results of assignments in E to end up in the .GlobalEnv ? Or at least the calling environment. Is there a quick way to this instead of iterating over all objects E and assigning into .GlobalEnv? Thank you Saptarshi

Hello, I was trying this bit of code (i know it is an extreme case) g=function(r){ if(r==1) return(list(x=1)) else return(list(x=g(r-1))) } For z=g(500), the code runs but when I print z i.e >> z I get <environment: R_GlobalEnv> *** caught bus error *** address 0x1, cause 'non-existent physical address' Possible actions: 1: abort (with core dump, if enabled)

Hello, My plots consist of 2 rows, 1 column, many pages I've managed to selectively turn of strips for the bottom panel and roll my own strip for the top par.strip.text = list(lines = c(0,3),cex=0.6) I have my own custom prepanel function too. What i'd like to do is turn off the x-axis for the top panel (since on a given page the xlim is same for both top and bottom panel, but the

Hello, I have some code which generates lattice objects. The function recieves serialized forms of the lattice objects which it then unserializes and then adds to an ArrayList<REXP>. REXPRaw rser = new REXPRaw( target ); //target contains the raw serialized forms of lattice objects rconn.assign("temp",rser); REXP ret =

Hello, I have to write single Long to a server written in java. The server passes the input as in.readLong() // it expects to receive 8 bytes In Python, i can do it by sending struct.pack( "!q", value) However, I have tried this writeBin(length(x),con=conn,endian="big") #conn opened in binary But the response on the server side is wrong, eg. 1 is received as

summary: how to structure an R file such that it can be both 1. used as a script via, e.g., (from OS commandline) $ Rscript foo.r bar=baz 2. imported and called as a function via, e.g. (from R commandline) > source('./foo.r) > foo(bar='baz') ? I'm looking for the 'R equivalent' of how python supports this usecase. details: As discussed in the thread beginning