[R-SIG-Mac] 64-bit packages and 32-bit R
I'm running R 2.9.2 build 5464 on OS X 10.5.8. Having encountered memory allocation problems, I ran the problematic code in R64, the 64- bit version of the same build. When I attempt to load openNLP I receive the error message that the 32-bit version that I had been using does not run in R64. I understand that there is a 64-bit version of openNLP, and that it installs in R64 without problems. I am assuming, however, that packages installed by 32-bit R and those installed by 64-bit R land in the same place, because I can see the 32-bit packages in the package list of 64-bit R. So my question is, when I subsequently switch to R (32-bit), will 64-bit versions of packages run there? I'm trying to avoid constantly having to manually switch between 32- and 64-bit versions of packages. Thanks, Richard smime.p7s Description: S/MIME cryptographic signature ___ R-SIG-Mac mailing list R-SIG-Mac@stat.math.ethz.ch https://stat.ethz.ch/mailman/listinfo/r-sig-mac
[R-SIG-Mac] 64-bit packages and 32-bit R
I'm running R 2.9.2 build 5464 on OS X 10.5.8. Having encountered memory allocation problems, I ran the problematic code in R64, the 64- bit version of the same build. When I attempt to load openNLP I receive the error message that the 32-bit version that I had been using does not run in R64. I understand that there is a 64-bit version of openNLP, and that it installs in R64 without problems. I am assuming, however, that packages installed by 32-bit R and those installed by 64-bit R land in the same place, because I can see the 32-bit packages in the package list of 64-bit R. So my question is, when I subsequently switch to R (32-bit), will 64-bit versions of packages run there? I'm trying to avoid constantly having to manually switch between 32- and 64-bit versions of packages. Thanks, Richard smime.p7s Description: S/MIME cryptographic signature ___ R-SIG-Mac mailing list R-SIG-Mac@stat.math.ethz.ch https://stat.ethz.ch/mailman/listinfo/r-sig-mac
Re: [R-SIG-Mac] Encoding issue with read.csv
Perhaps you meant to use fileEncoding=iso-8859-1 instead of encoding=iso-8859-1? Because that does the same as setting options(encoding=iso-8859-1) -- see ?read.table for details. Thanks a lot. That was the mistake I was making. I was using the encoding parameter instead of the fileEncoding one, so I was setting the encoding for the output not for the input. Now it works fine both with and only with iso-8859-1 or cp1252. That's quite understandable since cp1252 is a (non-strict) superset of iso-8859-1. Regards, A.R. ___ R-SIG-Mac mailing list R-SIG-Mac@stat.math.ethz.ch https://stat.ethz.ch/mailman/listinfo/r-sig-mac
[R-SIG-Mac] Increase heap space of openNLP
I'm not sure whether this question belongs in this SIG or in the R-help mail list. I'm running R 2.9.2 Leopard version on a MacBook Pro 17 early 2009 laptop with OS X 10.5.8. Due to memory problems I am running the 64-bit version of R.app, R64. When I sentDetect I get a an out-of-memory Java heap space exception. How can increase the heap space to avoid this error? Thanks, Richard ___ R-SIG-Mac mailing list R-SIG-Mac@stat.math.ethz.ch https://stat.ethz.ch/mailman/listinfo/r-sig-mac
Re: [R-SIG-Mac] 64-bit packages and 32-bit R
Thanks for the prompt reply. Yes, I understand that I have just one package and that I can start in in two modes. If I launch R.app, R runs in 32-bit mode; if R64.app, in 64-bit mode. In 64-bit mode, it can happen that a package that I have installed while running in 32-bit mode needs a 64-bit version. Such a package is openNLP. Since posing the question I have in fact installed the 64-bit version. In that situation I encountered a Java heap space exception, which I have reported elsewhere. So I exited 64-bit R, and ran R.app (32-bit R). The same operation that encountered the heap space problem in 64-bit R ran without a problem in 32-bit R, I am assuming with the 64-bit version of openNLP. So I guess I must repose my question: Will this always be the case? That is, will a 64-bit version of a package always run OK in 32-bit R? Thanks, Richard On Mon, 26 Oct 2009 08:45:15 -0400, Simon Urbanek wrote On Oct 26, 2009, at 2:42 AM, Richard R. Liu wrote: I'm running R 2.9.2 build 5464 on OS X 10.5.8. Having encountered memory allocation problems, I ran the problematic code in R64, the 64-bit version of the same build. When I attempt to load openNLP I receive the error message that the 32-bit version that I had been using does not run in R64. I understand that there is a 64-bit version of openNLP, and that it installs in R64 without problems. I am assuming, however, that packages installed by 32-bit R and those installed by 64-bit R land in the same place, because I can see the 32-bit packages in the package list of 64-bit R. So my question is, when I subsequently switch to R (32-bit), will 64-bit versions of packages run there? I'm trying to avoid constantly having to manually switch between 32- and 64-bit versions of packages. I'm assuming you're talking about the Leopard build -- in that case both 32-bit and 64-bit are part parts of the same R and package -- they are not a 'different package'. Please read about sub- architectures in R documentation to understand the details if you desire, but you are not supposed to switch anything. The only problems you can cause is to forget to upgrade your packages when you installed the Leopard build. Cheers, Simon -- Richard R. Liu Dittingerstr. 33 CH-4053 Basel Switzerland Tel.: +41 61 331 10 47 Email: richard@pueo-owl.ch ___ R-SIG-Mac mailing list R-SIG-Mac@stat.math.ethz.ch https://stat.ethz.ch/mailman/listinfo/r-sig-mac
Re: [R-SIG-Mac] Increase heap space of openNLP
Many thanks for your reply. I'm afraid I'm very new at all this. I really don't know where to set the Java parameter -Xmx. In most applications that are written in Java for the Mac, there is usually some way to set those parameters in the .plist of the app. I don't find any such section for R.app or R64.app. I have located the openNLP package in ~/Libraries/R/Library/2.9, but I don't see anything there. I obviously looked in R-help for increase heap space, etc., before posing the question. Could you be a bit more specific about where to set this parameter? Everything I do in R I do through the R GUI. Thanks, Richard On Mon, 26 Oct 2009 08:41:51 -0400, Simon Urbanek wrote On Oct 26, 2009, at 6:58 AM, Richard R. Liu wrote: I'm not sure whether this question belongs in this SIG or in the R- help mail list. I'm running R 2.9.2 Leopard version on a MacBook Pro 17 early 2009 laptop with OS X 10.5.8. Due to memory problems I am running the 64-bit version of R.app, R64. When I sentDetect I get a an out-of-memory Java heap space exception. How can increase the heap space to avoid this error? set -Xmx Java parameter (see java -X) Cheers, Simon -- Richard R. Liu Dittingerstr. 33 CH-4053 Basel Switzerland Tel.: +41 61 331 10 47 Email: richard@pueo-owl.ch ___ R-SIG-Mac mailing list R-SIG-Mac@stat.math.ethz.ch https://stat.ethz.ch/mailman/listinfo/r-sig-mac
Re: [R-SIG-Mac] Increase heap space of openNLP
On Oct 26, 2009, at 9:44 , Richard R. Liu wrote: Many thanks for your reply. I'm afraid I'm very new at all this. I really don't know where to set the Java parameter -Xmx. If the packages you use don't override default settings you can simply set (example for 2GB): options(java.parameters=-Xmx2g) If they do, you can make 100% sure that they won't be able to by running the following before loading any packages: library(rJava) .jinit(parameters=-Xmx2g) The above examples sets the heap to 2GB of memory -- but make sure you have that much memory otherwise Java won't accept it. On the command line (Terminal) type java -X to see the Java parameters you can set. Cheers, Simon In most applications that are written in Java for the Mac, there is usually some way to set those parameters in the .plist of the app. I don't find any such section for R.app or R64.app. I have located the openNLP package in ~/Libraries/R/Library/2.9, but I don't see anything there. I obviously looked in R-help for increase heap space, etc., before posing the question. Could you be a bit more specific about where to set this parameter? Everything I do in R I do through the R GUI. Thanks, Richard On Mon, 26 Oct 2009 08:41:51 -0400, Simon Urbanek wrote On Oct 26, 2009, at 6:58 AM, Richard R. Liu wrote: I'm not sure whether this question belongs in this SIG or in the R- help mail list. I'm running R 2.9.2 Leopard version on a MacBook Pro 17 early 2009 laptop with OS X 10.5.8. Due to memory problems I am running the 64-bit version of R.app, R64. When I sentDetect I get a an out-of-memory Java heap space exception. How can increase the heap space to avoid this error? set -Xmx Java parameter (see java -X) Cheers, Simon -- Richard R. Liu Dittingerstr. 33 CH-4053 Basel Switzerland Tel.: +41 61 331 10 47 Email: richard@pueo-owl.ch ___ R-SIG-Mac mailing list R-SIG-Mac@stat.math.ethz.ch https://stat.ethz.ch/mailman/listinfo/r-sig-mac
Re: [R-SIG-Mac] Increase heap space of openNLP
Excellent! Thank-you. On Mon, 26 Oct 2009 10:04:49 -0400, Simon Urbanek wrote On Oct 26, 2009, at 9:44 , Richard R. Liu wrote: Many thanks for your reply. I'm afraid I'm very new at all this. I really don't know where to set the Java parameter -Xmx. If the packages you use don't override default settings you can simply set (example for 2GB): options(java.parameters=-Xmx2g) If they do, you can make 100% sure that they won't be able to by running the following before loading any packages: library(rJava) .jinit(parameters=-Xmx2g) The above examples sets the heap to 2GB of memory -- but make sure you have that much memory otherwise Java won't accept it. On the command line (Terminal) type java -X to see the Java parameters you can set. Cheers, Simon In most applications that are written in Java for the Mac, there is usually some way to set those parameters in the .plist of the app. I don't find any such section for R.app or R64.app. I have located the openNLP package in ~/Libraries/R/Library/2.9, but I don't see anything there. I obviously looked in R-help for increase heap space, etc., before posing the question. Could you be a bit more specific about where to set this parameter? Everything I do in R I do through the R GUI. Thanks, Richard On Mon, 26 Oct 2009 08:41:51 -0400, Simon Urbanek wrote On Oct 26, 2009, at 6:58 AM, Richard R. Liu wrote: I'm not sure whether this question belongs in this SIG or in the R- help mail list. I'm running R 2.9.2 Leopard version on a MacBook Pro 17 early 2009 laptop with OS X 10.5.8. Due to memory problems I am running the 64-bit version of R.app, R64. When I sentDetect I get a an out-of-memory Java heap space exception. How can increase the heap space to avoid this error? set -Xmx Java parameter (see java -X) Cheers, Simon -- Richard R. Liu Dittingerstr. 33 CH-4053 Basel Switzerland Tel.: +41 61 331 10 47 Email: richard@pueo-owl.ch -- Richard R. Liu Dittingerstr. 33 CH-4053 Basel Switzerland Tel.: +41 61 331 10 47 Email: richard@pueo-owl.ch ___ R-SIG-Mac mailing list R-SIG-Mac@stat.math.ethz.ch https://stat.ethz.ch/mailman/listinfo/r-sig-mac
