Re: [R] [R-sig-hpc] Quickest way to make a large empty file on disk?
Jonathon, 10,000 numbers is pretty small, so I don't think time will be a big problem. You could write this using writeBin with no problems. For larger files, why not just use a loop? The writing is pretty fast, so I don't think you'll have too many problems. On my machine: ptm - proc.time() zz - file(testbin.bin, wb) for(i in 10) writeBin(rep(0,1),zz, size=16) close(zz) proc.time() - ptm user system elapsed 2.416 1.728 16.705 Otherwise I would suggest writing a little piece of c code to do what you want. Robert -Original Message- From: r-sig-hpc-boun...@r-project.org [mailto:r-sig-hpc-boun...@r-project.org] On Behalf Of Jonathan Greenberg Sent: Thursday, 3 May 2012 8:24 AM To: r-help; r-sig-...@r-project.org Subject: [R-sig-hpc] Quickest way to make a large empty file on disk? R-helpers: What would be the absolute fastest way to make a large empty file (e.g. filled with all zeroes) on disk, given a byte size and a given number number of empty values. I know I can use writeBin, but the object in this case may be far too large to store in main memory. I'm asking because I'm going to use this file in conjunction with mmap to do parallel writes to this file. Say, I want to create a blank file of 10,000 floating point numbers. Thanks! --j -- Jonathan A. Greenberg, PhD Assistant Professor Department of Geography and Geographic Information Science University of Illinois at Urbana-Champaign 607 South Mathews Avenue, MC 150 Urbana, IL 61801 Phone: 415-763-5476 AIM: jgrn307, MSN: jgrn...@hotmail.com, Gchat: jgrn307, Skype: jgrn3007 http://www.geog.illinois.edu/people/JonathanGreenberg.html [[alternative HTML version deleted]] ___ R-sig-hpc mailing list r-sig-...@r-project.org https://stat.ethz.ch/mailman/listinfo/r-sig-hpc -- The information in this email together with any attachments is intended only for the person or entity to which it is addressed and may contain confidential and/or privileged material. There is no waiver of any confidentiality/privilege by your inadvertent receipt of this material. Any form of review, disclosure, modification, distribution and/or publication of this email message is prohibited, unless as a necessary part of Departmental business. If you have received this message in error, you are asked to inform the sender as quickly as possible and delete this message and any copies of this message from your computer and/or your computer system network. __ R-help@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide http://www.R-project.org/posting-guide.html and provide commented, minimal, self-contained, reproducible code.
[R] compiling 2.6.2 using icc
I am having trouble compiling R-2.6.2 on suse linux x86_64 using the intel compiler. I read section C.2.1 Intel compilers in the R Installation and Administration manual, and put CC=icc CFLAGS=-g -O3 -wd188 -ip F77=ifort FFLAGS=-g -O3 ICC_LIBS=/opt/intel/cce/10.1.012/lib IFC_LIBS=/opt/intel/fce/10.1.012/lib/ LDFLAGS=-L$ICC_LIBS -L$IFC_LIBS -L/usr/lib64 CXX=icpc CXXFLAGS=-g -O3 FC=ifort FCFLAGS=-g -O3 -mp in my config.site. Everything seems to compile alright, up until making the recommended package MASS. The output below shows that it is using gcc rather than icc when compiling the package, and the CFLAGS wd188 and ip . How do I get it to use icc for both building R and building the packages? Robert .. make[2]: Entering directory `/opt/freewaresrc/R/R-2.6.2/src/library/Recommended' begin installing recommended package VR * Installing *source* package 'MASS' ... ** libs make[3]: Entering directory `/tmp/R.INSTALL.Z28650/VR/MASS/src' gcc -I/opt/freewaresrc/R/R-2.6.2/include -I/opt/freewaresrc/R/R-2.6.2/include -I/usr/local/include -mp -fpic -g -O3 -wd188 -ip -c lqs.c -o lqs.o gcc: unrecognized option '-wd188' cc1: error: unrecognized command line option -ip cc1: error: unrecognized command line option -mp make[3]: *** [lqs.o] Error 1 make[3]: Leaving directory `/tmp/R.INSTALL.Z28650/VR/MASS/src' ERROR: compilation failed for package 'MASS' ** Removing '/opt/freewaresrc/R/R-2.6.2/library/MASS' ** Removing '/opt/freewaresrc/R/R-2.6.2/library/class' ** Removing '/opt/freewaresrc/R/R-2.6.2/library/nnet' ** Removing '/opt/freewaresrc/R/R-2.6.2/library/spatial' make[2]: *** [VR.ts] Error 1 make[2]: Leaving directory `/opt/freewaresrc/R/R-2.6.2/src/library/Recommended' make[1]: *** [recommended-packages] Error 2 make[1]: Leaving directory `/opt/freewaresrc/R/R-2.6.2/src/library/Recommended' make: *** [stamp-recommended] Error 2 The information in this email together with any attachments is intended only for the person or entity to which it is addressed and may contain confidential and/or privileged material. Any form of review, disclosure, modification, distribution and/or publication of this email message is prohibited, unless as a necessary part of Departmental business. If you have received this message in error, you are asked to inform the sender as quickly as possible and delete this message and any copies of this message from your computer and/or your computer system network. __ R-help@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide http://www.R-project.org/posting-guide.html and provide commented, minimal, self-contained, reproducible code.
