Calling R from Java (trying the R interface to Omegahat and Java)
Michael Kubovy <kubovy at virginia.edu> writes:
Dear R-helpers, I run R version 2.8.1 (2008-12-22) on i386-apple-darwin8.11.1 I would like to call R from Java. I downloaded SJava_0.69-0.tar.gz, and then issued the command suggested on http://www.omegahat.org/ RSJava/ :
Others will point you to rJava http://www.rforge.net/rJava/ which might well be a good solution for you; if you have reasons for using SJava, then the currently maintained version is at https://hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/SJava accessible using 'svn' and the instructions at http://wiki.fhcrc.org/bioc/SvnHowTo It has not been tested recently on a mac...
% R INSTALL -c SJava_0.69-0.tar.gz
This should be R CMD INSTALL --clean SJava_0.69-0.tar.gz
ARGUMENT 'INSTALL' __ignored__ WARNING: unknown option '-c' ARGUMENT 'SJava_0.69-0.tar.gz' __ignored__ I then tried % R CMD INSTALL SJava_0.69-0.tar.gz * Installing to library '/Library/Frameworks/R.framework/Resources/ library' * Installing *source* package 'SJava' ... checking for java... /usr/bin/java Java VM /usr/bin/java checking for javah... no
you require the JDK (Java Development Kit), not just the JRE (Java Runtime Environment); if you've got the right software installed, you should be able to find the program 'javah' on your system. Hope that helps, Martin
Sorry. We can currently only configure this package for IBM, Blackdown or Sun's Java implementation ERROR: configuration failed for package 'SJava' ** Removing '/Library/Frameworks/R.framework/Resources/library/SJava' Can someone tell me what I'm doing wrong? Since this is a matter of some urgency, I would be grateful if you also cc-ed my email address.
_____________________________ Professor Michael Kubovy University of Virginia Department of Psychology Postal Address: P.O.Box 400400, Charlottesville, VA 22904-4400 Express Parcels Address: Gilmer Hall, Room 102, McCormick Road, Charlottesville, VA 22903 Office: B011; Phone: +1-434-982-4729 Lab: B019; Phone: +1-434-982-4751 WWW: http://www.people.virginia.edu/~mk9y/ Skype name: polyurinsane [[alternative HTML version deleted]] ______________________________________________ R-help at 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.
Martin Morgan Computational Biology / Fred Hutchinson Cancer Research Center 1100 Fairview Ave. N. PO Box 19024 Seattle, WA 98109 Location: Arnold Building M2 B169 Phone: (206) 667-2793