Fellow Expressionists, In running maDiagnPlots1 on the swirl test dataset, received the following error message: > maDiagnPlots1(swirl[,2], title="Swirl array 93: Diagnostic Plots", + save=TRUE, fname="swirl93.jpeg", dev="jpeg") Error in plot.new() : Figure margins too large I am running R1.8.0 Windows XP and marrayPlots 1.1.6 All of the previous marraPlots functions worked. I would appreciate any suggestions. Thanks and best wishes Rich ------------------------------------------------------------ Richard A. Friedman, PhD Associate Research Scientist Herbert Irving Comprehensive Cancer Center Oncoinformatics Core Lecturer Department of Biomedical Informatics Box 95, Room 130BB or P&S 1-420C Columbia University 630 W. 168th St. New York, NY 10032 (212)305-6901 (5-6901) (voice) friedman@cancercenter.columbia.edu http://cancercenter.columbia.edu/~friedman/ "In slumberland there are 100 kinds of halavah and you have to eat every one." -Rose Friedman, age 7

Hi Richard, Thank you for pointing this out, this is a bug on our end. I will fix this soon, for the moment, you might want to modified the frist few lines of the function as follow: maDiagnPlots1mod <- function (mraw, title = NULL, save = TRUE, fname = paste(as.character(maLabels(maTargets(mraw))[1]), ".ps", sep = ""), dev = c("postscript", "jpeg"), ...) { opt <- list(...) mraw <- mraw[, 1] mnorm <- maNorm(mraw, norm = "p") if (save == TRUE) do.call(dev, c(list(fname), opt)) ## the rest is the same as before Then use maDiagnPlots1mod(swirl[,2], width=1000, height=1000, dev="jpeg") Hope this help. I will incoporate the bug-fix soon. Cheers Jean ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ Jean Yee Hwa Yang jean@biostat.ucsf.edu Division of Biostatistics, Tel: (415) 476-3368 University of California, Fax: (415) 476-6014 500 Parnassus Avenue, MU 420-W, San Francisco, CA 94143-0560 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ On Fri, 7 Nov 2003, Richard Friedman wrote: > Fellow Expressionists, > > In running maDiagnPlots1 on the swirl test dataset, > received the following error message: > > > maDiagnPlots1(swirl[,2], title="Swirl array 93: Diagnostic Plots", > + save=TRUE, fname="swirl93.jpeg", dev="jpeg") > Error in plot.new() : Figure margins too large > > I am running R1.8.0 Windows XP and marrayPlots 1.1.6 > All of the previous marraPlots functions worked. > I would appreciate any suggestions. > > Thanks and best wishes > Rich > ------------------------------------------------------------ > Richard A. Friedman, PhD > Associate Research Scientist > Herbert Irving Comprehensive Cancer Center > Oncoinformatics Core > Lecturer > Department of Biomedical Informatics > Box 95, Room 130BB or P&S 1-420C > Columbia University > 630 W. 168th St. > New York, NY 10032 > (212)305-6901 (5-6901) (voice) > friedman@cancercenter.columbia.edu > http://cancercenter.columbia.edu/~friedman/ > > "In slumberland there are 100 kinds of halavah and you > have to eat every one." -Rose Friedman, age 7 > > _______________________________________________ > Bioconductor mailing list > Bioconductor@stat.math.ethz.ch > https://www.stat.math.ethz.ch/mailman/listinfo/bioconductor >