similar to: make error: X11/Intrinsic.h: No such,,,

I'm working on some heatmaps, and the person I'm working with would prefer a red-black-green color palette (red denoting gene induction and green denoting gene repression). Does such a palette exist already? If not, is there an easy way to create one? Thanks, Jake

Hi all, I've got a set of gene expression data, and I'm plotting several heatmaps for subsets of the whole set. I'd like the heatmaps to have the same color distribution, so that comparisons may be made (roughly) across heatmaps; this would require that the color distribution and distance functions be based on the entire dataset, rather than on individual subsets. Does

--=-=-= Content-Type: text/plain; charset=utf-8 Content-Transfer-Encoding: quoted-printable Hi, I think I have found a very little bug in the new version of the X11() device in R 2.7.0, more precisely in the devX11.c file. The problem is that when you open a new window with X11(), the title of the window (the WM_NAME property) is not immediately set. It seems that the window is created, then it

I did a very quick search of the archive and couldn't find a readily available answer to this one: I'd like to convert, for example: c("a", "b", "a", "b") to c(1, -1, 1, -1) In the case of the first vector, it may be any length, but will always only have two unique values. It must always be replaced by corresponding values of 1 and -1. Any

Hin-Tak Leung wrote: > Peter Dalgaard wrote: > <snipped> >> You need x11() with a valid display to trigger the bug: >> >> [pd at titmouse2 BUILD]$ ssh -Y 192.168.1.10 >> pd at 192.168.1.10's password: >> Last login: Sat Oct 27 02:40:16 2007 from 192.168.1.11 >> [pd at janus ~]$ echo $DISPLAY >> localhost:10.0 >> [pd at janus ~]$

I've been using R for a while under Mac OS X, which thanks to the R on OS X developers, is probably the best platform for learning R. I recently built a Linux box with a Pentium D processor, and am running an AMD64 port of Ubuntu with the SMP kernel. After setting up the basics on the box, I thought I'd install R as well. I've had a very hard time finding good documentation

I've been using R for a while under Mac OS X, which thanks to the R on OS X developers, is probably the best platform for learning R. I recently built a Linux box with a Pentium D processor, and am running an AMD64 port of Ubuntu with the SMP kernel. After setting up the basics on the box, I thought I'd install R as well. I've had a very hard time finding good documentation

Hi all, I would like to be able to call a custom function automatically before plot.new() is called (more specifically, before a new plot is created on the current graphics device). Recently I've been poking around in the help files of some of the low(er) level plotting functions, and I seem to remember something saying that you could somehow add a setting to call a function immediately

Hi, I have problems compiling R 2.2.0 under AIX 4.3 with GCC and xlf95 (FORTRAN) Compilers. here the error message I got: make[1]: Entering directory `/home/mau/sy/R-2.2.0/src/modules/X11' make[1]: `Makedeps' is up to date. make[1]: Leaving directory `/home/mau/sy/R-2.2.0/src/modules/X11' make[1]: Entering directory `/home/mau/sy/R-2.2.0/src/modules/X11' /usr/local/bin/gcc

Hi, I am trying to put some graphics I have generated from R on a webpage using dev2bitmap to create a bitmap, .BMP, file. When I look at my notes from 2 or 3 months ago I was successfully able to put the ACTIVE device plot result into a bitmap file using a command such as: dev2bitmap("InsectSpray.BMP") Job done! Now when I try the same command, I get the following: >

Hi, I have just tried to upgrade our AIX-machines to R-0.64.0 and encountered some problems which, I think, are not AIX-specific. 1) The static variable class in "devX11.c" conflicts with a function class() defined in math.h (using egcs-2.93.11). Therefore compilation stops with an error message. 2) After renaming class to Visualclass in devX11.c everything looks fine and an R binary

Does anyone know how to extract residuals in lmer? Here's the error I get: > crop.lme=lmer(response~variety*irrigation*pesticide+(1|rep)+(1|rep: pesticide)+(1|rep:pesticide:irrigation), crop.data) > qqnorm(crop.lme) Error in qqnorm.default(crop.lme) : y is empty or has only NAs > resid(crop.lme) NULL Thanks! --Jake

Hi, Can anyone please advise if there is a neat way to 'share' libraries of (previously developed) S+ code with R? Specifically, within S+ I can use the attach(what = "<Chapter Directory>", pos = 2) command, to retrieve previously developed functions and variables to position 2 in the search list. [Some may be intentionally masked by what's in the current working

Hi there, I think I have found a small problem in the "/my/path/R-2.0.1/src/modules/X11/MakeFile" generation. During the configure step, I have specified a specific JPEG library by exporting CPPFLAGS variable. All compilation works well for individual files in the src/modules/X11/ directory, but when linking, the -ljpeg option doesn't work. I obtain the following message (in french

Hi all, I've been using R for a while, but was puzzled when I just barely noticed this behavior: > x <- 1:10 > names(x) <- c("a","b","a",letters[1:7]) > x a b a a b c d e f g 1 2 3 4 5 6 7 8 9 10 > x["a"] a 1 ... that is, if a vector has identical (and therefore ambiguous) names, it only returns the first

Hello all, This is my first time posting, so forgive my ignorance. I've searched high and low but haven't come across the specific answer to my questions. configure runs fine, then make gives this error: ... gcc -shared -L/usr/local/lib -o R_X11.so dataentry.lo devX11.lo rotated.lo rbitmap.lo -L/usr/X11R6/lib -lX11 -ljpeg -lpng -lz -lreadline -ldl -lncurses -lm /usr/bin/ld:

Hi, I'm working on a frontend for R. I have R running in a separate thread in my application using Rf_initEmbeddedR, and I'm using R_tryEval to run commands in R (i.e. I don't run the mainloop). Everything works fine, except the x11-device: I can open x11-windows and paint to them alright from R. However, the x11-window does not respond to any events. E.g. clicking the

I have done a little bit of poking around at the bug that I reported earlier (steep slopes and lines from far outside the plot range doing funny things), and have tracked it down to the fact that, as noted in the Unix man page, XDrawLine[s] doesn't like coordinates that are outside of the range of (-32767,32767). Now the question is, what to do about this? A quick "fix" (not a fix

doKeybd() gets called in CHelpKeyIn() and NHelpKeyIn() in library/grDevices/src/devWindows.c, where the call is encapsulated in an 'if (dd->gettingEvent)' block. So the only times this code ever calls doKeybd() is when gettingEvent is in fact set. Further, it's called in two locations in X11_eventHelper(), in modules/X11/devX11.c, where the state of gettingEvent seems to be moot

Hi all, Does anyone know of a fairly easy way to "stretch" a heatmap vertically? I've got 42 arrays and would like to be able to see as many significant genes as possible (right now I can only get 50 genes with it still being readable). In some comparisons there are several hundred significant genes. I've fiddled with the "asp" argument, but that doesn't