similar to: Request for users of my R-Tcl/Tk examples, limmaGUI or affylmGUI

Seems unlikely that that particular bug is involved. I seem to recall some change related to inadvertent variable capture in .TkRoot$env (?). At any rate, we currently have > parent.env(.TkRoot$env) <environment: R_EmptyEnv> which used to be > parent.env(.TkRoot$env) <environment: R_GlobalEnv> as a result, this won't work any more because R_EmptyEnv has no operators and

Thanks Peter and Dan for your replies. After learning a bit more about tcltk and environments etc. I have replaced Try(n <- evalq(TclVarCount <- TclVarCount + 1, .TkRoot$env)) with Try(n <- .TkRoot$env$TclVarCount <- .TkRoot$env$TclVarCount +1L) as you suggest. It now works for both R-3.1.1 and R-3.1.2+ (My understanding is that the Try function is there to put a GUI box

I maintain the package affylmGUI. It works when installed on many previous versions of R. I have today tested exactly the same code under R-2.15.3, R-3.0.2, R-3.1.0, R-3.1.1, R-3.1.2 and R-devel. I have also tested the versions of affylmGUI downloaded by biocLite for each version of R and the same result applies. I have no errors under 2.15.3, 3.0.2, 3.1.0 and 3.1.1. The following error

I am the maintainer of a Bioconductor package (affylmGUI) which uses tcltk. It freezes inconsistently on MS Windows, but not Mac or Unix. see details below. After considerable testing I have reduced the problem from a few thousand lines of code to 30 lines! If you paste the following lines of code into an R window: testGUI <- function(){ require(tcltk) MainWindow <-

Hi, I am trying to run affylmGUI on my mac computer. I have already installed the Tlc package as well as Bwidgets through ActiveTcl conversion installing files. However, when running affylmGUI() on R, I keep getting the message in the attached file. I have copied the tcl folders from the root library to the user library, and have obtained the same issue. I would really appreciate if

Hi everyone. I installed affylmGUI and oneChannelGUI package on R 2.7.1 with the latest version of BioC. After I start R, I do get an error that says "Error in loadNamespace(name) : there is no package called 'affylmGUI'" and a pop-up window with a message "fatal error : unable to restore saved data in .Rdata". I would really appreciate your suggestions on how to fix

Hello, In limmaGUI, after running a linear model for a single gene & time point (mutant vs control), the venn-diagram for differentially expressed genes with a p-value cut-off gives a different number than the top-table with the same cut-off (2600 vs. 791). I have seen the same thing happen before for multiple time points (when the venn-diagram is more relevant) Any ideas what is going on?

Full_Name: Edoardo Giacopuzzi Version: 2.0.1 OS: Windows XP Home Submission from: (NULL) (80.181.65.157) I have some problem with this new version of R GUI. I've used limmaGUI package with an older version of R and it works perfectlly, but now with the last version R 2.0.1.0 two error boxs appear every time I try to launch this package: 1. <<Error in list.files(path, pattern,

I have been trying to use the package affylmGUI but keep getting the error message that it cannot find the package "Bwidget". I have downloaded the activeTcl for Windows and installed it in the default location C:\Tcl. The problem still persists. I have also tried to copy the files from C:\Tcl\lib into the C:\Arquivos de programas\R\R-2.6.1\Tcl\lib but the problem still there. Any help

Dear all, I have a question about limmaGUI that is usually run in R environment. My problem is loading data into the programm. I have 6 gpr files that apparently are not compatible with limma. Everytime I'm trying to load the data (including a RNA targets file, an error appears:Error reading files. that I'm not sure,but seems to have something to do with the format of my files

Hi, Can anyone help me of the affylmGUI package, I can't get it work and searched for google but can't find any proper solutions. I get the error information each time when I load my cells files, which are shown in the following links. ------------- http://clarezoe.googlepages.com/1.png http://clarezoe.googlepages.com/2.png http://clarezoe.googlepages.com/3.png ------------- Errors also

Greetings! The Bioconductor core group would like to announce the 5th release of Bioconductor, version 1.4. There are many new packages as well as several major upgrades and fixes in older packages, and users are encouraged to upgrade existing tools and check out the new packages. Release 1.4 is intended to be operated with R version 1.9.x, which can be obtained at CRAN

Hi all, I'm working on microarray and currently analyzing the microrarray data using limmaGUI. Loop design has been applied in this experiment. This is a 2X2 factorial experiment where there are control and treatment at 2 different time points, week 6 and 9. The experimental design is almost the same as the limmaGUI work example: Weaver Data set. I would like to look at the effect of

Hello everyone, this is my first post here and I hope I signed up correctly and someone will take me by the hand and help me out. I am new to R and cannot figure out what to do here... ... I want to have an User Interface that requests input. I want to save this input to a variable to use it later on. I was able to do this with a modalDiaglog (

Hi, I'm using rw2000dev.exe (Win32) built on August 14. If this isn't already planned, can I suggest that when checkS3methods() (called by R CMD check) fails because of a syntax error in a dependent package listed in the DESCRIPTION file of the main package being checked, it would be nice if checkS3methods() reported which dependent package caused it to fail? Running R CMD check on my

Hello, I'm trying to install oneChannelGui on my computer. For this purpose, I've tried to carefully follow the manual, and done the following: 1. I've installed the Affy power tools 2. I've installed TCL from http://www.activestate.com/Products/ActiveTcl/ (by following the link at the right side of the page, and installing activeTCL8.5.0.0) Nonetheless, when I try running

Hi Duncan, just noticed that after installing the Windows R-2.13.0 build there is no i386 directory in the R-2.13.0dev/bin directory and hence no Rgui.exe. Is this intentional with the devel version? I downloaded from http://cran.ms.unimelb.edu.au/, where it says: "This is a combined Windows 32/64 bit binary build of the 2010-11-27 r53672 development snapshot of R (which will eventually

I am runninng rsync on Ubuntu. It was installed using apt-get install rysnc. I note that the package has not yet been updated to rysnc 3.0. I would like to update using the tar but I am confused how to update the existing installation. On this machine, I am mainly using rsync to send to a cwrsync server (which I have updated already). Can I just overwrite the rsync executable? Any help

Is there a reason I get the following strange characters in my log file? 2008/08/29 19:48:13 [7138] Number of files: 42321 2008/08/29 19:48:13 [7138] Number of files transferred: 78 2008/08/29 19:48:13 [7138] Total file size: +)*)/.+),00//,+)),( bytes 2008/08/29 19:48:13 [7138] Total transferred file size: +)*)/.+),(*0,+-.,0' bytes 2008/08/29 19:48:13 [7138] Literal data: -+,((0),' bytes

[Reposted by R-announce-owner because of R-announce protection. Guido is subscribed under a different E-mail..] I have made available in the 'Contributed R code | Devel' section of CRAN (in this moment only at Wien) two new packages: 'tcltk': this package let to create and use tcl/tk interpreters from R. The tcl interpreters have an additional command