http://blog.gmane.org/gmane.emacs.ess.general hourly 1 1901-01-01T00:00+00:00 http://gmane.org/img/gmane-25t.png http://gmane.org http://comments.gmane.org/gmane.emacs.ess.general/3182 Hello, We're experiencing a strange problem here using xemacs + ESS on an Altix with itaniums. When we run via ESS (eval line or eval region) a R command that is not instaneous (say >= 30 seconds), the iESS window freezes with the following error message : "Process R hangup at Fri Oct 3 14:12:19 2008" I have no idea from where it comes "I tried so grep for the word "hangup"in the whole src tree of xemacs, R and ESS without any success. The problem is reproducible with the following commands : library(affyPLM); load("data.affyBatch.rda") data.affyBatch.plm <- fitPLM(data.affyBatch, model=PM~-1+probes+samples); it's the last command the produces the error after a few tens of seconds. The very same commands on another linux box run just fine. Here're the details of the computer : Altix with 1.6 Ghz Itanium 2 cpus, running SUSE LINUX Enterprise Server 9 (ia64) I tried various xemacs 21.4.x versions, including the last one. And two versions of ESS. Someone has any clue of what could cause this problem, karl FORNER 2008-10-03T12:53:51 http://comments.gmane.org/gmane.emacs.ess.general/3178 Hallo, out there! I am running GNU Emacs/ESS on a remote Unix Server using an X Window client on my local Mac OS X system. After the X-Window containing Emacs crashed there's still a R process running doing some heavy computing. How can I resume this R process and catch the results? Can I start Emacs/ESS again and reconnect to this R process? Thanks in advance, Will ______________________________________________ ESS-help< at >stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/ess-help schimpanski< at >gmx.de 2008-10-01T15:19:38 http://comments.gmane.org/gmane.emacs.ess.general/3174 Hello, I am an R user migrating from Windows to Linux and have started using ESS (a matter of hours ago).  My R style working style leans heavily towards from source files (in one window) and pasting code into R (GUI) for execution.  TINN was a good friend in this regard and engrained a heavy reliance on mouse work in me.  I.e., highlight --> right click /copy --> right click/paste    or     highlight --> press button to eval.  Working in Xemacs/ESS (under Linux and Windows) has made me feel a little clumsy as I automatically use old habits with no results! May I shamelessly (not having digested the EMACS manual) ask a basic question? (1)  ESS (or is it emacs) changes the font color of text between quotation marks to a light grey which strains my eyes enourmously!  I have not been able to locate this parameter in the options.  Can someone point me in the right direction? (2)  C-c <ret> copies input    ...but what pastes input (analagous to C-v in many applications) ?   I understand Derek Eder 2008-09-26T10:28:55 http://comments.gmane.org/gmane.emacs.ess.general/3171 Hi All, I am using R version 2.7.2, XEmacs version 21.4 and ESS version 5.3.8, but I've had this behaviour before. Upon starting XEmacs and R, I usually load several functions, using the .Rprofile startup files. Sometimes, there is an error in one of the functions being loaded at this stage (often because they were incomplete from last session), and what happens is that I get an "error Timeout waiting for prompt. Check inferior-ess-prompt or ess-loop-timeout". I started XEmacs with the --debug-init option, but the -debug-init buffer comes completely empty. My problem is that when this happens I lose the R prompt, and I cannot find out how to regain access to R. I tried the C-g suggestion (many times) but it does not work. I would really appreciate any assistance. Pedro Pedro Barros 2008-09-23T09:49:22 http://comments.gmane.org/gmane.emacs.ess.general/3167 Hello, when I use emacs 22 with ess under Debian Lenny, the R Buffer is not in the right decoding form. I use the german version and the "Umlaute" are not rightly written. How can I change the decoding for that? Bests, Ralph ______________________________________________ ESS-help< at >stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/ess-help Ralph Scherer 2008-09-14T09:37:05 http://comments.gmane.org/gmane.emacs.ess.general/3165 Emacs users can get a new release of Emacs today -- nothing major, as this is a bug fix release. (I think most attention will now turn to Emacs 23, which offers antialiased text, at last... I've routinely been using this for several months, and its stable under my usage. See emacswiki.org if you want more info about getting Emacs to use antialiased text.) Stephen ---------------------------------------------------------------------- Subject: Emacs 22.3 released Newsgroups: gnu.emacs.announce To: info-gnu-emacs< at >gnu.org Date: Sat, 06 Sep 2008 12:24:04 -0400 GNU Emacs 22.3 has been released, and is now available at ftp.gnu.org/gnu/emacs/ and the GNU FTP mirrors (see http://www.gnu.org/order/ftp.html). The MD5 check-sum for the source tarball is: aa8ba34f548cd78b35914ae5a7bb87eb emacs-22.3.tar.gz Please send any bug reports to bug-gnu-emacs< at >gnu.org. Within Emacs, you can do this using the command M-x report-emacs-bug. Emacs 22.3 is a bugfix release. ______________________________________________ E Stephen Eglen 2008-09-09T17:33:36 http://comments.gmane.org/gmane.emacs.ess.general/3150 I am looking for a good way to specify something in .emacs for Emacs such that when I have a .r source file opened, hitting Esc R will split the window into two buffers and start the R process in the lower buffer. I find myself always doing Cntl-X-2 and then having to put foo.r back into the upper buffer. Tony Rossini outlined the following: (defun myR () (interactive) (if (= (major-mode 'current-buffer) 'R-mode) (split-window)) (R) (put-cursor-other-window)) which would be invoked with M-x myR. If anyone knows how to complete that code including the spellings of the correct function calls, or has another idea I'd appreciate hearing about it. I have already put (setq ess-ask-for-ess-directory nil) in my .emacs to bypass the selection of the working directory. Thanks Frank Frank E Harrell Jr 2008-09-07T16:06:09 http://comments.gmane.org/gmane.emacs.ess.general/3143 *>* --text follows this line-- *>* *>* I was able to run ess stata before, but it stopped working since *>* yesterday. It repports: "/usr/bin/env: stata: No such file or *>* directory", and "Error in post-command-hook: (void-variable *>* infereior-ess-font-lock-keywords)... *>* *>* Please help... Thank you so much! *>* *>* Emacs : GNU Emacs 22.1.1 (x86_64-pc-linux-gnu, GTK+ Version 2.12.9) *>* of 2008-05-02 on king, modified by Ubuntu *>* Package: ess-mode 5.3.0 *>* *>* current state: *>* ============== *>* (setq *>* ess-language "STA" *>* ess-dialect "Stata" *>* ess-ask-for-ess-directory t *>* ess-ask-about-transfile nil *>* ess-directory nil *>* ess-keep-dump-files "always" *>* ess-source-directory "/tmp/" *>* ) *>* [ess-site.el]: ess-customize-alist=nil *>* [ess-site.el _2_]: ess-customize-alist=nil *>* (S): ess-s-versions-create making M-x defuns for (R): ess-r-versions-create *>* making M-x defuns for (STA): ess-dialect=nil , buf=*scratch* *>* (inferior-ess 0): ess-start-args=TERM=emacs sta XIANG AO 2008-09-04T20:58:19 http://comments.gmane.org/gmane.emacs.ess.general/3138 ess-swv-PDF fails on Windows because it tries to launch a bash shell in order to open a pdf reader. Replacing this line: (shell-command (concat pdfviewer " " namestem ".pdf &"))) with (w32-shell-execute "open" (concat namestem ".pdf") nil 1)) fixes the problem for me. Obviously there needs to be some kind of (if-i-am-running-mswindows () ()) check here too. Sincerely, Kevin Wright ______________________________________________ ESS-help< at >stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/ess-help Kevin Wright 2008-09-03T21:08:18 http://comments.gmane.org/gmane.emacs.ess.general/3136 Subject: ess-mode 5.3.0; ess stata won't start --text follows this line-- I was able to run ess stata before, but it stopped working since yesterday. It repports: "/usr/bin/env: stata: No such file or directory", and "Error in post-command-hook: (void-variable infereior-ess-font-lock-keywords)... Please help... Thank you so much! Emacs : GNU Emacs 22.1.1 (x86_64-pc-linux-gnu, GTK+ Version 2.12.9) of 2008-05-02 on king, modified by Ubuntu Package: ess-mode 5.3.0 current state: ============== (setq ess-language "STA" ess-dialect "Stata" ess-ask-for-ess-directory t ess-ask-about-transfile nil ess-directory nil ess-keep-dump-files "always" ess-source-directory "/tmp/" ) [ess-site.el]: ess-customize-alist=nil [ess-site.el _2_]: ess-customize-alist=nil (S): ess-s-versions-create making M-x defuns for (R): ess-r-versions-create making M-x defuns for (STA): ess-dialect=nil , buf=*scratch* (inferior-ess 0): ess-start-args=TERM=emacs stata ess-setq-vars-default 0: ess-language=Initial, -dialect=nil, b XIANG AO 2008-09-03T16:20:35 http://comments.gmane.org/gmane.emacs.ess.general/3134 ng, I'm using an ssh session with ess-remote to run R on a dedicated machine on our network. Since my computer is a laptop, and I sometimes start tedious batch jobs on the R-Server, I was wondering if it is possible to leave an ess-remote/ssh process open on the server side, unplug my laptop, and plug it in the next day and pick up the ess-remote/ssh process where I left it? ______________________________________________ ESS-help< at >stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/ess-help Stefan Petersson 2008-09-03T18:44:18 http://comments.gmane.org/gmane.emacs.ess.general/3133 My heartfelt thanks to whomever added the ess-swv-* functions to ESS - you have saved me a great deal to time and energy. As can be imagined, many of the Sweave documents that I write require loading the Matrix and lme4 packages when running Sweave on them and it takes some time to load the lme4 package in a fresh R process. The first time that I ran M-x ess-swv-weave on one of my Sweave documents I thought I had done something wrong because it completed so quickly. It took me a while to realize that ess-swv-weave used my existing ESS R process which already has the Matrix and lme4 packages loaded. It was a sort of "Well, duh!" moment for me as I though, "why didn't I think of that?". I'm very glad that someone else did think of using the existing process. ______________________________________________ ESS-help< at >stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/ess-help Douglas Bates 2008-09-01T14:49:18 http://comments.gmane.org/gmane.emacs.ess.general/3123 I have now spent several hours trying to find out how to do something that I feel should have taken me just a few minutes and I still have no idea how to accomplish this. My computer at work is quarantined behind a firewall because I run Ubuntu on it and not the approved and supported version of RHEL 5. The only way I can connect to other computers inside the department is through ssh and preferably with kerberos authentication. If I want to connect from a terminal I should run ssh -K -Y desk00.stat.wisc.edu Emacs 22 for Ubuntu has tramp and telnet as part of the system and the tramp documentation tells you all about connections with ssh to edit files on remote machines. Similarly ESS describes using ess-remote. However, I feel that I am missing out on something terribly obvious because after a few hours of reading documentation and source code I still have not found out what I can do to create an ssh connection to another machine. The ESS documentation lists an ftp site for an ancient elisp file ssh.e Douglas Bates 2008-08-27T15:23:23 http://comments.gmane.org/gmane.emacs.ess.general/3121 Hi, I'm getting some strange behaviour in the inferior process buffer when I try and use tab completion. It sometimes works just as you'd expect, i.e., if I have an object called erica in my workspace, er<tab> produces erica. But erica is a dataframe, with several columns that start with 's'. erica$s<tab> doesn't give me any completions, but rather the minibuffer is filled with ten lines of lisp code, beginning with "(quote string-less-p)))" This happens when I try and get the arguments for a function, built-in R commands, or objects I've created in my workspace, but not consistently. I get the same behaviour in a script buffer. A quick check reveals that I can get completion of erica (my dataframe) but not the columns of the dataframe, read.table, cmdscale, but not for plot or points. Trying again, I see that read.t<tab> gives me the completion, but read.table<tab> gives me the funny mini-buffer message. Any idea what might be the cause of this? I'm using ESS version 5.3.8, svn revision 3944, with ess-e tyler 2008-08-26T17:08:28 http://comments.gmane.org/gmane.emacs.ess.general/3119 I have two things which are either enhancement requests or just me not doing the right thing. Both are related to the R help system. My examples below are for a S4 class from package Biobase, but it should be generally applicable. 1) S4 classes. If I do C-c C-v and try to find the help page on the class ExpressionSet, I can get the help page if I type "ExpressionSet- class", but not via TAB completion. If I (from the R command prompt) type ?"ExpressionSet-class" I get a normal help page buffer, but if I do class?ExpressionSet, the help is printed in the R buffer instead of its own window. 2) conflicting help pages. If I have two packages, both with a help page linking to the same term (an excellent example right now is the Bioconductor package "affy" and the help page for image), I used to get an annoying tcltk window popping up. It was annoying and slow, but worked. Recently I put the following in my Rprofile options(menu.graphics = FALSE) If I now do ?image from an R session, th Kasper Daniel Hansen 2008-08-07T17:37:37 http://comments.gmane.org/gmane.emacs.ess.general/3109 I use ess and emacs under windows xp. I use M-x R to start R in ESS. when I input install.packages("MASS"), only display --- Please select a CRAN mirror for use in this session ---, then nothing happens. Why? Have you ever happened to this questions? Thanks [[alternative HTML version deleted]] ______________________________________________ ESS-help< at >stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/ess-help xiaopeng hu 2008-08-07T02:26:22 http://comments.gmane.org/gmane.emacs.ess.general/3108 Hi, trying to update to ess version 5.3.8 and including it in "mysitelisp" worked fine. Until I updated my version control repository.. REQUEST: PLEASE refrain from including .svn directories (or other VC stuff such as .git, .hg, etc) in official RELEASES. The VC stuff is fine in development. Cheers, Patrick ______________________________________________ ESS-help< at >stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/ess-help Patrick Drechsler 2008-08-07T00:46:25 http://comments.gmane.org/gmane.emacs.ess.general/3105 My setup: GNU Emacs 22.2.1 (i386-mingw-nt5.1.2600), ESS 5.3.8, Windows XP Sometimes in my ESS help buffer I see: \221Character indices\222 instead of 'Character indices'. Is this normal? Is there a setting that controls this? I experimented with MULE settings, but that did not seem to have any effect. Thanks for any tips, Kevin ______________________________________________ ESS-help< at >stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/ess-help Kevin Wright 2008-08-05T17:54:01 http://comments.gmane.org/gmane.emacs.ess.general/3096 Hi list, I use GNU Emacs 22.2.1 (i386-mingw-nt5.1.2600) of 2008-03-26 on Windows XP and ESS Version 5.3.7, both downloaded from http://vgoulet.act.ulaval.ca/en/ressources/emacs/, and R version 2.7.1 for Windows. My problem is that Emacs cannot handle german umlaute as R variable names: Error: unexpected input in "\201" This does not occur in RGui.exe. I think this is more an emacs than ess problem, but maybe there are any suggestions. Thanks, Sven ______________________________________________ ESS-help< at >stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/ess-help enno_sandkasten< at >arcor.de 2008-07-31T09:17:38 http://comments.gmane.org/gmane.emacs.ess.general/3087 Our group uses emacs+ess to run R on a mac osx server (10.5.4). I have an unusual issue between two ESS settings. We standardly set transient-mark-mode t When I use the above setting with ess-eval-visibly-p nil the text in emacs get highlighted appropriately use C-x space and gets submitted properly using C-x c C-x r but the text in the emacs buffer satys highlighted as though it was never submitted. Is this an interaction between these two options. I would to be able to use these together. We are using R-2.7.1 and ess 5.3.7. Bill ______________________________________________ ESS-help< at >stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/ess-help William Knebel 2008-07-29T17:49:34 http://comments.gmane.org/gmane.emacs.ess.general/3086 Dear ESS experts, I am trying to run SUDAAN inside my SAS code. Without using ESS, I can use the following command to run SUDAAN correctly in the interactive SAS session: sas -path /usr/local/SUDAAN_90x/SAS-Callable & However, I cannot make it work in the SAS session inside XEmacs. Here are my settings: ;; ESS for SAS ;; (setq inferior-SAS-program-name "/usr/local/bin/sas9") ;'sh default (setq ess-sas-submit-pre-command "nohup") ;'sh default (setq ess-sas-submit-post-command "-rsasuser -path /usr/local/SUDAAN_90x/SAS-Callable &") ;'sh example (setq-default ess-sas-submit-command "/usr/local/bin/sas9") The SAS works as usual, but it could not find the SUDAAN procedures. I believe the -path options doesn't work as I expected. Could anyone help me with this please? Many thanks. Sincerely, Ken _________________________________________________________________ [[elided Hotmail spam]] ______________________________________________ ESS-help< at >stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/lis Ken 2008-07-29T18:04:13 Search the mailing list at Gmane query http://search.gmane.org/?group=$group=gmane.emacs.ess.general