Ouch Bert. Not patience for the newbies, I see. I know what ?anything means which is why I didn't ask about ?Startup. But being that I just recently discovered what Rprofile.site is I thought it might do something different within the start-up file and tried it both ways.
Besides I think what I really need is to just figure out as I said: I did however go to the Misc menu and select "List search path" and got the below results. Not exactly sure what it means but I do notice that several of the packages that popup at startup as being "masked" appear in this list. Maybe this is the problem? If so how do you take out what you don't need at startup? > search() [1] ".GlobalEnv" "package:stats" "package:graphics" "package:grDevices" "package:datasets" [6] "package:rattle" "package:R.utils" "package:utils" "package:R.oo" "package:R.methodsS3" [11] "package:methods" "Autoloads" "package:base" Dan From: Bert Gunter [mailto:gunter.ber...@gene.com] Sent: Monday, June 18, 2012 1:50 PM To: Lopez, Dan Cc: David Winsemius; R help (r-help@r-project.org) Subject: Re: [R] Error w/ Start up Script I gave you the references you need. It's up to you to read and understand how to use them. You apparently need to work harder to do so. BTW ?anything is an alternative way to type help("anything") at the command line for R's help pages. -- Bert On Mon, Jun 18, 2012 at 1:34 PM, Lopez, Dan <lopez...@llnl.gov<mailto:lopez...@llnl.gov>> wrote: Hi Bert, I tried entering: "?suppressPackageStartupMessages" and then "suppressPackageStartupMessages" into my Rprofile.site file and the messages still came up. I did however go to the Misc menu and select "List search path" and got the below results. Not exactly sure what it means but I do notice that several of the packages that popup at startup as being "masked" appear in this list. Maybe this is the problem? If so how do you take out what you don't need at startup? > search() [1] ".GlobalEnv" "package:stats" "package:graphics" "package:grDevices" "package:datasets" [6] "package:rattle" "package:R.utils" "package:utils" "package:R.oo" "package:R.methodsS3" [11] "package:methods" "Autoloads" "package:base" > 0 Thanks. Dan From: Bert Gunter [mailto:gunter.ber...@gene.com<mailto:gunter.ber...@gene.com>] Sent: Monday, June 18, 2012 1:10 PM To: Lopez, Dan Cc: David Winsemius; R help (r-help@r-project.org<mailto:r-help@r-project.org>) Subject: Re: [R] Error w/ Start up Script ?suppressPackageStartupMessages Put this into your appropriate startup file. ?Startup ## for details on starting R and what files are executed at startup. -- Bert On Mon, Jun 18, 2012 at 12:46 PM, Lopez, Dan <lopez...@llnl.gov<mailto:lopez...@llnl.gov>> wrote: David, Sorry I should have been more specific. They are not as much errors as they are extra script that is running at startup after "Type q() to quit R". It wasn't there before. And am thinking eventually it could become a problem. Thanks. Dan Here it is again...what it looks like when I first startup R (partial copy and paste): .... ... .. R is a collaborative project with many contributors. Type 'contributors()' for more information and 'citation()' on how to cite R or R packages in publications. Type 'demo()' for some demos, 'help()' for on-line help, or 'help.start()' for an HTML browser interface to help. Type 'q()' to quit R. Attempting to load the environment 'package:R.utils' R.methodsS3 v1.2.2 (2010-11-17) successfully loaded. See ?R.methodsS3 for help. R.oo v1.9.3 (2012-03-18) successfully loaded. See ?R.oo for help. Attaching package: 'R.oo' The following object(s) are masked from 'package:R.methodsS3': throw.default .. ... .... -----Original Message----- From: David Winsemius [mailto:dwinsem...@comcast.net<mailto:dwinsem...@comcast.net>] Sent: Monday, June 18, 2012 12:12 PM To: Lopez, Dan Cc: R help (r-help@r-project.org<mailto:r-help@r-project.org>) Subject: Re: [R] Error w/ Start up Script On Jun 18, 2012, at 11:25 AM, Lopez, Dan wrote: > I noticed about a couple weeks ago that my R start up script starting > showing the below errors, following the line "Type 'q()' to quit R" > I didn't see any errors reported. I didn't see any warnings, either. -- David. > Not sure what I did different and so far it hasn't caused major > problems but kind of fear that it will. > > Can you please help? > I also posted my Rprofile below. > > Attempting to load the environment 'package:R.utils' > R.methodsS3 v1.2.2 (2010-11-17) successfully loaded. See ? > R.methodsS3 for help. > R.oo v1.9.3 (2012-03-18) successfully loaded. See ?R.oo for help. > > Attaching package: 'R.oo' > > The following object(s) are masked from 'package:R.methodsS3': > > throw.default > > The following object(s) are masked from 'package:methods': > > getClass, getClasses, getMethods > > The following object(s) are masked from 'package:base': > > attach, detach, gc, load, save > > R.utils v1.12.1 (2012-03-20) successfully loaded. See ?R.utils for > help. > > Attaching package: 'R.utils' > > The following object(s) are masked from 'package:utils': > > timestamp > > The following object(s) are masked from 'package:base': > > cat, commandArgs, getOption, inherits, isOpen, lapply, parse, > warnings > > And here is my Rprofile.site file specs: > # Things you might want to change > # options(papersize="a4") > # options(editor="notepad") > # options(pager="internal") > > # set the default help type > # options(help_type="text") > options(help_type="html") > > # set a site library > # .Library.site <- file.path(chartr("\\", "/", R.home()), "site- > library") > > # set a CRAN mirror > local({r <- getOption("repos") > r["CRAN"] <- "http://cran.cnr.Berkeley.edu"; > options(repos=r)}) > > # Give a fortune cookie, but only to interactive sessions # (This > would need the fortunes package to be installed.) # if > (interactive()) > # fortunes::fortune() > > > Daniel Lopez > Workforce Analytics & Metrics Team > > > > > [[alternative HTML version deleted]] > > ______________________________________________ > R-help@r-project.org<mailto:R-help@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. David Winsemius, MD West Hartford, CT ______________________________________________ R-help@r-project.org<mailto:R-help@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. -- Bert Gunter Genentech Nonclinical Biostatistics Internal Contact Info: Phone: 467-7374 Website: http://pharmadevelopment.roche.com/index/pdb/pdb-functional-groups/pdb-biostatistics/pdb-ncb-home.htm -- Bert Gunter Genentech Nonclinical Biostatistics Internal Contact Info: Phone: 467-7374 Website: http://pharmadevelopment.roche.com/index/pdb/pdb-functional-groups/pdb-biostatistics/pdb-ncb-home.htm [[alternative HTML version deleted]] ______________________________________________ R-help@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.
