<html><head><meta http-equiv="Content-Type" content="text/html charset=us-ascii"></head><body style="word-wrap: break-word; -webkit-nbsp-mode: space; -webkit-line-break: after-white-space; ">RStudio installed without error. <div>Thanks!<br><div> <br><span><img height="27" width="27" id="ca65c84a-01f9-4dfc-aeb4-760a6e8011fc" apple-width="yes" apple-height="yes" src="cid:E176351D-D031-424F-9DED-0538FB784C6F@ohsu.edu"></span><br> Tom<br>thokeller at gmail com<br><br><br></div><br><div><div>On Aug 16, 2013, at 4:00 AM, <a href="mailto:bio-linux-request@nebclists.nerc.ac.uk">bio-linux-request@nebclists.nerc.ac.uk</a> wrote:</div><br class="Apple-interchange-newline"><blockquote type="cite">Send Bio-Linux mailing list submissions to<br><span class="Apple-tab-span" style="white-space:pre"> </span><a href="mailto:bio-linux@nebclists.nerc.ac.uk">bio-linux@nebclists.nerc.ac.uk</a><br><br>To subscribe or unsubscribe via the World Wide Web, visit<br><span class="Apple-tab-span" style="white-space:pre"> </span>http://nebclists.nerc.ac.uk/mailman/listinfo/bio-linux<br>or, via email, send a message with subject or body 'help' to<br><span class="Apple-tab-span" style="white-space:pre"> </span>bio-linux-request@nebclists.nerc.ac.uk<br><br>You can reach the person managing the list at<br><span class="Apple-tab-span" style="white-space:pre"> </span>bio-linux-owner@nebclists.nerc.ac.uk<br><br>When replying, please edit your Subject line so it is more specific<br>than "Re: Contents of Bio-Linux digest..."<br><br><br>Today's Topics:<br><br> 1. Re: RStudio with Bio-Linux (Tom Keller)<br> 2. Re: RStudio with Bio-Linux (Tim Booth)<br><br><br>----------------------------------------------------------------------<br><br>Message: 1<br>Date: Thu, 15 Aug 2013 10:27:13 -0700<br>From: Tom Keller <kellert@ohsu.edu><br>Subject: Re: [Bio-Linux] RStudio with Bio-Linux<br>To: "bio-linux@nebclists.nerc.ac.uk" <bio-linux@nebclists.nerc.ac.uk><br>Message-ID: <E1685117-7357-4EC0-9A79-FD9D15859717@ohsu.edu><br>Content-Type: text/plain; charset="us-ascii"<br><br>Hi Tim,<br>Is there a way to use RStudio with R from Bio-Linux?<br><br>thanks for your help.<br>Tom Keller<br>Thomas J. Keller, Ph.D.; Director, DNA Services Core Facility ; Oregon Health & Science University;<br>mailcode L220; 3181 SW Sam Jackson Park Rd; Portland, OR 97239; 503-494-2442<br><br>On Jul 23, 2013, at 4:00 AM, bio-linux-request@nebclists.nerc.ac.uk wrote:<br><br><blockquote type="cite">Send Bio-Linux mailing list submissions to<br><span class="Apple-tab-span" style="white-space:pre"> </span>bio-linux@nebclists.nerc.ac.uk<br><br>To subscribe or unsubscribe via the World Wide Web, visit<br><span class="Apple-tab-span" style="white-space:pre"> </span>http://nebclists.nerc.ac.uk/mailman/listinfo/bio-linux<br>or, via email, send a message with subject or body 'help' to<br><span class="Apple-tab-span" style="white-space:pre"> </span>bio-linux-request@nebclists.nerc.ac.uk<br><br>You can reach the person managing the list at<br><span class="Apple-tab-span" style="white-space:pre"> </span>bio-linux-owner@nebclists.nerc.ac.uk<br><br>When replying, please edit your Subject line so it is more specific<br>than "Re: Contents of Bio-Linux digest..."<br><br><br>Today's Topics:<br><br> 1. Bio-Linux updated image and new packages (Tim Booth)<br><br><br>----------------------------------------------------------------------<br><br>Message: 1<br>Date: Mon, 22 Jul 2013 16:55:06 +0100<br>From: Tim Booth <tbooth@ceh.ac.uk><br>Subject: [Bio-Linux] Bio-Linux updated image and new packages<br>To: Bio-Linux mailing list <bio-linux@nebclists.nerc.ac.uk><br>Message-ID: <1374508506.10050.57.camel@balisaur><br>Content-Type: text/plain; charset="UTF-8"<br><br>Hi All,<br><br>I've put a new Bio-Linux image update on the website today (7.0.7).<br>Existing users won't need to use this but I've added some new packages<br>which you might be interested in installing on your machines (sudo<br>apt-get install <packagename>):<br><br>abyss (http://www.bcgsc.ca/platform/bioinfo/software/abyss)<br>ray (http://denovoassembler.sourceforge.net/)<br>sickle (https://github.com/vsbuffalo/sickle)<br>scythe (https://github.com/vsbuffalo/scythe)<br>macs (http://liulab.dfci.harvard.edu/MACS/)<br><br>The R environment has been upgraded to R3.0 and modules have been<br>recompiled to work on the new R. If you have installed extra modules<br>and get an error about an incompatible R module you may need to run<br>"install.packages(<modulename>)" within R.<br><br>The new image has updated drivers from Ubuntu the 12.04.2 release and so<br>should work on some more modern computers. I've not been able to test<br>UEFI booting so if you have a UEFI machine you may need to set it back<br>to BIOS boot for now.<br><br>The new STADEN Gap5 package and Taverna did not make this image release<br>but will be coming soon.<br><br>Cheers,<br><br>TIM<br><br>-- <br>Tim Booth <tbooth@ceh.ac.uk><br>NERC Environmental Bioinformatics Centre <br><br>Centre for Ecology and Hydrology<br>Maclean Bldg, Benson Lane<br>Crowmarsh Gifford<br>Wallingford, England<br>OX10 8BB <br><br>http://nebc.nerc.ac.uk<br>+44 1491 69 2705<br><br><br><br><br>------------------------------<br><br>_______________________________________________<br>Bio-Linux mailing list<br>Bio-Linux@nebclists.nerc.ac.uk<br>http://nebclists.nerc.ac.uk/mailman/listinfo/bio-linux<br><br><br>End of Bio-Linux Digest, Vol 59, Issue 4<br>****************************************<br></blockquote><br><br><br>------------------------------<br><br>Message: 2<br>Date: Thu, 15 Aug 2013 18:43:05 +0100<br>From: Tim Booth <tbooth@ceh.ac.uk><br>Subject: Re: [Bio-Linux] RStudio with Bio-Linux<br>To: bio-linux@nebclists.nerc.ac.uk<br>Message-ID: <1376588585.3416.211.camel@balisaur><br>Content-Type: text/plain; charset="UTF-8"<br><br>Hi Tom,<br><br>The RStudio website provides a .deb file which should work fine. You<br>can fetch and install it from the command line like so:<br><br>wget http://download1.rstudio.org/rstudio-0.97.551-amd64.deb<br>sudo dpkg -i rstudio-0.97.551-amd64.deb<br>sudo apt-get -f install<br><br>The second command may report an error, but the third command fixes it.<br><br>Then open the dash and start typing "rstudio" and you should see the<br>icon, or just run "rstudio" on the command line.<br><br>Does that work for you?<br><br>Cheers,<br><br>TIM<br><br>On Thu, 2013-08-15 at 18:27 +0100, Tom Keller wrote:<br><blockquote type="cite">Hi Tim,<br>Is there a way to use RStudio with R from Bio-Linux?<br><br></blockquote><br><br><br>------------------------------<br><br>_______________________________________________<br>Bio-Linux mailing list<br>Bio-Linux@nebclists.nerc.ac.uk<br>http://nebclists.nerc.ac.uk/mailman/listinfo/bio-linux<br><br><br>End of Bio-Linux Digest, Vol 60, Issue 1<br>****************************************<br></blockquote></div><br></div></body></html>