From mboxrd@z Thu Jan 1 00:00:00 1970 From: Eric Schulte Subject: Re: org mode in press Date: Sat, 28 Jan 2012 10:11:14 -0700 Message-ID: <87ehuj92h9.fsf@gmx.com> References: <87ty3isusw.fsf@med.uni-goettingen.de> <6889.1327586596@alphaville> <87sjj15hpq.fsf@gmx.com> <4F23D898.3010202@gmail.com> Mime-Version: 1.0 Content-Type: text/plain Return-path: Received: from eggs.gnu.org ([140.186.70.92]:32846) by lists.gnu.org with esmtp (Exim 4.71) (envelope-from ) id 1RrBoK-0006za-9t for emacs-orgmode@gnu.org; Sat, 28 Jan 2012 12:11:33 -0500 Received: from Debian-exim by eggs.gnu.org with spam-scanned (Exim 4.71) (envelope-from ) id 1RrBoH-0007Ig-KB for emacs-orgmode@gnu.org; Sat, 28 Jan 2012 12:11:32 -0500 Received: from mailout-us.gmx.com ([74.208.5.67]:49010 helo=mailout-us.mail.com) by eggs.gnu.org with smtp (Exim 4.71) (envelope-from ) id 1RrBoH-0007IC-Ew for emacs-orgmode@gnu.org; Sat, 28 Jan 2012 12:11:29 -0500 In-Reply-To: <4F23D898.3010202@gmail.com> (Christian Wittern's message of "Sat, 28 Jan 2012 20:14:32 +0900") List-Id: "General discussions about Org-mode." List-Unsubscribe: , List-Archive: List-Post: List-Help: List-Subscribe: , Errors-To: emacs-orgmode-bounces+geo-emacs-orgmode=m.gmane.org@gnu.org Sender: emacs-orgmode-bounces+geo-emacs-orgmode=m.gmane.org@gnu.org To: Christian Wittern Cc: emacs-orgmode@gnu.org Christian Wittern writes: > I think this is an excellent article, introducing an aspect of > org-mode, which I think fills a gap that no other software I know of > comes even close to approach. I already started mentioning it in > conversations and am sure it will be very useful to many members of > the academic community. > Wonderful. > > Just to make sure I could answer any follow up questions, I downloaded > the replication bundle and started installing the dependencies. I > encountered a few problems and hope this is the right place to discuss > them. BTW, I am working with this on a Mac OS X 10.6 machine. > > Most of the dependencies I already had or installed them from > macports. One problem I encountered was with installing the RSQLite > package. Executing the installation command from the README file did > not work because of permission issues, the command needs to run with > superuser rights. This is surprising, on the two GNU/Linux distributions I've tested this on I am prompted to pick an R install directory which defaults to ~/R in my home directory so no super-user privileges are required. My original motivation for switching from OSX to GNU/Linux was precisely this sort of weird Mac-specific library install issues across a number of tools (most notably LaTeX). Although, a couple of years after switching my reasons for not switching back are legion. :) > Is it possible to give these rights to commands run from babel? Since > I did not find a way to do that, I installed from the R commandline, > where I found that the name of the package is RSQLite, not 'RSQlite' > as given in the readme file. > > The one dependency I could not solve was the 'dot' executable. I > assume this is an interpreter for the dot language, for which it seems > the program on the Mac is named graphviz. However, I am not sure how > to make that work with org/babel. Should I simply symlink to > graphviz? Or is there a babel variable to be set? This is a point > that probably needs some explanation, at least for Mac users (I > realize that the articel might not have been intended as such a > general introduction with details for all common OSses, but it would > be nice if this can be gradually supplemented). > > One last remark; since this is an online publication, I think using > proper fontification for the examples and org source code would be > even more appealing, especially for people who encounter org for the > first time. > > Keep up the excellent work!! > Thanks!, > > Christian > > > > On 2012-01-27 23:43, Eric Schulte wrote: >> Hopefully this will serve as the canonical introduction to working with >> code blocks in Org-mode. >> >> As we acknowledge in the paper this work would not have been possible >> without the ideas and feedback of the Org-mode community, so thanks all! >> >> Nick Dokos writes: >> >>> Andreas Leha wrote: >>> >>>> Hi all, >>>> >>>> this just came into my inbox: >>>> http://www.jstatsoft.org/v46/i03 >>>> >>>> Great work! Big thanks to the authors. >>>> >>> I remember reading it with great pleasure back when Eric posted it to >>> the list: beautiful stuff. I look forward to rereading it. >>> >>> Congratulations! >>> >>> Nick >>> >>> -- Eric Schulte http://cs.unm.edu/~eschulte/