Hello Chuck: Your idea is very interesting. I am curious to make use of your ideas. If it is not too much trouble, can you please share an example org file that you use for package development? I completely understand if you can't share the file. Your help is highly appreciated. Thank you in advance. Best Regards, S. On Mon, Dec 6, 2010 at 2:52 PM, Charles C. Berry wrote: > On Sat, 4 Dec 2010, Thomas S. Dye wrote: > > Aloha Detlef >> >> On Dec 2, 2010, at 9:58 PM, Detlef Steuer wrote: >> >> Hi! >>> >>> I very much appreciate your article as a nice introduction to org-babel >>> and its uses. As I'm going to introduce my colleagues into the nice >>> world of org-babel giving a talk sometime next term I'll shamelessly >>> steal from your work. (Of course giving attribution!) >>> >>> Some remarks: >>> If you send it to Journal of _Statistical_ Software may be you should >>> be a little bit more focused on statistics. You article introduces >>> org-babel as a multi-language frontend to literate programming. What it >>> is, but there is little statistics in it. >>> >>> In their article Gentleman and Lang introduced the "statistical >>> compendium". In my opinion emacs + org-mode + babel + >>> all-programming-languages-we-know + LaTeX + HTML export build the first >>> incarnation of a tool to really create such a compendium, org-babel >>> being central in that chain. >>> May be you can use some of Tom Dye's data to give an example of a >>> self-contained statistical workflow. I used his introduction given in >>> Worg to do my first steps in that direction. (Thx again Tom!) >>> Doing everything beginning with data-cleaning over data analysis to >>> template generating and report publishing and presentation in one >>> text-file. >>> That feature was, what caught me immediately as a statistician. >>> >>> If you want to focus on the simulation side (may be more focused on >>> academics) I would stress the "always-correctness" of graphs in >>> articles. You all know what I mean... >>> >>> Just my 2 cents. Of course it is great as it stands and surely I'm >>> biased by my own needs. >>> >>> Detlef >>> (a statistician) >>> >>> >> Thanks very much for the helpful comments and especially your perspective >> on the Journal of Statistical Software. >> >> I'm interested to learn how you've developed a statistical workflow with >> Org-mode beyond my first tentative steps in that direction. It would be >> great to have an example of your progress on Worg, if you can find the time. >> > > Tom, > > You might glean something from these links: > > ESS and org-mode workflows are discussed here: > > > > http://stackoverflow.com/questions/1429907/workflow-for-statistical-analysis-and-report-writing/ > > > http://stackoverflow.com/questions/3027476/ess-workflow-for-r-project-package-development > > https://github.com/Choens/LiterateR > > > CRAN's reproducible research 'task view' (with 'Related Links' of some > interest): > > http://cran.r-project.org/web/views/ReproducibleResearch.html > > If you want to reach the R community, 'The R Journal' might be worth a try: > > http://journal.r-project.org/ > > ====== > > Let me just add my $0.02 worth to what others have already said and > say, that I really find org-babel useful in my R related work. > > Currently, I am making use of it an environment for developing > R-packages. An org-mode file sits in the top level source directory of > an R package; it contains src blocks to fire up speedbar, list files > (for navigation w/o speedbar), do version control operations, check, > build, install, load the package, and do other routine tasks. Each > operation has its own headline, so I need only put the point on the > headline and 'C-c C-v C-s y' to run the subtree containing the block - > effectively making each operation a point - and - (a little more than > a) click. Those source blocks are nearly the same for each package. > > Additional blocks display help pages in the org file, load sample > data, let me work on new package features, and try out R idioms I > might want to use. > > Then there are all the usual org-mode features that let me keep notes > and ideas and track the status of the package. org-mode has made this > part of my life a good deal simpler! > > Chuck > > > >> All the best, >> Tom >> >> On Thu, 02 Dec 2010 12:28:27 -0700 >>> "Eric Schulte" wrote: >>> >>> > Hi, >>> > > Dan Davison, Tom Dye, Carsten Dominik and myself have been working on >>> a >>> > paper introducing Org-mode's code block functionality. We plan to >>> > submit this paper to the Journal of Statistical Software. As both >>> > Org-mode and the code block functionality are largely products of this >>> > mailing list community, and in the spirit of an open peer review >>> process >>> > we are releasing the current draft of the paper here to solicit your >>> > review and comments. >>> > > Both the .org and .pdf formats of the paper are available at the >>> > following locations. >>> > > http://cs.unm.edu/~eschulte/org-paper/babel.org >>> > > http://cs.unm.edu/~eschulte/org-paper/babel.pdf >>> > > Thanks -- Eric >>> > > _______________________________________________ >>> > Emacs-orgmode mailing list >>> > Please use `Reply All' to send replies to the list. >>> > Emacs-orgmode@gnu.org >>> > http://lists.gnu.org/mailman/listinfo/emacs-orgmode >>> > >>> >>> >>> _______________________________________________ >>> Emacs-orgmode mailing list >>> Please use `Reply All' to send replies to the list. >>> Emacs-orgmode@gnu.org >>> http://lists.gnu.org/mailman/listinfo/emacs-orgmode >>> >> >> >> _______________________________________________ >> Emacs-orgmode mailing list >> Please use `Reply All' to send replies to the list. >> Emacs-orgmode@gnu.org >> http://lists.gnu.org/mailman/listinfo/emacs-orgmode >> >> > Charles C. Berry Dept of Family/Preventive > Medicine > cberry@tajo.ucsd.edu UC San Diego > http://famprevmed.ucsd.edu/faculty/cberry/ La Jolla, San Diego 92093-0901 > > > > > _______________________________________________ > Emacs-orgmode mailing list > Please use `Reply All' to send replies to the list. > Emacs-orgmode@gnu.org > http://lists.gnu.org/mailman/listinfo/emacs-orgmode >