Thanks so much Marshall. Adding "-Djava.awt.headless=true" to my :jvm-opts does indeed fix the "additional java process" problem, so that's helpful if I don't find an alternative to incanter.
The R options are interesting but probably not a good solution in my case; I'll be calling these tests millions of times and I'm guessing that the overhead would be a problem. FWIW another issue I've had with incanter is confusion figuring out what dependency to use. This wasn't clear to me from the main incanter documentation, searching clojars for incanter returned a lot of things that I didn't know what to do with, and then I eventually found the github page (which you also suggest) which shows [incanter "1.5.6"] under "Include in Clojure project", which worked... But then, looking more carefully at the clojars result I see that there's also 1.9.0 and now I've switched to that, and it also works... But this all seems very weird because the project.clj in the github repository lists ""1.5.7-SNAPSHOT", making me think that maybe 1.5.6 is the current stable version. To make matters worse I thought it might be better to use only the stats module and tried things like [incanter-stats "1.5.6"] and [incanter/incanter-stats "1.5.6"], but none of that worked and I guess now that maybe stats isn't a separate module? In namespaces I require only [incanter.stats :as stats] and that works, although it did trigger the swing stuff untill i added -Djava.awt.headless=true. Anyway, I'm in somewhat better shape now but still confused about some things, uneasy about the comment in the source code indicating the wrongness of the t-test code, and hoping for something that will be easier to understand and work with... if there's any simpler option out there. Thanks, -Lee > On Jun 1, 2015, at 10:40 PM, Mars0i <marsh...@logical.net> wrote: > > One option would be to call R from Clojure. I haven't tried this, and I > don't know how well it would fit your needs. > > Rincanter > <http://joelboehland.com/posts/all-your-datasets-r-belong-to-us.html> is > supposed to allow this. Presumably it would bypass the Incanter functions > that you don't want to use. > > Rincanter is apparently a wrapper around JRI <http://www.rforge.net/rJava/>, > a Java library for calling R. You could probably use that directly, without > using Rincanter. > > I can't figure out whether R-nREPL <https://github.com/vspinu/R-nREPL> is > also a possible solution, but maybe it is. > > > About this: > "Requiring incanter seems to be making my program launch an additional java > process, which is mysterious and unwelcout ome": > > I think you're probably referring to the fact that some Incanter components > load Java's Swing library, which causes a little Java icon to appear (on my > Mac, at least). Yeah, that is annoying, if you don't need graphical output. > But you can avoid it. > > First, I'd make sure that you are using the latest Incanter library, e.g. by > pasting the appropriate lines (see Incanter's github repo) into a Leiningen > project.clj file. If you're using the standalone Incanter > application--sometimes that's older, and you will have less control over > what's loaded. Second, only use or require the components you need--but you > probably need one of the ones that loads Swing by default. Third (this is > the key): Add > :jvm-opts ["-Djava.awt.headless=true"] > to your Leiningen project.clj. That will prevent the Swing icon from popping > up. > > You might also want to ask for help on the numeric-clojure Google group or > the Incanter group, or filing issues on the Incanter github repo. The latter > might not be your cup of tea, of course. > > (There's an open issue about the Swing popup that I filed (#255). Incanter > is a huge project, and there are understandably lots of issues that the folks > working on it are trying to address, presumably as quickly as they can.) > There > -- You received this message because you are subscribed to the Google Groups "Clojure" group. To post to this group, send email to clojure@googlegroups.com Note that posts from new members are moderated - please be patient with your first post. To unsubscribe from this group, send email to clojure+unsubscr...@googlegroups.com For more options, visit this group at http://groups.google.com/group/clojure?hl=en --- You received this message because you are subscribed to the Google Groups "Clojure" group. To unsubscribe from this group and stop receiving emails from it, send an email to clojure+unsubscr...@googlegroups.com. For more options, visit https://groups.google.com/d/optout.
