On 06/15/2013 07:55 AM, Dirk Eddelbuettel wrote:
Martin, On 15 June 2013 at 11:47, Martin Maechler wrote: | I am really no java lover, but for some reason had interested to look | at an R package that depends on rJava... | and when I tried, I was *again* (it is my usual experience for more | than 10 years) | unable to get rJava installed, | as indeed, also 'R CMD javareconf' ended in an error that jni.h | was not found. | | I see the issue here, | http://stackoverflow.com/questions/16438073/unable-to-install-rjava-in-r-3-0-in-ubuntu-13-04 | | including the proposed solution | | sudo apt-get install openjdk-7-* | | which installs 690 MB (!) of stuff (not counting the "basic openjdk-7" | installed previously)... | ... | and indeed solves the problem {i.e. 'R CMD javareconf' then succeeds}. | | --- | Summary: I think r-cran-rjava needs the full (or at least more than now of) | 'openjdk-7-*' in its (debian) dependencies. "Maybe. Maybe not." The _binary_ package r-cran-rjava builds with the virtual package 'default-jdk': [ lines indented and formatted ] edd@max:~$ grep Build-Depends src/debian/CRAN/rJava-0.9-4/debian/control Build-Depends: debhelper (>= 7.0.0), r-base-dev (>= 3.0.0~20130324), cdbs, \ automake, default-jdk [!arm !hppa !kfreebsd-i386 !kfreebsd-amd64 !hurd-i386 !mips] edd@max:~$ So in Debian unstable, testing, ... this seems works as the package builds and loads. From the build log I keep: The following NEW packages will be installed: autoconf{a} automake{a} autotools-dev{a} ca-certificates{a} [...] libxml2{a} libxrandr2{a} libxtst6{a} m4{a} man-db{a} openjdk-6-jdk{a} openjdk-6-jre{a} openjdk-6-jre-headless{a} openjdk-6-jre-lib{a} openssl{a} po-debconf{a} shared-mime-info{a} tzdata-java{a} 0 packages upgraded, 82 newly installed, 0 to remove and 0 not upgraded. I can see that on Debian openjdk-6-* works. That makes the packaging consistent with the distro / OS. Why Ubuntu needs openjdk-7 I do not know. It is not entirely satisfactory but I do not have a better answer. Dirk
Thought I had this issue licked on the Ubuntu side of things, but it appears I did not. Regardless, I have played around with the install depends and I THINK things are now working. I was able to install rJava and run it from within R on fresh (virtual) install of Ubuntu 13.04. Those rJava packages are available on my RRutter PPA. If it continues to fail to work, please let me know.
Would also like to point out that the r-cran-rjava package available in the Ubuntu repositories is not compatible with R 3.0.1. You must use the package from RRutter PPA.
Michael -- Dr. Michael A. Rutter School of Science Penn State Erie, The Behrend College 4205 College Drive Erie, PA 16563 http://math.bd.psu.edu/faculty/rutter [email protected] _______________________________________________ R-SIG-Debian mailing list [email protected] https://stat.ethz.ch/mailman/listinfo/r-sig-debian
