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r-cran-rjava (ubuntu 13.04 ?) -- missing dependencies?

3 messages · Martin Maechler, Dirk Eddelbuettel, Michael Rutter

Original
Martin Maechler
# 
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.

Martin
Dirk Eddelbuettel
# 
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 at 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 at 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
Michael Rutter
#
On 06/15/2013 07:55 AM, Dirk Eddelbuettel wrote:
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