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Bug#476003: marked as forwarded (rpy: FTBFS: ld: cannot find -lRlapack)

Subject: Bug#476003: marked as forwarded rpy: FTBFS: ld: cannot find -lRlapack
From: Debian Bug Tracking System
Date: Tue, 15 Apr 2008 02:18:03 +0000
Your message dated Mon, 14 Apr 2008 21:15:23 -0500
with message-id <[email protected]>
has caused the   report #476003,
regarding rpy: FTBFS: ld: cannot find -lRlapack
to be marked as having been forwarded to the upstream software
author(s) "Gregory. R. Warnes" <[email protected]>, "Gregory. R. Warnes" 
<[email protected]>

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-- 
476003: http://bugs.debian.org/cgi-bin/bugreport.cgi?bug=476003
Debian Bug Tracking System
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--- Begin Message ---
Subject: Re: Bug#476003: rpy: FTBFS: ld: cannot find -lRlapack
From: Dirk Eddelbuettel
Date: Mon, 14 Apr 2008 21:15:23 -0500
Hi Greg,

The link options in setup.py need work -- in both 1.0.1 and in 1.0.2 which I
tried too.  While setting

        #libraries=['R','Rlapack']
        libraries=['R','lapack']

helps to build, I can not load:

[email protected]:/# xvfb-run python
Python 2.5.2 (r252:60911, Mar  9 2008, 03:52:30)
[GCC 4.3.0 20080301 (prerelease) [gcc-4_3-branch revision 132801]] on linux2
Type "help", "copyright", "credits" or "license" for more information.
>>> from rpy import *
Traceback (most recent call last):
  File "<stdin>", line 1, in <module>
  File "/usr/lib/python2.5/site-packages/rpy.py", line 134, in <module>
    """ % RVERSION)
RuntimeError: /usr/lib/python2.5/site-packages/_rpy2070.so: undefined symbol: 
KillAllDevices

      RPy module can not be imported. Please check if your rpy
      installation supports R 2.7.0. If you have multiple R versions
      installed, you may need to set RHOME before importing rpy. For
      example:

      >>> from rpy_options import set_options
      >>> set_options(RHOME='c:/progra~1/r/rw2011/')
      >>> from rpy import *


>>>

even if I run this inside xvfb, so it is not simply a matter of x11 devices. 

Is KillAllDevices something that changed with R 2.7.0?  I built rpy under the
2.7.0 snapshot from last week.

All the best, Dirk

On 14 April 2008 at 12:53, Lucas Nussbaum wrote:
| Package: rpy
| Version: 1.0.1-4
| Severity: serious
| User: [email protected]
| Usertags: qa-ftbfs-20080413 qa-ftbfs
| Justification: FTBFS on i386
| 
| Hi,
| 
| During a rebuild of all packages in sid, your package failed to build on i386.
| 
| This rebuild was done with gcc 4.3 instead of gcc 4.2, because gcc 4.3 is now
| the default on most architectures (even if it's not the case on i386 yet).
| Feel free to downgrade this bug to 'important' if your package is only built
| on i386, and this bug is specific to gcc 4.3 (i.e the package builds fine with
| gcc 4.2).
| 
| Relevant part:
| > gcc -pthread -shared -O2 -Wall 
build/temp.linux-i686-2.4/src/rpymodule2070.o 
build/temp.linux-i686-2.4/src/R_eval2070.o 
build/temp.linux-i686-2.4/src/io2070.o build/temp.linux-i686-2.4/src/setenv.o 
-L/usr/lib/R/bin -L/usr/lib/R/lib -Wl,-R/usr/lib/R/bin -Wl,-R/usr/lib/R/lib -lR 
-lRlapack -o build/lib.linux-i686-2.4/_rpy2070.so
| > /usr/bin/ld: cannot find -lRlapack
| > collect2: ld returned 1 exit status
| 
| The full build log is available from:
|    http://people.debian.org/~lucas/logs/2008/04/13
| 
| A list of current common problems and possible solutions is available at 
| http://wiki.debian.org/qa.debian.org/FTBFS . You're welcome to contribute!
| 
| About the archive rebuild: The rebuild was done on about 50 AMD64 nodes
| of the Grid'5000 platform, using a clean chroot containing a sid i386
| environment.  Internet was not accessible from the build systems.
| 
| -- 
| | Lucas Nussbaum
| | [email protected]   http://www.lucas-nussbaum.net/ |
| | jabber: [email protected]             GPG: 1024D/023B3F4F |
| 
| 

-- 
   I was mostly off email over the last few days, and am now catching
   up.  My apologies for delayed responses and/or brevity. 
--
Three out of two people have difficulties with fractions.


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