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To: gentoo-science@g.o
From: Thomas Kahle <tomka@g.o>
Subject: Re: World updates with sage installed - portage bug?
Date: Fri, 1 Jun 2012 23:13:58 +0200
On 07:26 Sat 02 Jun 2012, Francois Bissey wrote:
> On Fri, 01 Jun 2012 11:52:24 Thomas Kahle wrote:
> > Hi,
> > 
> > now that I have sage-on-gentoo installed I can't do world updates with
> > the -D option anymore.  Looks like a portage quirk to me.
> > 
> > There seem to be at least two problems:
> > 
> > I have sci-mathematics/singular in my world file and the -D option
> > forces portage to think that I insist on the latest version.  Therefore
> > it collides with sage-on-gentoo insisting on 3.1.3:
> > 
> > sci-mathematics/singular:0
> > 
> >   (sci-mathematics/singular-3.1.3.3::gentoo, installed) pulled in by
> >     ~sci-mathematics/singular-3.1.3.3 required by
> > (sci-mathematics/sage-5.0-r1::sage-on-gentoo, installed)
> > 
> >   (sci-mathematics/singular-3.1.4-r1::gentoo, ebuild scheduled for merge)
> > pulled in by (no parents that aren't satisfied by other packages in this
> > slot)
> > 
> > 
> > There also is an eselect issue.  I don't know why, but eselect-blas and
> > eselect-lapack are pulled in, although blocked by the new gsl:
> > 
> > [blocks B      ] app-admin/eselect-blas ("app-admin/eselect-blas" is
> > blocking sci-libs/gsl-1.15-r2, sci-libs/cblas-reference-20110218) [blocks B
> >      ] app-admin/eselect-lapack ("app-admin/eselect-lapack" is blocking
> > sci-libs/gsl-1.15-r2, sci-libs/cblas-reference-20110218)
> > 
> > However, without the -D option I just get a warning:
> > 
> > WARNING: One or more updates have been skipped due to a dependency conflict:
> > 
> > sci-mathematics/singular:0
> > 
> >   (sci-mathematics/singular-3.1.4-r1::gentoo, ebuild scheduled for merge)
> > conflicts with ~sci-mathematics/singular-3.1.3.3 required by
> > (sci-mathematics/sage-5.0-r1::sage-on-gentoo, installed)
> > 
> > 
> > Any ideas?  Shall I carry this to the portage mailing list?
> > Cheers,
> We need to know what pulls these eselect modules. What is the portage
> output when you add the "t" option. It should show what wants what.

Goes back to dev-lang/R and sci-libs/superlu.  My setup has superlu
stable, but R keyworded ~amd64 the entire slot.

[ebuild     U ~] sci-mathematics/singular-3.1.4-r1 [3.1.3.3] USE="boost doc emacs python%* readline -examples -test" 0 kB
[nomerge       ] dev-lang/R-2.15.0  USE="X bash-completion cairo doc java jpeg lapack nls openmp perl png readline tiff tk -icu -minimal -profile -static-libs"                                                                                                                                                   
[nomerge       ]  virtual/lapack-3.1 
[nomerge       ]   sci-libs/lapack-reference-3.1.1-r1  USE="-doc" 
[ebuild  N     ]    app-admin/eselect-lapack-0.1  0 kB
[nomerge       ] sci-mathematics/sage-5.0-r1::sage-on-gentoo  USE="latex -testsuite" 
[nomerge       ]  sci-libs/scipy-0.9.0-r1  USE="-doc -umfpack" 
[nomerge       ]   sci-libs/superlu-4.1-r1  USE="-doc -examples -static-libs -test" 
[nomerge       ]    virtual/blas-1.0 
[nomerge       ]     sci-libs/blas-reference-20070226  USE="-doc" 
[ebuild  N     ]      app-admin/eselect-blas-0.1  0 kB
[nomerge       ] sci-mathematics/sage-5.0-r1::sage-on-gentoo  USE="latex -testsuite" 
[nomerge       ]  dev-python/sympy-0.7.1  USE="gtk latex opengl pdf png -doc -examples -imaging -ipython -mathml -pyglet -test -texmacs" 
[ebuild     U  ]   dev-python/pexpect-2.4::gentoo [2.0-r1::sage-on-gentoo] USE="-doc% -examples%" 0 kB
[blocks B      ] app-admin/eselect-lapack ("app-admin/eselect-lapack" is blocking sci-libs/gsl-1.15-r2, sci-libs/cblas-reference-20110218)
[blocks B      ] app-admin/eselect-blas ("app-admin/eselect-blas" is blocking sci-libs/gsl-1.15-r2, sci-libs/cblas-reference-20110218)

Hope this helps,
Cheers,
Thomas

-- 
Thomas Kahle
http://dev.gentoo.org/~tomka/
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Replies:
Re: World updates with sage installed - portage bug?
-- Francois Bissey
References:
World updates with sage installed - portage bug?
-- Thomas Kahle
Re: World updates with sage installed - portage bug?
-- Francois Bissey
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