Gentoo Archives: gentoo-science

From: Thomas Kahle <tomka@g.o>
To: gentoo-science@l.g.o
Subject: Re: [gentoo-science] World updates with sage installed - portage bug?
Date: Sat, 02 Jun 2012 00:03:31
Message-Id: 20120601211358.GK22017@schlaumatte.ethz.ch
In Reply to: Re: [gentoo-science] World updates with sage installed - portage bug? by Francois Bissey
1 On 07:26 Sat 02 Jun 2012, Francois Bissey wrote:
2 > On Fri, 01 Jun 2012 11:52:24 Thomas Kahle wrote:
3 > > Hi,
4 > >
5 > > now that I have sage-on-gentoo installed I can't do world updates with
6 > > the -D option anymore. Looks like a portage quirk to me.
7 > >
8 > > There seem to be at least two problems:
9 > >
10 > > I have sci-mathematics/singular in my world file and the -D option
11 > > forces portage to think that I insist on the latest version. Therefore
12 > > it collides with sage-on-gentoo insisting on 3.1.3:
13 > >
14 > > sci-mathematics/singular:0
15 > >
16 > > (sci-mathematics/singular-3.1.3.3::gentoo, installed) pulled in by
17 > > ~sci-mathematics/singular-3.1.3.3 required by
18 > > (sci-mathematics/sage-5.0-r1::sage-on-gentoo, installed)
19 > >
20 > > (sci-mathematics/singular-3.1.4-r1::gentoo, ebuild scheduled for merge)
21 > > pulled in by (no parents that aren't satisfied by other packages in this
22 > > slot)
23 > >
24 > >
25 > > There also is an eselect issue. I don't know why, but eselect-blas and
26 > > eselect-lapack are pulled in, although blocked by the new gsl:
27 > >
28 > > [blocks B ] app-admin/eselect-blas ("app-admin/eselect-blas" is
29 > > blocking sci-libs/gsl-1.15-r2, sci-libs/cblas-reference-20110218) [blocks B
30 > > ] app-admin/eselect-lapack ("app-admin/eselect-lapack" is blocking
31 > > sci-libs/gsl-1.15-r2, sci-libs/cblas-reference-20110218)
32 > >
33 > > However, without the -D option I just get a warning:
34 > >
35 > > WARNING: One or more updates have been skipped due to a dependency conflict:
36 > >
37 > > sci-mathematics/singular:0
38 > >
39 > > (sci-mathematics/singular-3.1.4-r1::gentoo, ebuild scheduled for merge)
40 > > conflicts with ~sci-mathematics/singular-3.1.3.3 required by
41 > > (sci-mathematics/sage-5.0-r1::sage-on-gentoo, installed)
42 > >
43 > >
44 > > Any ideas? Shall I carry this to the portage mailing list?
45 > > Cheers,
46 > We need to know what pulls these eselect modules. What is the portage
47 > output when you add the "t" option. It should show what wants what.
48
49 Goes back to dev-lang/R and sci-libs/superlu. My setup has superlu
50 stable, but R keyworded ~amd64 the entire slot.
51
52 [ebuild U ~] sci-mathematics/singular-3.1.4-r1 [3.1.3.3] USE="boost doc emacs python%* readline -examples -test" 0 kB
53 [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"
54 [nomerge ] virtual/lapack-3.1
55 [nomerge ] sci-libs/lapack-reference-3.1.1-r1 USE="-doc"
56 [ebuild N ] app-admin/eselect-lapack-0.1 0 kB
57 [nomerge ] sci-mathematics/sage-5.0-r1::sage-on-gentoo USE="latex -testsuite"
58 [nomerge ] sci-libs/scipy-0.9.0-r1 USE="-doc -umfpack"
59 [nomerge ] sci-libs/superlu-4.1-r1 USE="-doc -examples -static-libs -test"
60 [nomerge ] virtual/blas-1.0
61 [nomerge ] sci-libs/blas-reference-20070226 USE="-doc"
62 [ebuild N ] app-admin/eselect-blas-0.1 0 kB
63 [nomerge ] sci-mathematics/sage-5.0-r1::sage-on-gentoo USE="latex -testsuite"
64 [nomerge ] dev-python/sympy-0.7.1 USE="gtk latex opengl pdf png -doc -examples -imaging -ipython -mathml -pyglet -test -texmacs"
65 [ebuild U ] dev-python/pexpect-2.4::gentoo [2.0-r1::sage-on-gentoo] USE="-doc% -examples%" 0 kB
66 [blocks B ] app-admin/eselect-lapack ("app-admin/eselect-lapack" is blocking sci-libs/gsl-1.15-r2, sci-libs/cblas-reference-20110218)
67 [blocks B ] app-admin/eselect-blas ("app-admin/eselect-blas" is blocking sci-libs/gsl-1.15-r2, sci-libs/cblas-reference-20110218)
68
69 Hope this helps,
70 Cheers,
71 Thomas
72
73 --
74 Thomas Kahle
75 http://dev.gentoo.org/~tomka/

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Re: [gentoo-science] World updates with sage installed - portage bug? Francois Bissey <fbissey@××××××××××××.nz>