From mboxrd@z Thu Jan 1 00:00:00 1970 Received: from pigeon.gentoo.org ([208.92.234.80] helo=lists.gentoo.org) by finch.gentoo.org with esmtp (Exim 4.60) (envelope-from ) id 1Qx4M6-0003B1-Se for garchives@archives.gentoo.org; Fri, 26 Aug 2011 21:54:27 +0000 Received: from pigeon.gentoo.org (localhost [127.0.0.1]) by pigeon.gentoo.org (Postfix) with SMTP id 7A1D321C1B6; Fri, 26 Aug 2011 21:54:15 +0000 (UTC) Received: from mx0.d.umn.edu (mx0.d.umn.edu [131.212.109.42]) by pigeon.gentoo.org (Postfix) with ESMTP id C906C21C19B for ; Fri, 26 Aug 2011 21:54:04 +0000 (UTC) Received: from mxr1.d.umn.edu (mxr1.d.umn.edu [131.212.109.92]) by mx0.d.umn.edu (8.13.8/8.13.8) with ESMTP id p7QLqJhY027361 for ; Fri, 26 Aug 2011 16:52:19 -0500 (CDT) Received: from mxv2.d.umn.edu (mxv2.d.umn.edu [131.212.109.136]) by mxr1.d.umn.edu (8.13.8/8.13.8) with ESMTP id p7QLqJFs014055 for ; Fri, 26 Aug 2011 16:52:19 -0500 (CDT) Received: from mx4-g.d.umn.edu (mx4-g.d.umn.edu [131.212.109.174]) by mxv2.d.umn.edu (8.13.8/8.13.8) with ESMTP id p7QLqInM017257 for ; Fri, 26 Aug 2011 16:52:19 -0500 (CDT) Received: from mail-qy0-f169.google.com (mail-qy0-f169.google.com [209.85.216.169]) by mx4-g.d.umn.edu (8.13.8/8.13.8) with ESMTP id p7QLpUXw007958 for ; Fri, 26 Aug 2011 16:51:30 -0500 (CDT) Received: by qyk27 with SMTP id 27so816113qyk.0 for ; Fri, 26 Aug 2011 14:51:30 -0700 (PDT) Precedence: bulk List-Post: List-Help: List-Unsubscribe: List-Subscribe: List-Id: Gentoo Linux mail X-BeenThere: gentoo-science@lists.gentoo.org Reply-to: gentoo-science@lists.gentoo.org MIME-Version: 1.0 Received: by 10.229.8.204 with SMTP id i12mr59576qci.110.1314395490168; Fri, 26 Aug 2011 14:51:30 -0700 (PDT) Received: by 10.224.73.202 with HTTP; Fri, 26 Aug 2011 14:51:30 -0700 (PDT) In-Reply-To: <20110826150621.76da81e7@ledaig.d.umn.edu> References: <20110824120319.b46xhd35wgss00os@webmail.uni-potsdam.de> <20110824104700.47e095f2@pavilion64.home.lan> <20110825002133.54j5on98iswwo808@webmail.uni-potsdam.de> <1314292937.17785.4.camel@moose.ibmt.intern> <20110826150621.76da81e7@ledaig.d.umn.edu> Date: Fri, 26 Aug 2011 16:51:30 -0500 Message-ID: Subject: Re: [gentoo-science] sci-mathematics/sage-4.7.1 and numpy version From: Steven Trogdon To: gentoo-science@lists.gentoo.org Content-Type: multipart/mixed; boundary=0016e64b902a492fd104ab6f8cc5 X-Virus-Scanned: clamav-milter 0.96.5 at mxv2.d.umn.edu X-Virus-Status: Clean X-Archives-Salt: X-Archives-Hash: c17664ea23a1368742c086ce0cb174c7 --0016e64b902a492fd104ab6f8cc5 Content-Type: multipart/alternative; boundary=0016e64b902a492fc204ab6f8cc3 --0016e64b902a492fc204ab6f8cc3 Content-Type: text/plain; charset=ISO-8859-1 On Thu, 25 Aug 2011 19:22:17 +0200 Juergen Rose wrote: > Am Donnerstag, den 25.08.2011, 00:21 +0200 schrieb > rose@rz.uni-potsdam.de: > > .. > > File > > "/usr/lib64/python3.2/site-packages/numpy/distutils/system_info.py", > > line 461, in get_info > > raise self.notfounderror(self.notfounderror.__doc__) > > numpy.distutils.system_info.BlasNotFoundError: > > Blas (http://www.netlib.org/blas/) libraries not found. > > Directories to search for the libraries can be specified in the > > numpy/distutils/site.cfg file (section [blas]) or by setting > > the BLAS environment variable. > > * ERROR: sci-libs/scipy-0.9.0-r1 failed (compile phase): > > * Building failed with CPython 3.2 in distutils_building() function > > > > > > USE_PYTHON="2.7" 'emerge -v1 scipy' > > My last mail was not complete. I wanted to say 'emerge -v1 scipy' fails > after downgrading numpy, but 'USE_PYTHON="2.7" emerge -v1 scipy' works. > > And I reemerged also matplotlib, but as described in an other thread > > sage -testall > > still generates still between about 150 and 220 errors. > > Regards > > > Juergen, Do you by chance have singular-3.1.3.1 or any other singular except the sog singular (singular-3.1.1.4-r1) installed. If so, you should install the sog singular. When I have an incorrect singular installed I get things like: sage -t -force_lib "devel/sage/doc/fr/tutorial/tour_advanced.rst" // ** Could not open dynamic library: /usr/lib/singular/p_Procs_FieldQ.so // ** Error message from system: /usr/lib/singular/p_Procs_FieldQ.so: undefined symbol: _Z17nlShort3_noinlineP7snumber // ** Singular will work properly, but much slower. // ** See the INSTALL section in the Singular manual for details. which appear in your sage_test_impala.log file. This will not cure all your problems but perhaps is a start. I suspect, for some reason, you have unstable packages installed that do not play well with sage (my guess). Could you post the output of Tools/list-compare-deps sci-mathematics/sage Tools is a folder under the sog overlay. I believe the tool still reports things correctly. This may give an indication of what you have installed. Steve --0016e64b902a492fc204ab6f8cc3 Content-Type: text/html; charset=ISO-8859-1 Content-Transfer-Encoding: quoted-printable
On Thu, 25 Aug 2011 19:22:17 +0200
Juergen Rose <rose@rz.uni-potsdam.de> wrote:

> Am Donnerstag, den 25.08.2011, 00:21 +0200 schrieb
> rose@rz.un= i-potsdam.de:
>
> ..
> > File
> > "/usr/lib64/python3.2/site-packages/numpy/distutils/system_i= nfo.py",
> > line 461, in get_info
> > raise self.notfounderror(self.notfounderror.__doc__)
> > numpy.distutils.system_info.BlasNotFoundError:
> > Blas (h= ttp://www.netlib.org/blas/) libraries not found.
> > Directories to search for the libraries can be specified in the > > numpy/distutils/site.cfg file (section [blas]) or by setting
> > the BLAS environment variable.
> > * ERROR: sci-libs/scipy-0.9.0-r1 failed (compile phase):
> > * Building failed with CPython 3.2 in distutils_building() functi= on
> >
> >
> > USE_PYTHON=3D"2.7" 'emerge -v1 scipy'
>
> My last mail was not complete. =A0I wanted to say 'emerge -v1 scip= y' fails
> after downgrading numpy, but 'USE_PYTHON=3D"2.7" emerge = -v1 scipy' works.
>
> And I reemerged also matplotlib, but as described in an other thread >
> sage -testall
>
> still generates still between about 150 and 220 errors.
>
> Regards
>
>
>

Juergen,

Do you by chance have singular-3.1.3.1 or any other singular except the sog= singular (singular-3.1.1.4-r1) installed. If so, you should install the so= g singular. When I have an incorrect singular installed I get things like:<= br>
sage -t -force_lib "devel/sage/doc/fr/tutorial/tour_advanced.rst"=
// ** Could not open dynamic library: /usr/lib/singular/p_Procs_FieldQ.so // ** Error message from system: /usr/lib/singular/p_Procs_FieldQ.so: undef= ined symbol: _Z17nlShort3_noinlineP7snumber
// ** Singular will work properly, but much slower.
// ** See the INSTALL section in the Singular manual for details.

which appear in your sage_test_impala.log file. This will not cure all your= problems but perhaps is a start. I suspect, for some reason, you have unst= able packages installed that do not play well with sage (my guess). Could y= ou post the output of

Tools/list-compare-deps sci-mathematics/sage

Tools is a folder under the sog overlay. I believe the tool still reports t= hings correctly. This may give an indication of what you have installed.
Steve

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