From mboxrd@z Thu Jan 1 00:00:00 1970 Return-Path: Received: from lists.gentoo.org (pigeon.gentoo.org [208.92.234.80]) by finch.gentoo.org (Postfix) with ESMTP id 629A113877A for ; Sun, 15 Jun 2014 21:13:47 +0000 (UTC) Received: from pigeon.gentoo.org (localhost [127.0.0.1]) by pigeon.gentoo.org (Postfix) with SMTP id 39E7CE08A2; Sun, 15 Jun 2014 21:13:46 +0000 (UTC) Received: from cantva.canterbury.ac.nz (cantva.canterbury.ac.nz [132.181.2.27]) (using TLSv1 with cipher DHE-RSA-AES256-SHA (256/256 bits)) (No client certificate requested) by pigeon.gentoo.org (Postfix) with ESMTPS id 353D2E087D for ; Sun, 15 Jun 2014 21:13:44 +0000 (UTC) Received: from CONVERSION-DAEMON.it.canterbury.ac.nz by it.canterbury.ac.nz (PMDF V6.6-x1 #32072) id <01P92QX44QS0C3T70L@it.canterbury.ac.nz> for gentoo-science@lists.gentoo.org; Mon, 16 Jun 2014 09:13:41 +1300 (NEW ZEALAND DAYLIGHT TIME) Received: from qcd-nzi3.localnet (QCD-nzi3.canterbury.ac.nz [132.181.64.206]) by it.canterbury.ac.nz (PMDF V6.6-x1 #32072) with ESMTPS id <01P92QX3X0I2C7JUEB@it.canterbury.ac.nz> for gentoo-science@lists.gentoo.org; Mon, 16 Jun 2014 09:13:41 +1300 (NEW ZEALAND DAYLIGHT TIME) Date: Mon, 16 Jun 2014 09:13:40 +1200 From: =?ISO-8859-1?Q?Fran=E7ois?= Bissey Subject: Re: [gentoo-science] Trouble building scipy-0.14.0 against acml In-reply-to: <539DAC33.7070303@arcor.de> To: gentoo-science@lists.gentoo.org Message-id: <22299218.XoNdmmyfZh@qcd-nzi3> Organization: BlueFern 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 Content-type: text/plain; charset=iso-8859-1 Content-transfer-encoding: quoted-printable User-Agent: KMail/4.12.5 (Linux/3.8.13-gentoo; KDE/4.12.5; x86_64; ; ) References: <53959961.1060000@bastian-loeffler.de> <5395FFDF.3000502@arcor.de> <539DAC33.7070303@arcor.de> X-Archives-Salt: 3a222e51-ecba-46cb-a36b-281dc157ea16 X-Archives-Hash: 892bdd92c24af7957708ebe14d17f7f4 You obviously didn't read my last two emails. Francois On Sun, 15 Jun 2014 16:22:43 Bastian L=F6ffler wrote: > I still have this problem when updating to scipy-0.14.0. Ideas? >=20 > Am 09.06.2014 20:41, schrieb Bastian L=F6ffler: > > Hi, > >=20 > > this is > >=20 > > /var/tmp/portage/sci-libs/scipy-0.14.0/work/scipy-0.14.0-python2_7/= site.cf > > g: > >=20 > > [blas] > > include_dirs =3D > > library_dirs =3D :/usr/lib64 > > blas_libs =3D > > [lapack] > > library_dirs =3D //opt/acml5.3.1/gfortran64/lib:/usr/lib64 > > lapack_libs =3D acml > >=20 > > Buliding numpy is ago. This is any scipy update. > >=20 > > Am 09.06.2014 13:51, schrieb Fran=E7ois Bissey: > >> numpy not bumpy. Sorry for the noise. > >>=20 > >> On 9/06/2014, at 23:42, Fran=E7ois Bissey w= rote: > >>> Hi, > >>>=20 > >>> Could you post the file: > >>> /var/tmp/portage/sci-libs/scipy-0.14.0/work/scipy-0.14.0-python2_= 7/site. > >>> cfg > >>> for our perusal? You obviously managed to merge bumpy which > >>> fundamentally > >>> should have the exact same problem. > >>> Was it just before scipy or a while ago? > >>>=20 > >>> Fran=E7ois > >>>=20 > >>> On 9/06/2014, at 23:25, Bastian L=F6ffler =20 wrote: > >>>> Hi all, > >>>>=20 > >>>> I can not build scipy 0.14.0 agaonst the currenct aclm since it > >>>> complains a missing blas: > >>>>=20 > >>>> numpy.distutils.system_info.BlasNotFoundError: > >>>> Blas ( > >>>>=20 > >>>> http://www.netlib.org/blas/ > >>>> ) libraries not found. > >>>>=20 > >>>> Directories to search for the libraries can be specified in t= he > >>>> numpy/distutils/site.cfg file (section [blas]) or by setting > >>>> the BLAS environment variable. > >>>>=20 > >>>> * ERROR: sci-libs/scipy-0.14.0::gentoo failed (compile phase): > >>>> * (no error message) > >>>> * > >>>> * Call stack: > >>>> * ebuild.sh, line 93: Called src_compile > >>>> * environment, line 4075: Called distutils-r1_src_compile > >>>> * environment, line 1421: Called _distutils-r1_run_foreach_im= pl > >>>> 'python_compile' > >>>> * environment, line 312: Called python_parallel_foreach_impl= > >>>> 'distutils-r1_run_phase' 'python_compile' > >>>> * environment, line 3808: Called multibuild_parallel_foreach_= variant > >>>> '_python_multibuild_wrapper' 'distutils-r1_run_phase' 'python_co= mpile' > >>>> * environment, line 2855: Called multibuild_foreach_variant > >>>> '_multibuild_parallel' '_python_multibuild_wrapper' > >>>> 'distutils-r1_run_phase' 'python_compile' > >>>> * environment, line 2798: Called _multibuild_run > >>>> '_multibuild_parallel' '_python_multibuild_wrapper' > >>>> 'distutils-r1_run_phase' 'python_compile' > >>>> * environment, line 2796: Called _multibuild_parallel > >>>> '_python_multibuild_wrapper' 'distutils-r1_run_phase' 'python_co= mpile' > >>>> * environment, line 2846: Called _python_multibuild_wrapper > >>>> 'distutils-r1_run_phase' 'python_compile' > >>>> * environment, line 914: Called distutils-r1_run_phase > >>>> 'python_compile' > >>>> * environment, line 1412: Called python_compile > >>>> * environment, line 3315: Called distutils-r1_python_compile > >>>> 'config_fc' '--noopt' '--noarch' > >>>> * environment, line 1292: Called esetup.py 'build' 'config_fc= ' > >>>> '--noopt' '--noarch' > >>>> * environment, line 1862: Called die > >>>> * The specific snippet of code: > >>>> * "${@}" || die > >>>> * > >>>> * If you need support, post the output of `emerge --info > >>>> '=3Dsci-libs/scipy-0.14.0::gentoo'`, > >>>> * the complete build log and the output of `emerge -pqv > >>>> '=3Dsci-libs/scipy-0.14.0::gentoo'`. > >>>> * The complete build log is located at > >>>> '/var/tmp/portage/sci-libs/scipy-0.14.0/temp/build.log'. > >>>> * The ebuild environment file is located at > >>>> '/var/tmp/portage/sci-libs/scipy-0.14.0/temp/environment'. > >>>> * Working directory: > >>>> '/var/tmp/portage/sci-libs/scipy-0.14.0/work/scipy-0.14.0-python= 2_7' > >>>> * S: '/var/tmp/portage/sci-libs/scipy-0.14.0/work/scipy-0.14.0' > >>>> /usr/lib64/portage/bin/isolated-functions.sh: line 226: kill: (6= 675) - > >>>> No such process > >>>> blas_opt_info: > >>>>=20 > >>>> system_info: > >>>> NOT AVAILABLE > >>>>=20 > >>>> blas_info: > >>>> libraries not found in ['/usr/lib64'] > >>>> NOT AVAILABLE > >>>>=20 > >>>> blas_src_info: > >>>> NOT AVAILABLE > >>>>=20 > >>>> /usr/lib64/python3.3/distutils/dist.py:258: UserWarning: Unknown= > >>>> distribution option: 'test_suite' > >>>>=20 > >>>> warnings.warn(msg) > >>>>=20 > >>>> /usr/lib64/python3.3/site-packages/numpy/distutils/system_info.p= y:1511: > >>>>=20 > >>>> UserWarning: > >>>> Atlas ( > >>>>=20 > >>>> http://math-atlas.sourceforge.net/ > >>>> ) libraries not found. > >>>>=20 > >>>> Directories to search for the libraries can be specified in t= he > >>>> numpy/distutils/site.cfg file (section [atlas]) or by setting= > >>>> the ATLAS environment variable. > >>>> =20 > >>>> warnings.warn(AtlasNotFoundError.__doc__) > >>>>=20 > >>>> /usr/lib64/python3.3/site-packages/numpy/distutils/system_info.p= y:566: > >>>> UserWarning: Specified path is invalid. > >>>>=20 > >>>> warnings.warn('Specified path %s is invalid.' % d) > >>>>=20 > >>>> /usr/lib64/python3.3/site-packages/numpy/distutils/system_info.p= y:1520: > >>>>=20 > >>>> UserWarning: > >>>> Blas ( > >>>>=20 > >>>> http://www.netlib.org/blas/ > >>>> ) libraries not found. > >>>>=20 > >>>> Directories to search for the libraries can be specified in t= he > >>>> numpy/distutils/site.cfg file (section [blas]) or by setting > >>>> the BLAS environment variable. > >>>> =20 > >>>> warnings.warn(BlasNotFoundError.__doc__) > >>>>=20 > >>>> /usr/lib64/python3.3/site-packages/numpy/distutils/system_info.p= y:1523: > >>>>=20 > >>>> UserWarning: > >>>> Blas ( > >>>>=20 > >>>> http://www.netlib.org/blas/ > >>>> ) sources not found. > >>>>=20 > >>>> Directories to search for the sources can be specified in the= > >>>> numpy/distutils/site.cfg file (section [blas_src]) or by sett= ing > >>>> the BLAS_SRC environment variable. > >>>> =20 > >>>> warnings.warn(BlasSrcNotFoundError.__doc__) > >>>>=20 > >>>> Traceback (most recent call last): > >>>> File "setup.py", line 237, in > >>>> =20 > >>>> setup_package() > >>>> =20 > >>>> File "setup.py", line 234, in setup_package > >>>> =20 > >>>> setup(**metadata) > >>>> =20 > >>>> File "/usr/lib64/python3.3/site-packages/numpy/distutils/core.p= y", > >>>>=20 > >>>> line 135, in setup > >>>>=20 > >>>> config =3D configuration() > >>>> =20 > >>>> File "setup.py", line 173, in configuration > >>>> =20 > >>>> config.add_subpackage('scipy') > >>>> =20 > >>>> File > >>>>=20 > >>>> "/usr/lib64/python3.3/site-packages/numpy/distutils/misc_util.py= ", line > >>>> 966, in add_subpackage > >>>>=20 > >>>> caller_level =3D 2) > >>>> =20 > >>>> File > >>>>=20 > >>>> "/usr/lib64/python3.3/site-packages/numpy/distutils/misc_util.py= ", line > >>>> 935, in get_subpackage > >>>>=20 > >>>> caller_level =3D caller_level + 1) > >>>> =20 > >>>> File > >>>>=20 > >>>> "/usr/lib64/python3.3/site-packages/numpy/distutils/misc_util.py= ", line > >>>> 872, in _get_configuration_from_setup_py > >>>>=20 > >>>> config =3D setup_module.configuration(*args) > >>>> =20 > >>>> File "scipy/setup.py", line 12, in configuration > >>>> =20 > >>>> config.add_subpackage('integrate') > >>>> =20 > >>>> File > >>>>=20 > >>>> "/usr/lib64/python3.3/site-packages/numpy/distutils/misc_util.py= ", line > >>>> 966, in add_subpackage > >>>>=20 > >>>> caller_level =3D 2) > >>>> =20 > >>>> File > >>>>=20 > >>>> "/usr/lib64/python3.3/site-packages/numpy/distutils/misc_util.py= ", line > >>>> 935, in get_subpackage > >>>>=20 > >>>> caller_level =3D caller_level + 1) > >>>> =20 > >>>> File > >>>>=20 > >>>> "/usr/lib64/python3.3/site-packages/numpy/distutils/misc_util.py= ", line > >>>> 872, in _get_configuration_from_setup_py > >>>>=20 > >>>> config =3D setup_module.configuration(*args) > >>>> =20 > >>>> File "scipy/integrate/setup.py", line 12, in configuration > >>>> =20 > >>>> blas_opt =3D get_info('blas_opt',notfound_action=3D2) > >>>> =20 > >>>> File > >>>>=20 > >>>> "/usr/lib64/python3.3/site-packages/numpy/distutils/system_info.= py", > >>>> line 340, in get_info > >>>>=20 > >>>> return cl().get_info(notfound_action) > >>>> =20 > >>>> File > >>>>=20 > >>>> "/usr/lib64/python3.3/site-packages/numpy/distutils/system_info.= py", > >>>> line 499, in get_info > >>>>=20 > >>>> raise self.notfounderror(self.notfounderror.__doc__) > >>>>=20 > >>>> numpy.distutils.system_info.BlasNotFoundError: > >>>> Blas ( > >>>>=20 > >>>> http://www.netlib.org/blas/ > >>>> ) libraries not found. > >>>>=20 > >>>> Directories to search for the libraries can be specified in t= he > >>>> numpy/distutils/site.cfg file (section [blas]) or by setting > >>>> the BLAS environment variable. > >>>>=20 > >>>> * ERROR: sci-libs/scipy-0.14.0::gentoo failed (compile phase): > >>>> * (no error message) > >>>> * > >>>> * Call stack: > >>>> * ebuild.sh, line 93: Called src_compile > >>>> * environment, line 4075: Called distutils-r1_src_compile > >>>> * environment, line 1421: Called _distutils-r1_run_foreach_im= pl > >>>> 'python_compile' > >>>> * environment, line 312: Called python_parallel_foreach_impl= > >>>> 'distutils-r1_run_phase' 'python_compile' > >>>> * environment, line 3808: Called multibuild_parallel_foreach_= variant > >>>> '_python_multibuild_wrapper' 'distutils-r1_run_phase' 'python_co= mpile' > >>>> * environment, line 2855: Called multibuild_foreach_variant > >>>> '_multibuild_parallel' '_python_multibuild_wrapper' > >>>> 'distutils-r1_run_phase' 'python_compile' > >>>> * environment, line 2798: Called _multibuild_run > >>>> '_multibuild_parallel' '_python_multibuild_wrapper' > >>>> 'distutils-r1_run_phase' 'python_compile' > >>>> * environment, line 2796: Called _multibuild_parallel > >>>> '_python_multibuild_wrapper' 'distutils-r1_run_phase' 'python_co= mpile' > >>>> * environment, line 2846: Called _python_multibuild_wrapper > >>>> 'distutils-r1_run_phase' 'python_compile' > >>>> * environment, line 914: Called distutils-r1_run_phase > >>>> 'python_compile' > >>>> * environment, line 1412: Called python_compile > >>>> * environment, line 3315: Called distutils-r1_python_compile > >>>> 'config_fc' '--noopt' '--noarch' > >>>> * environment, line 1292: Called esetup.py 'build' 'config_fc= ' > >>>> '--noopt' '--noarch' > >>>> * environment, line 1862: Called die > >>>> * The specific snippet of code: > >>>> * "${@}" || die > >>>> * > >>>> * If you need support, post the output of `emerge --info > >>>> '=3Dsci-libs/scipy-0.14.0::gentoo'`, > >>>> * the complete build log and the output of `emerge -pqv > >>>> '=3Dsci-libs/scipy-0.14.0::gentoo'`. > >>>> * The complete build log is located at > >>>> '/var/tmp/portage/sci-libs/scipy-0.14.0/temp/build.log'. > >>>> * The ebuild environment file is located at > >>>> '/var/tmp/portage/sci-libs/scipy-0.14.0/temp/environment'. > >>>> * Working directory: > >>>> '/var/tmp/portage/sci-libs/scipy-0.14.0/work/scipy-0.14.0-python= 3_3' > >>>> * S: '/var/tmp/portage/sci-libs/scipy-0.14.0/work/scipy-0.14.0' > >>>> /usr/lib64/portage/bin/isolated-functions.sh: line 226: kill: (6= 675) - > >>>> No such process > >>>>=20 > >>>>>>> Failed to emerge sci-libs/scipy-0.14.0, Log file: