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 04DE213877A for ; Sun, 15 Jun 2014 21:27:52 +0000 (UTC) Received: from pigeon.gentoo.org (localhost [127.0.0.1]) by pigeon.gentoo.org (Postfix) with SMTP id 2CC87E0AE2; Sun, 15 Jun 2014 21:27:51 +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 2B4FBE0AD3 for ; Sun, 15 Jun 2014 21:27:50 +0000 (UTC) Received: from CONVERSION-DAEMON.it.canterbury.ac.nz by it.canterbury.ac.nz (PMDF V6.6-x1 #32072) id <01P92RELMB8WC4QC7P@it.canterbury.ac.nz> for gentoo-science@lists.gentoo.org; Mon, 16 Jun 2014 09:27:47 +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 <01P92RELE180C4SDFL@it.canterbury.ac.nz> for gentoo-science@lists.gentoo.org; Mon, 16 Jun 2014 09:27:47 +1300 (NEW ZEALAND DAYLIGHT TIME) Date: Mon, 16 Jun 2014 09:27:46 +1200 From: =?ISO-8859-1?Q?Fran=E7ois?= Bissey Subject: Re: [gentoo-science] Trouble building scipy-0.14.0 against acml In-reply-to: <539E0E1E.4090809@arcor.de> To: gentoo-science@lists.gentoo.org Message-id: <3772471.5HhGzORDUY@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> <22299218.XoNdmmyfZh@qcd-nzi3> <539E0E1E.4090809@arcor.de> X-Archives-Salt: aaea95e4-eb54-45be-861e-1e85e1f5c988 X-Archives-Hash: 24a596a62c899d0ce6be29ee4b31d1c5 It looks like one of my messages didn't make it to the list but that on= e did: http://article.gmane.org/gmane.linux.gentoo.science/2148 My final opinion on the matter looking at your site.cfg is that you don= 't have a blas eselected at all and that's not a valid configuration. eselect blas list will tell you all the implementation of blas available choose the one that match your current lapack one. Francois On Sun, 15 Jun 2014 23:20:30 Bastian L=F6ffler wrote: > I did. I posted site.cfg an regarding numpy: Installing this was some= > time ago. Its an scipy update making trouble. >=20 > Regards Bastian >=20 > Am 15.06.2014 23:13, schrieb Fran=E7ois Bissey: > > You obviously didn't read my last two emails. > >=20 > > Francois > >=20 > > 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 = wrote: > >>>>> Hi, > >>>>>=20 > >>>>> Could you post the file: > >>>>> /var/tmp/portage/sci-libs/scipy-0.14.0/work/scipy-0.14.0-python= 2_7/sit > >>>>> e. > >>>>> 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 i= t > >>>>>> 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= the > >>>>>> numpy/distutils/site.cfg file (section [blas]) or by settin= g > >>>>>> 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_= impl > >>>>>> 'python_compile' > >>>>>> * environment, line 312: Called python_parallel_foreach_im= pl > >>>>>> 'distutils-r1_run_phase' 'python_compile' > >>>>>> * environment, line 3808: Called > >>>>>> multibuild_parallel_foreach_variant > >>>>>> '_python_multibuild_wrapper' 'distutils-r1_run_phase' > >>>>>> 'python_compile' > >>>>>> * 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_compile' > >>>>>> * 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_compil= e > >>>>>> '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-pyth= on2_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: = (6675) > >>>>>> - > >>>>>> 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: Unkno= wn > >>>>>> distribution option: 'test_suite' > >>>>>>=20 > >>>>>> warnings.warn(msg) > >>>>>>=20 > >>>>>> /usr/lib64/python3.3/site-packages/numpy/distutils/system_info= .py:151 > >>>>>> 1: > >>>>>>=20 > >>>>>> UserWarning: > >>>>>> Atlas ( > >>>>>>=20 > >>>>>> http://math-atlas.sourceforge.net/ > >>>>>> ) libraries not found. > >>>>>>=20 > >>>>>> Directories to search for the libraries can be specified in= the > >>>>>> numpy/distutils/site.cfg file (section [atlas]) or by setti= ng > >>>>>> the ATLAS environment variable. > >>>>>> =20 > >>>>>> warnings.warn(AtlasNotFoundError.__doc__) > >>>>>>=20 > >>>>>> /usr/lib64/python3.3/site-packages/numpy/distutils/system_info= .py: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= .py:152 > >>>>>> 0: > >>>>>>=20 > >>>>>> UserWarning: > >>>>>> Blas ( > >>>>>>=20 > >>>>>> http://www.netlib.org/blas/ > >>>>>> ) libraries not found. > >>>>>>=20 > >>>>>> Directories to search for the libraries can be specified in= the > >>>>>> numpy/distutils/site.cfg file (section [blas]) or by settin= g > >>>>>> the BLAS environment variable. > >>>>>> =20 > >>>>>> warnings.warn(BlasNotFoundError.__doc__) > >>>>>>=20 > >>>>>> /usr/lib64/python3.3/site-packages/numpy/distutils/system_info= .py:152 > >>>>>> 3: > >>>>>>=20 > >>>>>> UserWarning: > >>>>>> Blas ( > >>>>>>=20 > >>>>>> http://www.netlib.org/blas/ > >>>>>> ) sources not found. > >>>>>>=20 > >>>>>> Directories to search for the sources can be specified in t= he > >>>>>> numpy/distutils/site.cfg file (section [blas_src]) or by se= tting > >>>>>> 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= .py", > >>>>>>=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_inf= o.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_inf= o.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= the > >>>>>> numpy/distutils/site.cfg file (section [blas]) or by settin= g > >>>>>> 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_= impl > >>>>>> 'python_compile' > >>>>>> * environment, line 312: Called python_parallel_foreach_im= pl > >>>>>> 'distutils-r1_run_phase' 'python_compile' > >>>>>> * environment, line 3808: Called > >>>>>> multibuild_parallel_foreach_variant > >>>>>> '_python_multibuild_wrapper' 'distutils-r1_run_phase' > >>>>>> 'python_compile' > >>>>>> * 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_compile' > >>>>>> * 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_compil= e > >>>>>> '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-pyth= on3_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: = (6675) > >>>>>> - > >>>>>> No such process > >>>>>>=20 > >>>>>>>>> Failed to emerge sci-libs/scipy-0.14.0, Log file: