Date: Tue, 15 Jul 2014 19:11:31 -0400 From: "John W. O'Brien" <john@saltant.com> To: Irjohn Junus <i.junus@gmail.com> Cc: Jimmy Olgeni <olgeni@freebsd.org>, FreeBSD Python List <freebsd-python@FreeBSD.org> Subject: Re: math/py-numpy cannot satisfy libgfortran dependency on libgcc_s/GCC_4.6.0 [WAS: Re: py27-pandas-0.13.1_1 conflict with py27-MySQLdb-1.2.3_4] Message-ID: <53C5B523.3090308@saltant.com> In-Reply-To: <CALXkR%2B9Va2zs15oTQP7BPcv4NaZotvkE4aorg=CMDatn4Zi8fg@mail.gmail.com> References: <CALXkR%2B8ivP3m2aJN%2Bm88Sz%2B4BodAxnYioBvgUotFZf_-TVPLgg@mail.gmail.com> <536C40B0.2060705@saltant.com> <CALXkR%2B_r4kG8CHO8R2MOsGHK4JDeEMa28MN4rzZ1hAtd%2BzAu4g@mail.gmail.com> <53718C14.1040807@saltant.com> <CALXkR%2B-6_2k4pD7-Ln6e-PbgFTKriRXSrqOpd=UVbwppi=dpvg@mail.gmail.com> <5385CF53.10608@saltant.com> <CALXkR%2B9Va2zs15oTQP7BPcv4NaZotvkE4aorg=CMDatn4Zi8fg@mail.gmail.com>
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This is an OpenPGP/MIME signed message (RFC 4880 and 3156) --qP3HcQnIDR53mDuplFo3v4wImX8npCEO6 Content-Type: text/plain; charset=UTF-8 Content-Transfer-Encoding: quoted-printable On 6/14/14 10:24 PM, Irjohn Junus wrote: > Here's my /usr/local/lib/compat/pkg: > [ijunus@mars /]$ ls /usr/local/lib/compat/pkg > libXau.so.0libgd.so.4libxcb-sync.so.0 > libaprutil-1.so.3libpcre.so.1libxcb-xkb.so.0 > libatalk.so.3libpcre16.so.0libxcb.so.2 > libffi.so.5libpixman-1.so.30lxml-3.1.0-py2.7.egg-info > libfreetype.so.9libsvn_ra_neon-1.so.0 > libgcrypt.so.18libxcb-randr.so.1 Irjohn, None of that looks suspicious to me. I'm sorry to leave you hanging like this, but I'm at a loss for how to proceed. If you have any updates, like things you've tried or---even better---that the problem cleared up on its own, please let us know. In the mean time, perhaps somebody else will have some insight into what's going on. -John > On Wed, May 28, 2014 at 7:58 PM, John W. O'Brien <john@saltant.com > <mailto:john@saltant.com>> wrote: >=20 > On 5/18/14 12:30 AM, Irjohn Junus wrote: > > Thank you for looking at this. Apologies for my late reply it's b= een > > crazy busy at work lately. >=20 > I completely understand. As you can probably tell, my situation is > similar. >=20 > > Here's answers to your questions: >=20 > >> 1. What is the rpath stored in your copy of those numpy file= s? > >> That is, what is the output from > >> > >> cd /usr/local/lib/python2.7/site-packages/numpy/linal= g > >> readelf -d _umath_linalg.so | grep RPATH > >> readelf -d lapack_lite.so | grep RPATH > >> > >> ? >=20 > > readelf -d _umath_linalg.so | grep RPATH > > 0x000000000000000f (RPATH) Library rpath: > > [/usr/local/lib/gcc47] > > readelf -d lapack_lite.so | grep RPATH > > 0x000000000000000f (RPATH) Library rpath: > > [/usr/local/lib/gcc47] >=20 > That looks correct to me. >=20 > >> 2. What is the contents of > >> =20 > /usr/local/lib/python2.7/site-packages/numpy/distutils/site.cfg on= your > >> machine? >=20 > > cat /usr/local/lib/python2.7/site-packages/numpy/distutils/site.c= fg > > [DEFAULT] > > lapack_type=3Datlas > > library_dirs =3D > > > /usr/lib:/usr/local/lib:/usr/local/lib/gcc47/gcc/x86_64-portbld-fre= ebsd9.1/4.7.3/../../../ > > include_dirs =3D > > /usr/include:/usr/local/include:/usr/local/include/suitesparse > > src_dirs =3D /usr/local/src > > # search static libraries (.a) in preference to shared ones (.so)= > > search_static_first =3D 0 > > [atlas] > > library_dirs =3D > > > /usr/local/lib:/usr/local/lib/gcc47/gcc/x86_64-portbld-freebsd9.1/4= =2E7.3/../../../ > > atlas_libs =3D lapack, blas >=20 > Just like mine. >=20 > >> 2. What is the contents of /etc/make.conf on your machine? >=20 > > cat /etc/make.conf > > # added by use.perl 2013-03-25 18:12:09 > > PERL_VERSION=3D5.12.4 > > #WITH_MPM=3Dworker >=20 > Totally innocuous. >=20 > >> 4. How to you install and upgrade your ports? Build from so= urce > >> by hand? Build from source with the help of portmaster, > >> poudriere, etc? > >> Install binary packages with pkg_* or ports-mgmt/pkg (pk= gng)? >=20 > > 4. > > I use portmaster exclusively, to install: > > portmaster --packages-build --delete-build-only port-name > > to upgrade: > > portmaster --dwv port-name >=20 > I'm taking a stab in the dark here. Based on the '-w' option, might= > there be any stale libs hanging around in /usr/local/lib/compat/pkg= ? >=20 > I haven't been able to reproduce this, so I'm not sure which tree t= o > bark up next. --qP3HcQnIDR53mDuplFo3v4wImX8npCEO6 Content-Type: application/pgp-signature; name="signature.asc" Content-Description: OpenPGP digital signature Content-Disposition: attachment; filename="signature.asc" -----BEGIN PGP SIGNATURE----- Version: GnuPG/MacGPG2 v2.0.22 (Darwin) iQEcBAEBCgAGBQJTxbUnAAoJEORay8JGGICYbywIAItG+s4tPFI8igGfsTJ8ltfh +jan/L6QDx0/ahSSh9ArnGNgUfJPjfbvn3G39f0E6GpD8Ijl7QiQKidMfw6EySQY xgympHiFft3y0A4ooHLrWi9oWT79zSNzUYFuOO0QgFMquWYIuGVwFgAc3mo6gfWh /tb0WYR31AnZQ/bkP7cA4yxcG5NPf1RDMJCifg2kqYHv7mtRuq/RJfo1UJ+zyY7Z cRLwwfGlAfzTxZWIriQ/LHwrr2iN5uV8KAtDv1b2x045v8v2BcizO2fnT+uke3gu ZDBv+fY80zxIIGk3tDHjRCbX95hwgNPedb23kozlDrbAWiFe4vQBH+SWcofDjng= =1tED -----END PGP SIGNATURE----- --qP3HcQnIDR53mDuplFo3v4wImX8npCEO6--
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