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Date:      Tue, 5 Feb 2019 16:21:54 GMT
From:      pkg-fallout@FreeBSD.org
To:        pkg-fallout@FreeBSD.org
Subject:   [package - 120armv7-quarterly][science/py-netCDF4] Failed for py36-netCDF4-1.3.1_3 in configure
Message-ID:  <201902051621.x15GLsxU044909@beefy13.nyi.freebsd.org>

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You are receiving this mail as a port that you maintain
is failing to build on the FreeBSD package build server.
Please investigate the failure and submit a PR to fix
build.

Maintainer:     bofh@FreeBSD.org
Last committer: gerald@FreeBSD.org
Ident:          $FreeBSD: branches/2019Q1/science/py-netCDF4/Makefile 487272 2018-12-12 01:35:33Z gerald $
Log URL:        http://beefy13.nyi.freebsd.org/data/120armv7-quarterly/492187/logs/py36-netCDF4-1.3.1_3.log
Build URL:      http://beefy13.nyi.freebsd.org/build.html?mastername=120armv7-quarterly&build=492187
Log:

=>> Building science/py-netCDF4
build started at Tue Feb  5 16:21:17 UTC 2019
port directory: /usr/ports/science/py-netCDF4
package name: py36-netCDF4-1.3.1_3
building for: FreeBSD 120armv7-quarterly-job-23 12.0-RELEASE-p2 FreeBSD 12.0-RELEASE-p2 1200086 arm
maintained by: bofh@FreeBSD.org
Makefile ident:      $FreeBSD: branches/2019Q1/science/py-netCDF4/Makefile 487272 2018-12-12 01:35:33Z gerald $
Poudriere version: 3.2.8
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Jail OSVERSION: 1200086
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---Begin OPTIONS List---
===> The following configuration options are available for py36-netCDF4-1.3.1_3:
     DOCS=on: Build and/or install documentation
     EXAMPLES=on: Build and/or install examples
===> Use 'make config' to modify these settings
---End OPTIONS List---

--MAINTAINER--
bofh@FreeBSD.org
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--CONFIGURE_ARGS--

--End CONFIGURE_ARGS--

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--End PLIST_SUB--

--SUB_LIST--
PREFIX=/usr/local LOCALBASE=/usr/local  DATADIR=/usr/local/share/py36-netCDF4 DOCSDIR=/usr/local/share/doc/py36-netCDF4 EXAMPLESDIR=/usr/local/share/examples/py36-netCDF4  WWWDIR=/usr/local/www/py36-netCDF4 ETCDIR=/usr/local/etc/py36-netCDF4
--End SUB_LIST--

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=======================<phase: check-sanity   >============================
===>  License MIT accepted by the user
===========================================================================
=======================<phase: pkg-depends    >============================
===>   py36-netCDF4-1.3.1_3 depends on file: /usr/local/sbin/pkg - not found
===>   Installing existing package /packages/All/pkg-1.10.5_5.txz
[120armv7-quarterly-job-23] Installing pkg-1.10.5_5...
[120armv7-quarterly-job-23] Extracting pkg-1.10.5_5: .......... done
===>   py36-netCDF4-1.3.1_3 depends on file: /usr/local/sbin/pkg - found
===>   Returning to build of py36-netCDF4-1.3.1_3
===========================================================================
=======================<phase: fetch-depends  >============================
===========================================================================
=======================<phase: fetch          >============================
===>  License MIT accepted by the user
===> Fetching all distfiles required by py36-netCDF4-1.3.1_3 for building
===========================================================================
=======================<phase: checksum       >============================
===>  License MIT accepted by the user
===> Fetching all distfiles required by py36-netCDF4-1.3.1_3 for building
=> SHA256 Checksum OK for Unidata-netcdf4-python-v1.3.1rel_GH0.tar.gz.
<snip>
[120armv7-quarterly-job-23] `-- Extracting cblas-1.0_10: ......... done
[120armv7-quarterly-job-23] `-- Installing lapack-3.5.0_6...
[120armv7-quarterly-job-23] `-- Extracting lapack-3.5.0_6: .......... done
[120armv7-quarterly-job-23] `-- Installing py36-setuptools-40.6.2...
[120armv7-quarterly-job-23] |   `-- Installing python36-3.6.7...
[120armv7-quarterly-job-23] |   | `-- Installing libffi-3.2.1_3...
[120armv7-quarterly-job-23] |   | `-- Extracting libffi-3.2.1_3: .......... done
[120armv7-quarterly-job-23] |   | `-- Installing readline-7.0.5...
[120armv7-quarterly-job-23] |   | `-- Extracting readline-7.0.5: .......... done
[120armv7-quarterly-job-23] |   `-- Extracting python36-3.6.7: .......... done
[120armv7-quarterly-job-23] `-- Extracting py36-setuptools-40.6.2: .......... done
[120armv7-quarterly-job-23] `-- Installing suitesparse-5.2.0_2...
[120armv7-quarterly-job-23] |   `-- Installing metis-5.1.0_6...
[120armv7-quarterly-job-23] |   `-- Extracting metis-5.1.0_6: .......... done
[120armv7-quarterly-job-23] |   `-- Installing openblas-0.2.20_7,1...
[120armv7-quarterly-job-23] |   `-- Extracting openblas-0.2.20_7,1: ......... done
[120armv7-quarterly-job-23] `-- Extracting suitesparse-5.2.0_2: .......... done
[120armv7-quarterly-job-23] Extracting py36-numpy-1.15.4_1,1: .......... done
Message from gcc8-8.2.0_4:

To ensure binaries built with this toolchain find appropriate versions
of the necessary run-time libraries, you may want to link using

  -Wl,-rpath=/usr/local/lib/gcc8

For ports leveraging USE_GCC, USES=compiler, or USES=fortran this happens
transparently.
Message from cblas-1.0_10:

===>   NOTICE:

The cblas port currently does not have a maintainer. As a result, it is
more likely to have unresolved issues, not be up-to-date, or even be removed in
the future. To volunteer to maintain this port, please create an issue at:

https://bugs.freebsd.org/bugzilla

More information about port maintainership is available at:

https://www.freebsd.org/doc/en/articles/contributing/ports-contributing.html#maintain-port
Message from python36-3.6.7:

===========================================================================

Note that some standard Python modules are provided as separate ports
as they require additional dependencies. They are available as:

py36-gdbm       databases/py-gdbm@py36
py36-sqlite3    databases/py-sqlite3@py36
py36-tkinter    x11-toolkits/py-tkinter@py36

===========================================================================
Message from py36-setuptools-40.6.2:

*******************************************************************

  Only /usr/local/bin/easy_install-3.6 script has been installed
  since Python 3.6 is not the default Python version.

*******************************************************************
Message from metis-5.1.0_6:

===>   NOTICE:

The metis port currently does not have a maintainer. As a result, it is
more likely to have unresolved issues, not be up-to-date, or even be removed in
the future. To volunteer to maintain this port, please create an issue at:

https://bugs.freebsd.org/bugzilla

More information about port maintainership is available at:

https://www.freebsd.org/doc/en/articles/contributing/ports-contributing.html#maintain-port
===>   py36-netCDF4-1.3.1_3 depends on package: py36-numpy>0 - found
===>   Returning to build of py36-netCDF4-1.3.1_3
===>   py36-netCDF4-1.3.1_3 depends on file: /usr/local/bin/cython - not found
===>   Installing existing package /packages/All/py27-cython-0.29.txz
[120armv7-quarterly-job-23] Installing py27-cython-0.29...
[120armv7-quarterly-job-23] `-- Installing py27-setuptools-40.6.2...
[120armv7-quarterly-job-23] |   `-- Installing python27-2.7.15...
[120armv7-quarterly-job-23] |   `-- Extracting python27-2.7.15: .......... done
[120armv7-quarterly-job-23] `-- Extracting py27-setuptools-40.6.2: .......... done
[120armv7-quarterly-job-23] Extracting py27-cython-0.29: .......... done
Message from python27-2.7.15:

===========================================================================

Note that some standard Python modules are provided as separate ports
as they require additional dependencies. They are available as:

bsddb           databases/py-bsddb
gdbm            databases/py-gdbm
sqlite3         databases/py-sqlite3
tkinter         x11-toolkits/py-tkinter

===========================================================================
===>   py36-netCDF4-1.3.1_3 depends on file: /usr/local/bin/cython - found
===>   Returning to build of py36-netCDF4-1.3.1_3
===>   py36-netCDF4-1.3.1_3 depends on executable: cython-3.6 - not found
===>   Installing existing package /packages/All/py36-cython-0.29.txz
[120armv7-quarterly-job-23] Installing py36-cython-0.29...
[120armv7-quarterly-job-23] Extracting py36-cython-0.29: .......... done
===>   py36-netCDF4-1.3.1_3 depends on executable: cython-3.6 - found
===>   Returning to build of py36-netCDF4-1.3.1_3
===>   py36-netCDF4-1.3.1_3 depends on package: py36-setuptools>0 - found
===>   py36-netCDF4-1.3.1_3 depends on file: /usr/local/bin/python3.6 - found
===========================================================================
=======================<phase: lib-depends    >============================
===>   py36-netCDF4-1.3.1_3 depends on shared library: libhdf5.so - not found
===>   Installing existing package /packages/All/hdf5-1.10.2_1.txz
[120armv7-quarterly-job-23] Installing hdf5-1.10.2_1...
[120armv7-quarterly-job-23] `-- Installing hdf-szip-2.1_2...
[120armv7-quarterly-job-23] `-- Extracting hdf-szip-2.1_2: .......... done
[120armv7-quarterly-job-23] Extracting hdf5-1.10.2_1: .......... done
===>   py36-netCDF4-1.3.1_3 depends on shared library: libhdf5.so - found (/usr/local/lib/libhdf5.so)
===>   Returning to build of py36-netCDF4-1.3.1_3
===>   py36-netCDF4-1.3.1_3 depends on shared library: libnetcdf.so - not found
===>   Installing existing package /packages/All/netcdf-4.6.1_1.txz
[120armv7-quarterly-job-23] Installing netcdf-4.6.1_1...
[120armv7-quarterly-job-23] `-- Installing curl-7.62.0...
[120armv7-quarterly-job-23] |   `-- Installing ca_root_nss-3.42.1...
[120armv7-quarterly-job-23] |   `-- Extracting ca_root_nss-3.42.1: ........ done
[120armv7-quarterly-job-23] |   `-- Installing libnghttp2-1.35.1...
[120armv7-quarterly-job-23] |   `-- Extracting libnghttp2-1.35.1: .......... done
[120armv7-quarterly-job-23] `-- Extracting curl-7.62.0: .......... done
[120armv7-quarterly-job-23] `-- Installing pkgconf-1.5.4,1...
[120armv7-quarterly-job-23] `-- Extracting pkgconf-1.5.4,1: .......... done
[120armv7-quarterly-job-23] Extracting netcdf-4.6.1_1: .......... done
Message from ca_root_nss-3.42.1:

********************************* WARNING *********************************

FreeBSD does not, and can not warrant that the certification authorities
whose certificates are included in this package have in any way been
audited for trustworthiness or RFC 3647 compliance.

Assessment and verification of trust is the complete responsibility of the
system administrator.

*********************************** NOTE **********************************

This package installs symlinks to support root certificates discovery by
default for software that uses OpenSSL.

This enables SSL Certificate Verification by client software without manual
intervention.

If you prefer to do this manually, replace the following symlinks with
either an empty file or your site-local certificate bundle.

  * /etc/ssl/cert.pem
  * /usr/local/etc/ssl/cert.pem
  * /usr/local/openssl/cert.pem

***************************************************************************
===>   py36-netCDF4-1.3.1_3 depends on shared library: libnetcdf.so - found (/usr/local/lib/libnetcdf.so)
===>   Returning to build of py36-netCDF4-1.3.1_3
===========================================================================
=======================<phase: configure      >============================
===>  Configuring for py36-netCDF4-1.3.1_3
Package hdf5 was not found in the pkg-config search path.
Perhaps you should add the directory containing `hdf5.pc'
to the PKG_CONFIG_PATH environment variable
Package 'hdf5', required by 'virtual:world', not found
reading from setup.cfg...
using nc-config ...
HDF5 library version: 1.10.2 found in None
Traceback (most recent call last):
  File "/usr/local/lib/python3.6/site-packages/numpy/core/__init__.py", line 16, in <module>
    from . import multiarray
ImportError: /usr/local/lib/libblas.so.2: Undefined symbol "__aeabi_uidiv@GCC_3.5"

During handling of the above exception, another exception occurred:

Traceback (most recent call last):
  File "<string>", line 1, in <module>
  File "setup.py", line 458, in <module>
    import numpy
  File "/usr/local/lib/python3.6/site-packages/numpy/__init__.py", line 142, in <module>
    from . import add_newdocs
  File "/usr/local/lib/python3.6/site-packages/numpy/add_newdocs.py", line 13, in <module>
    from numpy.lib import add_newdoc
  File "/usr/local/lib/python3.6/site-packages/numpy/lib/__init__.py", line 8, in <module>
    from .type_check import *
  File "/usr/local/lib/python3.6/site-packages/numpy/lib/type_check.py", line 11, in <module>
    import numpy.core.numeric as _nx
  File "/usr/local/lib/python3.6/site-packages/numpy/core/__init__.py", line 26, in <module>
    raise ImportError(msg)
ImportError: 
Importing the multiarray numpy extension module failed.  Most
likely you are trying to import a failed build of numpy.
If you're working with a numpy git repo, try `git clean -xdf` (removes all
files not under version control).  Otherwise reinstall numpy.

Original error was: /usr/local/lib/libblas.so.2: Undefined symbol "__aeabi_uidiv@GCC_3.5"

*** Error code 1

Stop.
make: stopped in /usr/ports/science/py-netCDF4



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