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Date:      Sat, 20 Apr 2019 01:32:01 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_5 in configure
Message-ID:  <201904200132.x3K1W13x014098@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: sunpoet@FreeBSD.org
Ident:          $FreeBSD: branches/2019Q2/science/py-netCDF4/Makefile 494422 2019-03-02 17:45:58Z sunpoet $
Log URL:        http://beefy13.nyi.freebsd.org/data/120armv7-quarterly/499422/logs/py36-netCDF4-1.3.1_5.log
Build URL:      http://beefy13.nyi.freebsd.org/build.html?mastername=120armv7-quarterly&build=499422
Log:

=>> Building science/py-netCDF4
build started at Sat Apr 20 01:31:05 UTC 2019
port directory: /usr/ports/science/py-netCDF4
package name: py36-netCDF4-1.3.1_5
building for: FreeBSD 120armv7-quarterly-job-17 12.0-RELEASE-p3 FreeBSD 12.0-RELEASE-p3 1200086 arm
maintained by: bofh@FreeBSD.org
Makefile ident:      $FreeBSD: branches/2019Q2/science/py-netCDF4/Makefile 494422 2019-03-02 17:45:58Z sunpoet $
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===> The following configuration options are available for py36-netCDF4-1.3.1_5:
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     EXAMPLES=on: Build and/or install examples
===> Use 'make config' to modify these settings
---End OPTIONS List---

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bofh@FreeBSD.org
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=======================<phase: check-sanity   >============================
===>  License MIT accepted by the user
===========================================================================
=======================<phase: pkg-depends    >============================
===>   py36-netCDF4-1.3.1_5 depends on file: /usr/local/sbin/pkg - not found
===>   Installing existing package /packages/All/pkg-1.10.5_5.txz
[120armv7-quarterly-job-17] Installing pkg-1.10.5_5...
[120armv7-quarterly-job-17] Extracting pkg-1.10.5_5: .......... done
===>   py36-netCDF4-1.3.1_5 depends on file: /usr/local/sbin/pkg - found
===>   Returning to build of py36-netCDF4-1.3.1_5
===========================================================================
=======================<phase: fetch-depends  >============================
===========================================================================
=======================<phase: fetch          >============================
===>  License MIT accepted by the user
===> Fetching all distfiles required by py36-netCDF4-1.3.1_5 for building
===========================================================================
=======================<phase: checksum       >============================
===>  License MIT accepted by the user
===> Fetching all distfiles required by py36-netCDF4-1.3.1_5 for building
=> SHA256 Checksum OK for Unidata-netcdf4-python-v1.3.1rel_GH0.tar.gz.
<snip>
Message from gcc8-8.3.0_1:

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 python36-3.6.8_1:

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

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-40.8.0:

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

  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_7:

===>   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_5 depends on package: py36-numpy>0 - found
===>   Returning to build of py36-netCDF4-1.3.1_5
===>   py36-netCDF4-1.3.1_5 depends on file: /usr/local/bin/cython - not found
===>   Installing existing package /packages/All/py27-cython-0.29.txz
[120armv7-quarterly-job-17] Installing py27-cython-0.29...
[120armv7-quarterly-job-17] `-- Installing py27-setuptools-40.8.0...
[120armv7-quarterly-job-17] |   `-- Installing python27-2.7.16...
[120armv7-quarterly-job-17] |   `-- Extracting python27-2.7.16: .......... done
[120armv7-quarterly-job-17] `-- Extracting py27-setuptools-40.8.0: .......... done
[120armv7-quarterly-job-17] Extracting py27-cython-0.29: .......... done
Message from python27-2.7.16:

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

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_5 depends on file: /usr/local/bin/cython - found
===>   Returning to build of py36-netCDF4-1.3.1_5
===>   py36-netCDF4-1.3.1_5 depends on executable: cython-3.6 - not found
===>   Installing existing package /packages/All/py36-cython-0.29.txz
[120armv7-quarterly-job-17] Installing py36-cython-0.29...
[120armv7-quarterly-job-17] Extracting py36-cython-0.29: .......... done
===>   py36-netCDF4-1.3.1_5 depends on executable: cython-3.6 - found
===>   Returning to build of py36-netCDF4-1.3.1_5
===>   py36-netCDF4-1.3.1_5 depends on package: py36-setuptools>0 - found
===>   py36-netCDF4-1.3.1_5 depends on file: /usr/local/bin/python3.6 - found
===========================================================================
=======================<phase: lib-depends    >============================
===>   py36-netCDF4-1.3.1_5 depends on shared library: libhdf5.so - not found
===>   Installing existing package /packages/All/hdf5-1.10.4.txz
[120armv7-quarterly-job-17] Installing hdf5-1.10.4...
[120armv7-quarterly-job-17] `-- Installing hdf-szip-2.1.1...
[120armv7-quarterly-job-17] `-- Extracting hdf-szip-2.1.1: .......... done
[120armv7-quarterly-job-17] Extracting hdf5-1.10.4: .......... done
===>   py36-netCDF4-1.3.1_5 depends on shared library: libhdf5.so - found (/usr/local/lib/libhdf5.so)
===>   Returning to build of py36-netCDF4-1.3.1_5
===>   py36-netCDF4-1.3.1_5 depends on shared library: libnetcdf.so - not found
===>   Installing existing package /packages/All/netcdf-4.6.3.txz
[120armv7-quarterly-job-17] Installing netcdf-4.6.3...
[120armv7-quarterly-job-17] `-- Installing curl-7.64.1_1...
[120armv7-quarterly-job-17] |   `-- Installing ca_root_nss-3.43...
[120armv7-quarterly-job-17] |   `-- Extracting ca_root_nss-3.43: ........ done
[120armv7-quarterly-job-17] |   `-- Installing libnghttp2-1.37.0...
[120armv7-quarterly-job-17] |   `-- Extracting libnghttp2-1.37.0: .......... done
[120armv7-quarterly-job-17] `-- Extracting curl-7.64.1_1: .......... done
[120armv7-quarterly-job-17] `-- Installing pkgconf-1.6.0,1...
[120armv7-quarterly-job-17] `-- Extracting pkgconf-1.6.0,1: .......... done
[120armv7-quarterly-job-17] Extracting netcdf-4.6.3: .......... done
Message from ca_root_nss-3.43:

********************************* 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_5 depends on shared library: libnetcdf.so - found (/usr/local/lib/libnetcdf.so)
===>   Returning to build of py36-netCDF4-1.3.1_5
===========================================================================
=======================<phase: configure      >============================
===>  Configuring for py36-netCDF4-1.3.1_5
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: 1.10.4 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
  File "/usr/local/lib/python3.6/site-packages/numpy/core/multiarray.py", line 12, in <module>
    from . import overrides
  File "/usr/local/lib/python3.6/site-packages/numpy/core/overrides.py", line 6, in <module>
    from numpy.core._multiarray_umath import (
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 core
  File "/usr/local/lib/python3.6/site-packages/numpy/core/__init__.py", line 47, in <module>
    raise ImportError(msg)
ImportError: 

IMPORTANT: PLEASE READ THIS FOR ADVICE ON HOW TO SOLVE THIS ISSUE!

Importing the multiarray numpy extension module failed.  Most
likely you are trying to import a failed build of numpy.
Here is how to proceed:
- If you're working with a numpy git repository, try `git clean -xdf`
  (removes all files not under version control) and rebuild numpy.
- If you are simply trying to use the numpy version that you have installed:
  your installation is broken - please reinstall numpy.
- If you have already reinstalled and that did not fix the problem, then:
  1. Check that you are using the Python you expect (you're using /usr/local/bin/python3.6),
     and that you have no directories in your PATH or PYTHONPATH that can
     interfere with the Python and numpy versions you're trying to use.
  2. If (1) looks fine, you can open a new issue at
     https://github.com/numpy/numpy/issues.  Please include details on:
     - how you installed Python
     - how you installed numpy
     - your operating system
     - whether or not you have multiple versions of Python installed
     - if you built from source, your compiler versions and ideally a build log

     Note: this error has many possible causes, so please don't comment on
     an existing issue about this - open a new one instead.

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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