The following error started appearing since running pkg upgrade this morning. The qiime-test script had been working for the past couple weeks and there have been no major changes to the qiime port lately.
I can still build and run fortran programs using -Wl,-rpath,/usr/local/lib/gcc49.
This looks to me like a numpy link error, maybe failing to use rpath to load the correct libgcc?
FreeBSD unixdev.ceas bacon ~ 403: ./qiime-test qiime-tests/
Traceback (most recent call last):
File "./all_tests.py", line 10, in <module>
from qiime.util import (parse_command_line_parameters, get_options_lookup,
File "/usr/local/lib/python2.7/site-packages/qiime/util.py", line 35, in <module>
from numpy import (array, zeros, shape, vstack, ndarray, asarray,
File "/usr/local/lib/python2.7/site-packages/numpy/__init__.py", line 142, in <module>
from . import add_newdocs
File "/usr/local/lib/python2.7/site-packages/numpy/add_newdocs.py", line 13, in <module>
from numpy.lib import add_newdoc
File "/usr/local/lib/python2.7/site-packages/numpy/lib/__init__.py", line 8, in <module>
from .type_check import *
File "/usr/local/lib/python2.7/site-packages/numpy/lib/type_check.py", line 11, in <module>
import numpy.core.numeric as _nx
File "/usr/local/lib/python2.7/site-packages/numpy/core/__init__.py", line 14, in <module>
from . import multiarray
ImportError: /lib/libgcc_s.so.1: version GCC_4.6.0 required by /usr/local/lib/gcc49/libgfortran.so.3 not found
Duplicate of bug #207750
A workaround is setting LD_LIBRARY_PATH
*** This bug has been marked as a duplicate of bug 207750 ***