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Compilation of core solver fails on Ubuntu 16.04 #162

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ahellander opened this issue May 30, 2017 · 0 comments
Open

Compilation of core solver fails on Ubuntu 16.04 #162

ahellander opened this issue May 30, 2017 · 0 comments
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gcc -gdwarf-2 -m64 -c -O3 -std=gnu99 -Wall -Wlong-long -Wformat -Wpointer-arith -I/usr/local/lib/python2.7/dist-packages/pyurdme-1.1.1-py2.7.egg/pyurdme/urdme/include -DURDME_LIBMAT /usr/local/lib/python2.7/dist-packages/pyurdme-1.1.1-py2.7.egg/pyurdme/urdme/src/nsm/nsm.c -o .urdme/nsm.o
/usr/local/lib/python2.7/dist-packages/pyurdme-1.1.1-py2.7.egg/pyurdme/urdme/build/Makefile.nsm:76: recipe for target '.urdme/nsm.o' failed

In file included from /usr/local/lib/python2.7/dist-packages/pyurdme-1.1.1-py2.7.egg/pyurdme/urdme/src/nsm/nsm.c:13:0:
/usr/local/lib/python2.7/dist-packages/pyurdme-1.1.1-py2.7.egg/pyurdme/urdme/src/nsm/nsm.h:10:18: fatal error: hdf5.h: No such file or directory
compilation terminated.
make: *** [.urdme/nsm.o] Error 1

Traceback (most recent call last):
File "simple_diffusion.py", line 33, in
result = model.run()
File "/usr/local/lib/python2.7/dist-packages/pyurdme-1.1.1-py2.7.egg/pyurdme/pyurdme.py", line 953, in run
return sol.run(number_of_trajectories=number_of_trajectories, seed=seed)
File "/usr/local/lib/python2.7/dist-packages/pyurdme-1.1.1-py2.7.egg/pyurdme/pyurdme.py", line 2251, in run
self.compile()
File "/usr/local/lib/python2.7/dist-packages/pyurdme-1.1.1-py2.7.egg/pyurdme/pyurdme.py", line 2225, in compile
raise URDMEError("Compilation of solver failed, return_code={0}".format(return_code))
pyurdme.pyurdme.URDMEError: Compilation of solver failed, return_code=2

@ahellander ahellander self-assigned this May 30, 2017
@ahellander ahellander added the bug label May 30, 2017
@ahellander ahellander added this to the 1.1.0 milestone May 30, 2017
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