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johnabel / gillespy

A Python package for stochastic model building and simulation. Published as Abel et al., IEEE Life Sci Lett 2017.
https://dx.doi.org/10.1109/LLS.2017.2652448
GNU General Public License v3.0
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Error Code #30

Open michelleingle opened 6 years ago

michelleingle commented 6 years ago

I am trying to run a script, but the error code below pops up. This same script works on my colleagues computer, so I am unsure what this means. What can I do to solve this so I can run this Job.

Thanks!

Error Code: /home/ingle0/.local/lib/python2.7/site-packages/subprocess32.py:146: RuntimeWarning: The _posixsubprocess module is not being used. Child process reliability may suffer if your program uses threads. "program uses threads.", RuntimeWarning) Traceback (most recent call last): File "ScanStoch233.py", line 1784, in set1_trajectories = set1_model.run(number_of_trajectories = num_trajectories, show_labels=False) File "/home/ingle0/.local/lib/python2.7/site-packages/gillespy/gillespy.py", line 410, in run show_labels=show_labels) File "/home/ingle0/.local/lib/python2.7/site-packages/gillespy/gillespy.py", line 1346, in run show_labels=show_labels) File "/home/ingle0/.local/lib/python2.7/site-packages/gillespy/gillespy.py", line 1221, in run '{0}' output: {1}{2}".format(cmd,stdout,stderr)) gillespy.gillespy.SimuliationError: Solver execution failed: '/home/ingle0/StochKit/ssa --model /tmp/tmpggqabd/temp_input_300003a5-9b12-4f6c-a47b-5d94d3ba5e91.xml --out-dir /tmp/tmpggqabd/output/300003a5-9b12-4f6c-a47b-5d94d3ba5e91 -t 950400.0 -i 950400 -p 1 --keep-trajectories --label --seed 1960885242 --realizations 1' output: /home/ingle0/StochKit/bin/ssa: error while loading shared libraries: libicui18n.so.58: cannot open shared object file: No such file or directory

Here are the packages downloaded on my computer: backports.functools-lru-cache (1.5) cycler (0.10.0) gillespy (1.1) kiwisolver (1.0.1) matplotlib (2.2.3) numpy (1.14.0) pandas (0.23.4) PeakUtils (1.2.0) pyparsing (2.2.0) pysb (0+unknown) python-dateutil (2.7.3) pytz (2018.5) scipy (1.1.0) seaborn (0.9.0) StochPy (2.3) subprocess32 (3.5.2)

Thanks!

johnabel commented 6 years ago

Per what I've read elsewhere, the error seems to be in Anaconda compatibilities. Try running conda update --all and see if this corrects it. Let me know!

@briandrawert Have you seen this error before?