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sys-bio / tellurium

Python Environment for Modeling and Simulating Biological Systems
http://tellurium.analogmachine.org/
Apache License 2.0
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Tellurium has problems resolving variables for SED data descriptions #522

Open jonrkarr opened 3 years ago

jonrkarr commented 3 years ago

from /L1V3/L1V3_plotting-data-csv.omex in sed-ml.io examples. Same error with /L1V3/L1V3_plotting-data-numl.omex

  File "/home/jonrkarr/Documents/Biosimulators_tellurium/biosimulators_tellurium/core.py", line 59, in exec_sedml_docs_in_combine_archive
    sed_doc_executer_logged_features=(),
  File "/home/jonrkarr/Documents/Biosimulators_utils/biosimulators_utils/combine/exec.py", line 205, in exec_sedml_docs_in_archive
    indent=1)
  File "/home/jonrkarr/Documents/Biosimulators_tellurium/biosimulators_tellurium/core.py", line 142, in exec_sed_doc
    factory.executePython()
  File "/usr/local/lib/python3.7/site-packages/tellurium/sedml/tesedml.py", line 520, in executePython
    exec(compile(code, filename, 'exec'), symbols)
  File "/tmp/te-generated-sedml.py", line 88, in <module>
    __var__varS1 = dataS1
NameError: name 'dataS1' is not defined