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tgbugs / pyontutils

python utilities for working with ontologies
MIT License
19 stars 123 forks source link

neurondm compiled location #67

Open tgbugs opened 5 years ago

tgbugs commented 5 years ago

Will not work at all for system installs. Need some other way to deal with this. This will be tricky to configure.

---------------------------------------------------------------------------
FileNotFoundError                         Traceback (most recent call last)
<ipython-input-9-5b95e28b2e2a> in <module>
      1 # write a python file that has the same name as the file in cell 1
      2 # but with python safe separators and a .py extension
----> 3 config.write_python()

/tmp/release-testing/neurondm-0.1.0/neurondm/core.py in write_python(self)
    657     def write_python(self):
    658         # FIXME hack, will write other configs if call after graphbase has switched
--> 659         graphBase.write_python()
    660 
    661     def load_existing(self):

/tmp/release-testing/neurondm-0.1.0/neurondm/core.py in write_python()
   1091         # the python before potentially opening (and thus erasing) the
   1092         # original file from which some of the code was sourced
-> 1093         with open(graphBase.filename_python(), 'wt') as f:
   1094             f.write(python)
   1095 

FileNotFoundError: [Errno 2] No such file or directory: '/tmp/neurondm/compiled/neuron_lang_notebook.py'
tgbugs commented 2 years ago

The solution is to completely decouple the core representation from the serialization step, so that the core doesn't need to know anything about it. We might consider exploring namespace packages so that users don't have to create new modules, but can somehow add to the neurondm.compiled namespace as needed.