Jacob Sturdy

What command are you running? I have tried the following based on [70](https://github.com/bmcage/odes/issues/70) but without success. ``` cython -I ~/anaconda3/envs/skodes/lib/python3.7/site-packages/scikits/odes/sundials/ \ -I ~/odes/scikits/odes/sundials/ \ -I ~/anaconda3/envs/skodes/include/cvode/ \ van_der_pol_fun.pyx Error compiling...

I added `print(sys.path)` to the file. Doing so doesn't show anything when running the `cython` command. However, I have included the path from simply running python and printing the path:...

It seems both `-I ~/odes` and the except were needed. Thanks for the help. The actual minimal set of includes I have been able use are as follows: ``` #...

So should the following succeed? ``` cython -I $CONDA_PREFIX/lib/python3.7/site-packages/ \ -I $CONDA_PREFIX/include/cvode/ \ van_der_pol_fun.pyx ``` It does not. I include the output of `ls $CONDA_PREFIX/lib/python3.7/site-packages/scikits/odes/sundials` and `ls ~/odes/scikits/odes/sundials`, as these...

Staying posted sounds great! If there are any specific portions of refactoring that could be delegated, I might be able to put some time trying to implement some improvements, but...

I have implemented a workaround for my use case, but perhaps this can be integrated in a more general manner. Currently, this only works if one uses normed polynomials for...

Excellent. I have updated `calc_sens` to work with numpoly, though I do have some questions. What do you mean by "reference-by-index"? Now I rely on the fact that the suffix...

I'm not so familiar with regex's but perhaps the `\g` in `replacement = replacement.replace('#%d' % i, r'\g' % i)` (from line 48 of `lib/doconce/expand_newcommands.py`) could be related. For a quick...

According to [this](http://blog.rtwilson.com/how-to-get-nice-vector-graphics-in-your-exported-pdf-ipython-notebooks/) ``` from IPython.display import set_matplotlib_formats set_matplotlib_formats('png', 'pdf') ``` This allows one to at least generate pdfs of the figures in the notebook when downloading as latex.