todo.txt

157   modelspec/programmatic/electrod.rst // issues <-- No idea where this comes from
874   programming/python.rst //finished <-- this should probably be replaced entirely?


Needs edits:
------------

Somewhere we need to have:
section.insert and h.allsec defined (used in modelspec/programmatic/topology.rst)


https://www.neuron.yale.edu/neuron/static/py_doc/programming/math/functions.html#erf
-- math is not being latex'ed <-- two issues here: (1) https instead of http (which sphinx.ext.mathjax is using), and (2) mathjax CDN now permanently down so doesn't even work over http (see: https://www.mathjax.org/cdn-shutting-down/)

ParallelContext.spike_statistics should be modified to return a tuple if no args

Reviewed
--------

213   analysis/guitools/mulfit.rst  //finished
71    analysis/guitools/impedancetools.rst // finished       
159   programming/math/functions.rst // finished
93    programming/pointers/pointer.rst // finished     
116   programming/gui/secbrows.rst   // Being worked on, broken <-- fixed in NEURON 7.5
55    compilationoptions.rst // finished
155   simctrl/runctrl.rst   //emailed Robert the last question <-- don
e612   simctrl/stdrun.rst  //done  
73    modelspec/programmatic/network/lyttonmpi.rst   //finished
241   analysis/guitools/runfit.rst  //finished
39    programming/gui/textmenus.rst //finished
114   programming/timer.rst   // nrniv -python limitation should be removed
184   programming/internals.rst     // issues <-- fixed now
61    visualization/shapebox.rst    //finished <-- finished-ish, but should be rewritten because I don't understand how to use it
88    programming/gui/nfunc.rst     // finished
272   visualization/glyph.rst //mostly done <-- finished now
115   programming/sscanf.rst //q
693   modelspec/programmatic/kschan.rst // finished 
1503    simctrl/cvode.rst     //finished 
37    programming/errors.rst // finished
163   programming/dynamiccode.rst   //finished //no arguments for load_func and load_template
modelspec/programmatic/ste.rst // new since the split, but mostly in Python already
468   visualization/plotshapeclass.rst // finished 
964   programming/ockeywor.rst 
137   visualization/plotshape.rst   //finished
50    analysis/programmatic/misc.rst //finished
122   modelspec/programmatic/ions.rst   //finished     
190   analysis/programmatic/optimization.rst // mostly done
378   programming/gui/pwman.rst     // mostly done, add spaces between line 1 and other thing <-- go back and see if this actually works though... should, but have vague memories of it not working
147   visualization/grapher.rst     //finished
83    programming/gui/misc.rst   //comments   
96    modelspec/programmatic/obsoletestimuli.rst  //finished  
778   visualization/gui.rst //mostly done
491   programming/io/file.rst         // mostly done
simctrl/bbsavestate.rst
677   modelspec/programmatic/mechanisms/nmodl.rst   //all done except for one line, line similar to the ones in nmodl2 that Robert said he would fix
455   modelspec/programmatic/mechanisms/nmodl2.rst  //Robert complained and feel like fixing it
151   modelspec/guitools/pointman.rst //finished    
131   analysis/guitools/funfit.rst  //mostly done
385   programming/gui/list.rst      //mostly done <-- difficulty: browser has no Python callback form
183   modelspec/programmatic/linmod.rst    //mostly done 
716   programming/math/random.rst // mostly done
535   modelspec/programmatic/topology.rst   //done
300   programming/projectmanagement.rst    //almost done <-- has Python in what should be HOC files... maybe just revert?  looks like tools assume HOC and not Python ... maybe add a warning that it is somewhat dated
90    modelspec/programmatic/rxd.rst //finished
1563    visualization/graph.rst //mostly done        
166   modelspec/programmatic/topology/seclist.rst  //finished <-- need to adjust printnames, but basically done
1313    programming/math/matrix.rst   //first example of Matrix.x needs finish //cholesky_factor() the hoc version also doesn’t work
380   modelspec/programmatic/topology/secspec.rst // mostly done 
93    modelspec/programmatic/hocmech.rst //problems, Robert supposed to fix   <-- probably no Python equivalent?
222   visualization/rvarplt.rst     //Range Var Plot - #how to do this in python?
337   modelspec/programmatic/mechtype.rst   //mostly done <-- attempted to review once; some issues: action does not support Python callbacks, and make seems not to offer a Python solution (oh but it does)
741   modelspec/programmatic/network/netcon.rst //mostly done 
391   visualization/oldgrph.rst     //mostly done... eh
1053    modelspec/programmatic/mechanisms/mech.rst //mostly done 
2972    modelspec/programmatic/network/parcon.rst  //done <-- going to need a bunch of edits, look at sprint, $ arguments
903   modelspec/programmatic/topology/geometry.rst  //mostly done <-- needs a lot of rework