Refactor

[kyleniemeyer]

OK, my monster refactoring branch is, I think, ready to be merged. It does a lot:

• Refactors basically everything.
• Adds (optional) parallelization for simulations
• Changes old format ignition input files to YAML
• Eliminated old/unused files, and reorganized some modules
• Adds additional tests, particularly for soln2cti
• Adds Sphinx-based documentation
• probably more

This bypasses/closes #50 and closes #34, and

• closes #48
• closes #43
• closes #42
• closes #38
• closes #18
• closes #14
• closes #7

(and probably more)

[codecov-io]

Codecov Report

Merging #53 into master will decrease coverage by 12.63%. The diff coverage is 69.9%.

@@             Coverage Diff             @@
##           master      #53       +/-   ##
===========================================
- Coverage   78.27%   65.64%   -12.64%     
===========================================
  Files          17       12        -5     
  Lines        1947     1170      -777     
  Branches      356      294       -62     
===========================================
- Hits         1524      768      -756     
+ Misses        371      293       -78     
- Partials       52      109       +57

Impacted Files	Coverage Δ
pymars/tools.py	48.81% <ø> (ø)
pymars/__main__.py	0% <0%> (ø)	:arrow_up:
pymars/pymars.py	0% <0%> (ø)	:arrow_up:
pymars/reduce_model.py	100% <100%> (ø)
pymars/sampling.py	54.76% <54.76%> (ø)
pymars/soln2ck.py	62.71% <62.06%> (+59.02%)	:arrow_up:
pymars/sensitivity_analysis.py	73.43% <73.01%> (-16.31%)	:arrow_down:
pymars/drgep.py	76.12% <76.31%> (-11.77%)	:arrow_down:
pymars/simulation.py	60% <77.55%> (-22.36%)	:arrow_down:
pymars/drg.py	82.47% <81.52%> (-7.63%)	:arrow_down:
... and 6 more

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[kyleniemeyer]

IMHO the only thing I could see adding now is more testing