Aromatics libraries

[zjburas]

Added 14 high-P kinetic libraries describing the elementary steps on several PES's relevant to PAH formation:

1. Phenyl radical + propene. G3(MP2,CC) calculations of 2012 Kislov and us recently.
2. Sigmatropic 1,5-H shifts of biCPD isomers. CBS-QB3 calculations of A. Vandeputte.
3. Vinyl radical + 1,3-butadiene. CCSD//M08 calculations of 2015 Buras et al.
4. Phenyl radical + vinylacetylene. G3(MP2,CC) calculations of of 2017 Mebel et al. JPCA.
5. C9H9 PES, which allows indene+H formation through various routes. G3(MP2,CC) calculations of 2016 Mebel et al.
6. Methyl radical + indene. G3(MP2,CC) calculations of 2016 Mebel et al.
7. Phenyl radical + 1,3-butadiene. B3LYP calculations of 2005 Ismail et al.
8. C10H9 PES, which allows napthalene+H formation through various routes. G3(MP2,CC) calculations of 2016 Mebel et al.
9. Benzyl + propargyl radical recombination. CASPT2//B3LYP calculations of 2012 Matsugi et al.
10. Effective rate for phenyl radical + diacetylene to benzofulvenyl/2-naphthyl radical. Rate-limiting step is actually a high-barrier (~50 kcal/mol) trans-cis isomerization, of which RMG is unaware.
11. HACA library 1. G3(MP2,CC) calculations of 2017 Mebel et al. Proc. Comb. Inst.
12. HACA library 2. G3(MP2,CC) calculations of 2017 Mebel et al. Proc. Comb. Inst.
13. HACA library 3. G3(MP2,CC) calculations of 2017 Mebel et al. Proc. Comb. Inst.
14. CPD'yl + methyl radical recombination. CCSD//B3LYP calculations of 2009 Sharma et al.

Many of these pathways were mentioned in Mebel's recent review of major known pathways to indene/napthalene. This PR partially replaces #207 , and should be merged before #218 .

Also fixed a few mistakes in some of the existing CPD-related kinetic libraries (Fulvene_H, C3 and C10H11 libraries).

[alongd]

@zjburas, could you also update the kinetic library documentation?

BTW, as a side note, we're starting to have lots of libraries, perhaps we'd like to consider using more sub-directories under input/kinetics/libraries/?

[zjburas]

@alongd , yes, I can update that, I wasn't aware of that part of the documentation.

Regarding subdirectories, a lot of the 14 libraries above (11 of them) are actually in a subdirectory called "First_to_Second_Aromatic_Ring". I also only added libraries that I thought would be helpful, there are several smaller libraries that I decided to exclude from this PR because I thought they were too esoteric. I agree that the number of libraries is rapidly increasing, maybe once all of the aromatic reactions have been merged as training reactions then some of these libraries can be deleted.

[zjburas]

Ok, there is a companion RMG-Py PR #1240 that adds the 14 aromatic libraries above to the RMG documentation.

[mliu49]

My only comment is that many of the libraries have long descriptions that say "Originally from reaction library: Unclassified," which I think can be removed. Otherwise, I think this can be merged.