Modifications to Intra_Disproportionation family.  Mirror of RMG-Java https://github.com/GreenGroup/RMG-Java/commit/1e2e97e53670ecb8955e5032c941a754245effe4

Removed R3radEndo from groups.

Changed rate for R3;Y_rad;XH_Rrad in rules.
Add explicit numbering of adjacent groups in Intra_Diels_alder family. Mirror of RMG-Java https://github.com/GreenGroup/RMG-Java/commit/66afda2fc1e292fc150979640efcab7a9c971fc2
New rate rules for R_Addition_MultipleBond and intra_H_migration families.  Mirror of RMG-Java https://github.com/GreenGroup/RMG-Java/commit/0a44a9aa52791fef0175cfeb114109ad43c39df4

May be important for benzene formation.
Update H_abstraction rate rule for H abstraction from alpha position of alcohols. Mirror of RMG-Java https://github.com/GreenGroup/RMG-Java/commit/8afc2ee53fe9f10c2f5c41423464f4a486041608
Adding rate rules to R_Addition_MultipleBond.  Mirror of RMG-Java https://github.com/GreenGroup/RMG-Java/commit/4f9bd4c089ebad6cafee9df1d04ad4b6286eb3f7

Adding rate rules for addition of H rad to C=O both C and O sites
This was done using BMK/cbsb7 + 1D-HR in TS

15 minutes of debugging revealed some bad estimated for addition of H to C=O
Fix forbidden groups in Intra_Disproportionation.  Declared extra bond.
Update rate in 1,3_Insertion_ROR family.  Mirror of RMG-Java https://github.com/GreenGroup/RMG-Java/commit/0a3967fc18c685a38a3a0064239ed472640ff827

Updated rate coefficient for the reaction H2O + butadiene -> 2-butenol
Updating rule for npropyl to ipropyl intraH migration.  Mirror of RMG-Java https://github.com/GreenGroup/RMG-Java/commit/16458ac4db2a9935b38f2fd820f9295d95aaabd2

Calculated at CCSD(T)-F12/cc-pVTZ-F12 with 1dHR

Previous rate cofficient came from Sumathy calculation was
more than order of magnitude faster than current rate rule.

This rate affects whether you form H rad or CH3 in your system.
npropyl = CH3 + C2H4
ipropyl = H + C3H6
Update of Diels_alder_addition family to include triple bonds and dienes. Mirror of RMG-Java https://github.com/GreenGroup/RMG-Java/commit/31d9dae6606cf1928676ec094803af12cf989b65
Changing head node value for Diels alder family. Mirror of RMG-Java https://github.com/GreenGroup/RMG-Java/commit/ed7b7cc10be661cd1646129ab59b2747cd5f36b4

Most of the calculated rates have ~ 20-25 kcal/mol barrier,
SSM thinks the head node is too fast current as it set
barrier less ~ 5E+9. The rank of 0 is a special case
where the family is not averaged and every estimate defaults
to the head node (changing rank to 5 might change this back to 0).
Updating rate rules of di-allylic radical + allylic radical
for disproportionation family.  Mirror of RMG-Java https://github.com/GreenGroup/RMG-Java/commit/57555cde9be2fdf1d72058f835881beda0d567de

Estimating rate coefficient for cyclopentadienyl radical + butadieneyl radical
NIST estimate for allyl + iso-butyl is 8E+11 at 1000 K, however in our
system the butadieneyl radical is also resonance stabilized
and it will be harder to break the bond to give butadiene +
cyclopentadiene. Currently estimate it to be a factor of 5 slower.

These calculations often require multi-reference calculations, for now I am
making my best estimate!
Modifying R_Addition_MultipleBond groups.  Mirror of RMG-Java https://github.com/GreenGroup/RMG-Java/commit/dd3af6aed8173014371fcae8d046a9e6864d0716#diff-39efdaa2b1e4e3bd611f38ed53c44264R5455

The One_De nodes specified R as the other group which
means it could be another delocalized group. This caused
RMG not to descend down to correct node.

Example case is Fulvene + H would hit Cds-HH_Cds-OneDe , HJ
instead of Cds-HH_Cds-CdCd , HJ.
Adding forbidden groups to Intra_Diels_alder family. Mirror of RMG-Java https://github.com/GreenGroup/RMG-Java/commit/743c4711e3d2b31073f6ccf97d9af114069dee6f

SOme of the rings with 3 conjugated double bonds undergo
intra diels alder to form highly strained rings. This
fix only solves one such case will possibly require hard coding
to eliminate all cases occuring under pyrolysis.
New rates for 1,3_Insertion_ROR.  Mirror of RMG-Java https://github.com/GreenGroup/RMG-Java/commit/0b79c3079bda5bcb3e0dca48db7822d5c1996ec5

Significantly slowed down the alcohol eliminations and added a value
for H2O elimination in ipentanol.
Added two new rate rules for reactions involving the CdsJ=Cdd group.  Mirror of RMG-Java https://github.com/GreenGroup/RMG-Java/commit/7ac6f66334f1af9c1d74cefacb1a8cf995ccc6f6

Reported rates were too high.