ReactionMechanismGenerator / ReactionMechanismGenerator/ARC

ARC could not determine the correct structure when two dihedrals should be changed

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Module: Conformers Type: Error
Dominant language
Python
Stars
51
Forks
25
Avg merge
4d 5h
Merged PRs (30d)
15

Description

AIBN is a radical initiator
image
ARC oscillated between two structures, both have a rotor (the central N-N rotor) with a more stable conformer
image
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Levels used:

Using default level wb97xd/6-311++g(d,p) for geometry optimizations
Using default level wb97xd/6-311++g(d,p) for frequency calculations
Using b3lyp/6-311+g(3df,2p) for single point calculations
Using wb97xd/6-311++g(d,p) for rotor scans

The correct structure of AIBN is:

N       0.43620300   -0.16213600    0.39977000
N      -0.43609600    0.16200900   -0.39967300
N       3.47047000   -1.53123100    0.03196200
N      -3.46996200    1.53150000   -0.03036300
C       1.77826200    0.47460500    0.12212700
C      -1.77820800   -0.47465200   -0.12199900
C       2.06997600    1.34762500    1.36001200
C       1.86126100    1.27708200   -1.18253100
C      -1.86100900   -1.27778400    1.18227200
C      -2.07041800   -1.34697300   -1.36024900
C       2.72158400   -0.65672400    0.08094100
C      -2.72128800    0.65684600   -0.07998100
H       3.08053300    1.75482400    1.30309300
H       1.97462700    0.76131600    2.27429700
H       1.35568300    2.17301000    1.39068400
H       1.63043300    0.65189300   -2.04518700
H       2.86999700    1.67776300   -1.29694300
H       1.14801100    2.10104700   -1.15797500
H      -1.14806900   -2.10199900    1.15698900
H      -2.86984100   -1.67817400    1.29685000
H      -1.62961800   -0.65314800    2.04517300
H      -1.35626800   -2.17245900   -1.39156500
H      -3.08102200   -1.75404500   -1.30325100
H      -1.97523500   -0.76020200   -2.27425500

Contributor guide

No contributing guide indexed for this repository

First steps

  1. Read the whole issue, then the project's contributing guide.
  2. Comment on the issue to say you are picking it up — it saves two people doing the same work.
  3. Fork the repository and make your change on a branch.
  4. Open a pull request that references the issue number.

Research direction

Reproduce the AIBN case using the listed optimization, frequency, single-point, and rotor-scan levels and the supplied coordinates. Start by tracing the rotor-scan and conformer-selection entry points; done means the calculation no longer oscillates between structures and selects the reported correct structure.

Written by the indexing model from the issue text.

Assessment

Tech stack
python
Domain
tooling
Issue type
Bug
Difficulty
4/5
Estimated time
3-5 days
Activity status
Stale
Clarity
Needs clarification
Newbie friendliness
30/100

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