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Nagl2 training opt p2 #410

Merged
merged 5 commits into from
Nov 21, 2024
Merged

Nagl2 training opt p2 #410

merged 5 commits into from
Nov 21, 2024

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amcisaac
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@amcisaac amcisaac commented Nov 20, 2024

New Submission Checklist

  • Created a new folder in the submissions directory containing the dataset
  • Added README.md describing the dataset see here for examples
  • All files used to produce the dataset are included with a description
  • Dataset follows the QCSubmit schema defined for Datasets, OptimizationDatasets and TorsionDriveDatasets
  • Dataset filename matches pattern dataset*.json; may feature a compression extension, such as .bz2
  • A PDF depicting the molecules is attached, in the case of torsiondrives this should include the highlighting of the central bond, this can be done automatically using qcsubmit.
  • QCSubmit validation passed
  • Made a new dataset entry in the mapping table in repository README.md
  • Ready to submit!

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QCSubmit Validation Report

submissions/2024-11-19-OpenFF-NAGL2-Training-Optimization-Dataset-Part-2-v4.0/dataset_part2.json.bz2
Dataset Name OpenFF NAGL2 Training Optimization Dataset Part 2 v4.0
Dataset Type OptimizationDataset
Elements Si ,B ,O ,I ,S ,Cl ,N ,H ,C ,P ,F ,Br
Valid Cmiles 🔥
Connected Dihedrals 🔥
No Linear Torsions 🔥
No Molecular Complexes 🔥
Valid Constraints 🔥
Complete Metatdata 🔥

QC Specification Report

submissions/2024-11-19-OpenFF-NAGL2-Training-Optimization-Dataset-Part-2-v4.0/dataset_part2.json.bz2/default
Specification Name default
Method B3LYP-D3BJ
Basis DZVP
Wavefunction Protocol none
Implicit Solvent
Keywords {}
Validated 🔥
Valid SCF Properties 🔥
Full Basis Coverage 🔥
QCSubmit version information(click to expand)
version
openff.qcsubmit 0.54.0
openff.toolkit 0.16.6
basis_set_exchange 0.10
qcelemental 0.28.0
rdkit 2024.09.2

@amcisaac amcisaac requested review from lilyminium and ntBre November 20, 2024 21:27
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QCSubmit Validation Report

submissions/2024-11-19-OpenFF-NAGL2-Training-Optimization-Dataset-Part-2-v4.0/dataset_part2.json.bz2
Dataset Name OpenFF NAGL2 Training Optimization Dataset Part 2 v4.0
Dataset Type OptimizationDataset
Elements I ,F ,H ,S ,C ,Br ,P ,N ,Si ,Cl ,O ,B
Valid Cmiles 🔥
Connected Dihedrals 🔥
No Linear Torsions 🔥
No Molecular Complexes 🔥
Valid Constraints 🔥
Complete Metatdata 🔥

QC Specification Report

submissions/2024-11-19-OpenFF-NAGL2-Training-Optimization-Dataset-Part-2-v4.0/dataset_part2.json.bz2/default
Specification Name default
Method B3LYP-D3BJ
Basis DZVP
Wavefunction Protocol none
Implicit Solvent
Keywords {}
Validated 🔥
Valid SCF Properties 🔥
Full Basis Coverage 🔥
QCSubmit version information(click to expand)
version
openff.qcsubmit 0.54.0
openff.toolkit 0.16.6
basis_set_exchange 0.10
qcelemental 0.28.0
rdkit 2024.09.2

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LGTM -- thanks @amcisaac!

@amcisaac amcisaac merged commit e54e981 into master Nov 21, 2024
1 check passed
@amcisaac amcisaac deleted the nagl2-training-opt-p2 branch November 21, 2024 03:17
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QCSubmit Validation Report

submissions/2024-11-19-OpenFF-NAGL2-Training-Optimization-Dataset-Part-2-v4.0/dataset_part2.json.bz2
Dataset Name OpenFF NAGL2 Training Optimization Dataset Part 2 v4.0
Dataset Type OptimizationDataset
Elements I ,F ,H ,S ,C ,Br ,P ,N ,Si ,Cl ,O ,B
Valid Cmiles 🔥
Connected Dihedrals 🔥
No Linear Torsions 🔥
No Molecular Complexes 🔥
Valid Constraints 🔥
Complete Metatdata 🔥

QC Specification Report

submissions/2024-11-19-OpenFF-NAGL2-Training-Optimization-Dataset-Part-2-v4.0/dataset_part2.json.bz2/default
Specification Name default
Method B3LYP-D3BJ
Basis DZVP
Wavefunction Protocol none
Implicit Solvent
Keywords {}
Validated 🔥
Valid SCF Properties 🔥
Full Basis Coverage 🔥
QCSubmit version information(click to expand)
version
openff.qcsubmit 0.54.0
openff.toolkit 0.16.6
basis_set_exchange 0.10
qcelemental 0.28.0
rdkit 2024.09.2

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Lifecycle - QCSubmit Submission Report : SUCCESS

Dataset Name OpenFF NAGL2 Training Optimization Dataset Part 2 v4.0
Dataset Type optimization
UTC Datetime 2024-11-21 03:19 UTC

Response from public QCArchive:

None

QCSubmit version information(click to expand)
version
openff.qcsubmit 0.53.0
openff.toolkit 0.16.4
basis_set_exchange 0.10
qcelemental 0.28.0
rdkit 2024.09.1

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Current status - Error Cycling

Consider manually moving this.

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Lifecycle - QCSubmit Submission Report : SUCCESS

Dataset Name OpenFF NAGL2 Training Optimization Dataset Part 2 v4.0
Dataset Type optimization
UTC Datetime 2024-11-21 10:07 UTC

Response from public QCArchive:

None

QCSubmit version information(click to expand)
version
openff.qcsubmit 0.53.0
openff.toolkit 0.16.4
basis_set_exchange 0.10
qcelemental 0.28.0
rdkit 2024.09.1

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Current status - Error Cycling

Consider manually moving this.

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Lifecycle - QCSubmit Submission Report : SUCCESS

Dataset Name OpenFF NAGL2 Training Optimization Dataset Part 2 v4.0
Dataset Type optimization
UTC Datetime 2024-11-21 18:08 UTC

Response from public QCArchive:

None

QCSubmit version information(click to expand)
version
openff.qcsubmit 0.53.0
openff.toolkit 0.16.4
basis_set_exchange 0.10
qcelemental 0.28.0
rdkit 2024.09.1

@openff-dangerbot
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Current status - Error Cycling

Consider manually moving this.

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Lifecycle - Error Cycling Report

Dataset Name OpenFF NAGL2 Training Optimization Dataset Part 2 v4.0
Dataset Type optimization
UTC Datetime 2024-11-22 01:16 UTC

All errored tasks will be restarted.
Errored states prior to restart reported below.

OptimizationRecord current status

specification COMPLETE RUNNING WAITING ERROR CANCELLED INVALID DELETED
default 776 93 1454 0 0 0 0

OptimizationRecord Error Tracebacks:

Tracebacks (click to expand)


QCSubmit version information(click to expand)
version
openff.qcsubmit 0.53.0
openff.toolkit 0.16.4
basis_set_exchange 0.10
qcelemental 0.28.0
rdkit 2024.09.1

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Lifecycle - Error Cycling Report

Dataset Name OpenFF NAGL2 Training Optimization Dataset Part 2 v4.0
Dataset Type optimization
UTC Datetime 2024-11-22 12:04 UTC

All errored tasks will be restarted.
Errored states prior to restart reported below.

OptimizationRecord current status

specification COMPLETE RUNNING WAITING ERROR CANCELLED INVALID DELETED
default 2275 47 0 1 0 0 0

OptimizationRecord Error Tracebacks:

Tracebacks (click to expand)
-------------------------------------
count : 1

unknown
geomeTRIC run_json error:
Traceback (most recent call last):
File "/opt/conda/envs/qcfractal/lib/python3.10/site-packages/geometric/run_json.py", line 258, in geometric_run_json
geometric.optimize.Optimize(coords, M, IC, engine, dirname, params)
File "/opt/conda/envs/qcfractal/lib/python3.10/site-packages/geometric/optimize.py", line 778, in Optimize
return optimizer.optimizeGeometry()
File "/opt/conda/envs/qcfractal/lib/python3.10/site-packages/geometric/optimize.py", line 704, in optimizeGeometry
raise GeomOptNotConvergedError("Optimizer.optimizeGeometry() failed to converge.")
geometric.errors.GeomOptNotConvergedError: Optimizer.optimizeGeometry() failed to converge.


ids :
{139026527}
-------------------------------------


QCSubmit version information(click to expand)
version
openff.qcsubmit 0.53.0
openff.toolkit 0.16.4
basis_set_exchange 0.10
qcelemental 0.28.0
rdkit 2024.09.1

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Lifecycle - Error Cycling Report

Dataset Name OpenFF NAGL2 Training Optimization Dataset Part 2 v4.0
Dataset Type optimization
UTC Datetime 2024-11-22 18:06 UTC

All errored tasks will be restarted.
Errored states prior to restart reported below.

OptimizationRecord current status

specification COMPLETE RUNNING WAITING ERROR CANCELLED INVALID DELETED
default 2276 31 15 1 0 0 0

OptimizationRecord Error Tracebacks:

Tracebacks (click to expand)
-------------------------------------
count : 1

unknown
geomeTRIC run_json error:
Traceback (most recent call last):
File "/opt/conda/envs/qcfractal/lib/python3.10/site-packages/geometric/run_json.py", line 258, in geometric_run_json
geometric.optimize.Optimize(coords, M, IC, engine, dirname, params)
File "/opt/conda/envs/qcfractal/lib/python3.10/site-packages/geometric/optimize.py", line 778, in Optimize
return optimizer.optimizeGeometry()
File "/opt/conda/envs/qcfractal/lib/python3.10/site-packages/geometric/optimize.py", line 704, in optimizeGeometry
raise GeomOptNotConvergedError("Optimizer.optimizeGeometry() failed to converge.")
geometric.errors.GeomOptNotConvergedError: Optimizer.optimizeGeometry() failed to converge.


ids :
{139026527}
-------------------------------------


QCSubmit version information(click to expand)
version
openff.qcsubmit 0.53.0
openff.toolkit 0.16.4
basis_set_exchange 0.10
qcelemental 0.28.0
rdkit 2024.09.1

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Lifecycle - Error Cycling Report

Dataset Name OpenFF NAGL2 Training Optimization Dataset Part 2 v4.0
Dataset Type optimization
UTC Datetime 2024-11-23 00:32 UTC

All errored tasks will be restarted.
Errored states prior to restart reported below.

OptimizationRecord current status

specification COMPLETE RUNNING WAITING ERROR CANCELLED INVALID DELETED
default 2277 46 0 0 0 0 0

OptimizationRecord Error Tracebacks:

Tracebacks (click to expand)


QCSubmit version information(click to expand)
version
openff.qcsubmit 0.53.0
openff.toolkit 0.16.4
basis_set_exchange 0.10
qcelemental 0.28.0
rdkit 2024.09.1

@openff-dangerbot
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Lifecycle - Error Cycling Report

Dataset Name OpenFF NAGL2 Training Optimization Dataset Part 2 v4.0
Dataset Type optimization
UTC Datetime 2024-11-23 01:03 UTC

All errored tasks will be restarted.
Errored states prior to restart reported below.

OptimizationRecord current status

specification COMPLETE RUNNING WAITING ERROR CANCELLED INVALID DELETED
default 2277 46 0 0 0 0 0

OptimizationRecord Error Tracebacks:

Tracebacks (click to expand)


QCSubmit version information(click to expand)
version
openff.qcsubmit 0.53.0
openff.toolkit 0.16.4
basis_set_exchange 0.10
qcelemental 0.28.0
rdkit 2024.09.1

@openff-dangerbot
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Lifecycle - Error Cycling Report

Dataset Name OpenFF NAGL2 Training Optimization Dataset Part 2 v4.0
Dataset Type optimization
UTC Datetime 2024-11-23 01:45 UTC

All errored tasks will be restarted.
Errored states prior to restart reported below.

OptimizationRecord current status

specification COMPLETE RUNNING WAITING ERROR CANCELLED INVALID DELETED
default 2277 46 0 0 0 0 0

OptimizationRecord Error Tracebacks:

Tracebacks (click to expand)


QCSubmit version information(click to expand)
version
openff.qcsubmit 0.53.0
openff.toolkit 0.16.4
basis_set_exchange 0.10
qcelemental 0.28.0
rdkit 2024.09.1

@openff-dangerbot
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Lifecycle - Error Cycling Report

Dataset Name OpenFF NAGL2 Training Optimization Dataset Part 2 v4.0
Dataset Type optimization
UTC Datetime 2024-11-23 12:05 UTC

All errored tasks will be restarted.
Errored states prior to restart reported below.

OptimizationRecord current status

specification COMPLETE RUNNING WAITING ERROR CANCELLED INVALID DELETED
default 2278 45 0 0 0 0 0

OptimizationRecord Error Tracebacks:

Tracebacks (click to expand)


QCSubmit version information(click to expand)
version
openff.qcsubmit 0.53.0
openff.toolkit 0.16.4
basis_set_exchange 0.10
qcelemental 0.28.0
rdkit 2024.09.1

@openff-dangerbot
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Contributor

Lifecycle - Error Cycling Report

Dataset Name OpenFF NAGL2 Training Optimization Dataset Part 2 v4.0
Dataset Type optimization
UTC Datetime 2024-11-23 16:29 UTC

All errored tasks will be restarted.
Errored states prior to restart reported below.

OptimizationRecord current status

specification COMPLETE RUNNING WAITING ERROR CANCELLED INVALID DELETED
default 2278 45 0 0 0 0 0

OptimizationRecord Error Tracebacks:

Tracebacks (click to expand)


QCSubmit version information(click to expand)
version
openff.qcsubmit 0.53.0
openff.toolkit 0.16.4
basis_set_exchange 0.10
qcelemental 0.28.0
rdkit 2024.09.1

@openff-dangerbot
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Contributor

Lifecycle - Error Cycling Report

Dataset Name OpenFF NAGL2 Training Optimization Dataset Part 2 v4.0
Dataset Type optimization
UTC Datetime 2024-11-24 12:04 UTC

All errored tasks will be restarted.
Errored states prior to restart reported below.

OptimizationRecord current status

specification COMPLETE RUNNING WAITING ERROR CANCELLED INVALID DELETED
default 2278 45 0 0 0 0 0

OptimizationRecord Error Tracebacks:

Tracebacks (click to expand)


QCSubmit version information(click to expand)
version
openff.qcsubmit 0.53.0
openff.toolkit 0.16.4
basis_set_exchange 0.10
qcelemental 0.28.0
rdkit 2024.09.1

@openff-dangerbot
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Lifecycle - Error Cycling Report

Dataset Name OpenFF NAGL2 Training Optimization Dataset Part 2 v4.0
Dataset Type optimization
UTC Datetime 2024-11-25 12:04 UTC

All errored tasks will be restarted.
Errored states prior to restart reported below.

OptimizationRecord current status

specification COMPLETE RUNNING WAITING ERROR CANCELLED INVALID DELETED
default 2278 45 0 0 0 0 0

OptimizationRecord Error Tracebacks:

Tracebacks (click to expand)


QCSubmit version information(click to expand)
version
openff.qcsubmit 0.53.0
openff.toolkit 0.16.4
basis_set_exchange 0.10
qcelemental 0.28.0
rdkit 2024.09.1

@openff-dangerbot
Copy link
Contributor

Lifecycle - Error Cycling Report

Dataset Name OpenFF NAGL2 Training Optimization Dataset Part 2 v4.0
Dataset Type optimization
UTC Datetime 2024-11-25 17:54 UTC

All errored tasks will be restarted.
Errored states prior to restart reported below.

OptimizationRecord current status

specification COMPLETE RUNNING WAITING ERROR CANCELLED INVALID DELETED
default 2278 45 0 0 0 0 0

OptimizationRecord Error Tracebacks:

Tracebacks (click to expand)


QCSubmit version information(click to expand)
version
openff.qcsubmit 0.53.0
openff.toolkit 0.16.4
basis_set_exchange 0.10
qcelemental 0.28.0
rdkit 2024.09.1

@openff-dangerbot
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Lifecycle - Error Cycling Report

Dataset Name OpenFF NAGL2 Training Optimization Dataset Part 2 v4.0
Dataset Type optimization
UTC Datetime 2024-11-25 22:12 UTC

All errored tasks will be restarted.
Errored states prior to restart reported below.

OptimizationRecord current status

specification COMPLETE RUNNING WAITING ERROR CANCELLED INVALID DELETED
default 2307 15 0 1 0 0 0

OptimizationRecord Error Tracebacks:

Tracebacks (click to expand)
-------------------------------------
count : 1

unknown
geomeTRIC run_json error:
Traceback (most recent call last):
File "/opt/conda/envs/qcfractal/lib/python3.10/site-packages/geometric/run_json.py", line 258, in geometric_run_json
geometric.optimize.Optimize(coords, M, IC, engine, dirname, params)
File "/opt/conda/envs/qcfractal/lib/python3.10/site-packages/geometric/optimize.py", line 778, in Optimize
return optimizer.optimizeGeometry()
File "/opt/conda/envs/qcfractal/lib/python3.10/site-packages/geometric/optimize.py", line 704, in optimizeGeometry
raise GeomOptNotConvergedError("Optimizer.optimizeGeometry() failed to converge.")
geometric.errors.GeomOptNotConvergedError: Optimizer.optimizeGeometry() failed to converge.


ids :
{139026527}
-------------------------------------


QCSubmit version information(click to expand)
version
openff.qcsubmit 0.53.0
openff.toolkit 0.16.4
basis_set_exchange 0.10
qcelemental 0.28.0
rdkit 2024.09.1

@openff-dangerbot
Copy link
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Lifecycle - Error Cycling Report

Dataset Name OpenFF NAGL2 Training Optimization Dataset Part 2 v4.0
Dataset Type optimization
UTC Datetime 2024-11-26 02:44 UTC

All errored tasks will be restarted.
Errored states prior to restart reported below.

OptimizationRecord current status

specification COMPLETE RUNNING WAITING ERROR CANCELLED INVALID DELETED
default 2310 6 7 0 0 0 0

OptimizationRecord Error Tracebacks:

Tracebacks (click to expand)


QCSubmit version information(click to expand)
version
openff.qcsubmit 0.53.0
openff.toolkit 0.16.4
basis_set_exchange 0.10
qcelemental 0.28.0
rdkit 2024.09.1

@openff-dangerbot
Copy link
Contributor

Lifecycle - Error Cycling Report

Dataset Name OpenFF NAGL2 Training Optimization Dataset Part 2 v4.0
Dataset Type optimization
UTC Datetime 2024-11-26 12:04 UTC

All errored tasks will be restarted.
Errored states prior to restart reported below.

OptimizationRecord current status

specification COMPLETE RUNNING WAITING ERROR CANCELLED INVALID DELETED
default 2322 0 0 1 0 0 0

OptimizationRecord Error Tracebacks:

Tracebacks (click to expand)
-------------------------------------
count : 1

unknown
geomeTRIC run_json error:
Traceback (most recent call last):
File "/opt/conda/envs/qcfractal/lib/python3.10/site-packages/geometric/run_json.py", line 258, in geometric_run_json
geometric.optimize.Optimize(coords, M, IC, engine, dirname, params)
File "/opt/conda/envs/qcfractal/lib/python3.10/site-packages/geometric/optimize.py", line 778, in Optimize
return optimizer.optimizeGeometry()
File "/opt/conda/envs/qcfractal/lib/python3.10/site-packages/geometric/optimize.py", line 704, in optimizeGeometry
raise GeomOptNotConvergedError("Optimizer.optimizeGeometry() failed to converge.")
geometric.errors.GeomOptNotConvergedError: Optimizer.optimizeGeometry() failed to converge.


ids :
{139026527}
-------------------------------------


QCSubmit version information(click to expand)
version
openff.qcsubmit 0.53.0
openff.toolkit 0.16.4
basis_set_exchange 0.10
qcelemental 0.28.0
rdkit 2024.09.1

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