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C-rescale barostat and simulated annealing
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4
|
89
|
August 6, 2026
|
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Constructing core shell nanoparticle
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0
|
37
|
August 4, 2026
|
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Performance regression in 2025.4: suboptimal CUDA NBNxM kernel selection vs 2024.2
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7
|
139
|
February 12, 2026
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no default bond types, angle types or dihedral types
|
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1
|
65
|
February 4, 2026
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Simulating a Reverse Transcriptase complex with RNA, DNA
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1
|
68
|
December 1, 2025
|
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Pdb2gmx not recognizing water block
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1
|
66
|
November 11, 2025
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Assertion failed for buckingham interacting solid
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1
|
41
|
October 28, 2025
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How to setup protein-ligand simulation using CHARMM-GUI for ligand preparation
|
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9
|
901
|
October 26, 2025
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How to simulate a cyclic protein with AMBER99SB ff?
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1
|
94
|
October 9, 2025
|
|
Problems with generating self contained topology file (necessary for partial tempering with plumed)
|
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1
|
70
|
September 29, 2025
|
|
RMSD graph after protein protein md simulation
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4
|
227
|
September 8, 2025
|
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Molecule type 'Protein_chain_A' contains no atoms
|
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1
|
96
|
June 2, 2025
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Need help minimising a backmapped system (I used backward method)
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0
|
39
|
May 12, 2025
|
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Number of coordinates did not match in coordinated file with the topology file
|
|
24
|
10564
|
May 1, 2025
|
|
No default bond types, rykaert bell types and more
|
|
1
|
68
|
March 24, 2025
|
|
No default Position Rest. graphene sheet
|
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0
|
51
|
March 16, 2025
|
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[MD Simulation Error] Fatal PME Rank Issue: Particles Moving Out of Domain Decomposition Cell
|
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2
|
161
|
March 4, 2025
|
|
The largest distance between excluded atoms is 1.725 nm, which is larger than the cut-off distance
|
|
17
|
7806
|
February 5, 2025
|
|
"No default Bond types" error during grompp for specbond.dat bonds
|
|
0
|
60
|
January 29, 2025
|
|
No default U-B Types
|
|
0
|
182
|
January 16, 2025
|
|
Warning: atom name in .top and .gro does not match
|
|
2
|
346
|
January 23, 2025
|
|
Invalid order for directive atomtypes (error)
|
|
17
|
10027
|
January 13, 2025
|
|
No default improper dihedral types in Amber ff14sb-OL21 for DNA simulations
|
|
2
|
271
|
December 22, 2024
|
|
Error: Topol.top file doesn`t match solv.gro file
|
|
1
|
130
|
December 18, 2024
|
|
Issues with MD Run and Fe Displacement in Hemoglobin Simulation
|
|
4
|
210
|
December 13, 2024
|
|
ERROR 164 [file topol.top, line 100195]: No default Ryckaert-Bell. types
|
|
3
|
174
|
November 29, 2024
|
|
Energy minimization error sc-r-power = 48 not supported
|
|
4
|
795
|
November 18, 2024
|
|
Ligand MD simulation
|
|
2
|
127
|
November 8, 2024
|
|
Grompp errors with v2024.3: The drift estimate should be a finite value
|
|
5
|
107
|
October 30, 2024
|
|
Fatal error: Syntax error - File ffnonbonded.itp, line 5 Last line read: '[ atomtypes ]' Invalid ord
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|
5
|
257
|
October 29, 2024
|