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Virtual_sites
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13
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160
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December 6, 2025
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PCA and DCCA analysis
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1
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20
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December 6, 2025
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'topol' does not exist or is not accessible
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2
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2136
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December 6, 2025
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Energy minimization crashes on GPU but not CPU
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2
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21
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December 6, 2025
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Error parameters for dihedral type 9
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5
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35
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December 5, 2025
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Recommended way to thermostat a system where one covalently-bound component is fully restrained
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2
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28
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December 5, 2025
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Regarding usage of -pbc yes while calculating mindist
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0
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11
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December 5, 2025
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Missing files while following the membrane protein tutorial
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6
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718
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December 5, 2025
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Adding KCX residue to residuetypes.dat
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5
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51
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December 5, 2025
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Updating diffusion constant midway through the simulation run
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2
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23
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December 5, 2025
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Error compiling gromacs-2018.8
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5
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1015
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December 4, 2025
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PCA and DCCA analysis
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0
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12
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December 4, 2025
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RNA simulation error solution, especially during topology and em.tpr generation
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1
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22
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December 3, 2025
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Complex not centered after editconf + solvate (GROMACS)
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1
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25
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December 3, 2025
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Energy minimization error
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13
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11930
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December 3, 2025
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How to compute the number of hydrogen bonds per molecule in a pure water system: gmx hbond
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1
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245
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December 3, 2025
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electric filed with position restraint
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0
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29
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December 3, 2025
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Compiling 25.4 using CUDA13 on 5090
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1
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42
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December 3, 2025
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Free energy peturbation mdp file settings for solvation free energy calculation
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3
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54
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December 3, 2025
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Illegal memory access error #700 CUDA
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2
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54
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December 3, 2025
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How to add terminal caps in AMBER with GROMACS
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1
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52
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December 3, 2025
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How do we use gmx polystat?
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4
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282
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December 2, 2025
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INSANE not compatible with martini3 GM3?
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1
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43
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December 1, 2025
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Simulating a Reverse Transcriptase complex with RNA, DNA
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1
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19
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December 1, 2025
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Rmsf in gromacs
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1
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25
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December 1, 2025
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Gmx chi Alanine residues output
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1
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22
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November 30, 2025
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Fatal error: No line with moleculetype 'SOL' found the [ molecules ] section of file 'complex.top'
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2
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34
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November 29, 2025
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Dimeric protein handling during simulation
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1
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34
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November 27, 2025
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RNA simulation error with phosphate group atoms of the first nucleotide
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3
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28
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November 26, 2025
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Error in gmx hbond for parameter -hbm
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2
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21
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November 26, 2025
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