NAMD-L: By Subject
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Starting: Fri Jan 03 2020 - 07:25:25 CST
Ending: Thu Dec 30 2021 - 09:20:14 CST
- (no subject)
- .coor and .vel output files not generated
- 3.0alpha9 CUDA version
- << Conformational sampling with NAMD >>
- << Setting the simulation time parameters >>
- [3.0alpha5] Low global CUDA exclusion count. System is stable without cudaSOAIntegrate or without rigidBonds.
- [containerising NAMD with Singularity]
- [External Email] Constraints required for alpha helix secondary structure
- [External] how i can utilize 4 GPU in simulation with poor performance
- [NAMD] Example of submission script on Comet/Stampede GPUs
- A home PC to run NAMD simulations
- A position of a computational chemist is open in Cambridge, MA
- A postdoctoral position in Atlanta, GA, USA
- A question about PME correction term in QM/MM
- A question about the code in CudaPmeSolverUtilKernel.cu
- ABF Not Sampling Whole Window
- ABF protocol to calculate PMF
- about compilation
- about geometrical restrain protein on membrane
- About Meta dynamics
- About the well-tempered metadynamics convergence..
- about usage of eABF method
- acetylene
- actual production MD
- Add repulsive potential with dummy atom
- Addendum
- Adding bias potential
- adding peptide constraint in NAMD configuration file
- Advice for Protein Mutation FEP Calculations
- Advice on hardware for NAMD
- Alchemical Transformation for calculation of standard binding free energies
- amber force field
- AMBER input and REST2 leads to crash
- Amber14 in NAMD 2.13
- AMBER99bsc1 force field for NAMD
- Ambiguity among number of residues as counted in VMD and PyMol for RMSF
- An running issue in eABF-replica calculations
- Analysis of force applied to a certain atom
- Angle parameter errors
- Annealing stepin QwikMD of VMD
- Applying an external field to the electrostatic potential map
- applying harmonic constraints in cphmd
- Assessing total time of run in NAMD
- Asymmetric concentration gradient
- Asymmetric concentration gradient: non-periodic z-boundary for only ions
- Atom outside of the MSM grid in NVT simulation - Semiperiodic boundaries
- Avoiding unfavorable interactions during Docking with Vina
- AW: Hydrogen Mass Repartitioning
- AW: Slow performance over multi-core processor and CUDA build
- AW: vmd-l: How to increase the number of core
- Axis Definition in Metadynamics
- bad angle error!!
- Bad global bond count!
- Basics of MD
- Best performance multi node GPU
- Binary coordinates NAMD 2.14
- Binding free energy analysis at specific time interval during MD trajectory
- Bond between custom ligand and protein sidechain
- Box of Water
- Bug advisory and workaround: alchemical FEP with IDWS can give wrong comparison energies
- Bypassing MM parameterization of ligand in QMMM
- Calculating 2D PMF from 1D eABF simulations using CZAR estimator.
- Can NAMD 2.13 be build on Charm++ with UCX backend?
- Can Namd 2.14 and genpsf 2.0 process halogen bonds?
- Cannot run OPC solvated system on NAMD3
- Cations spontaneous binding pathway with PMF calculation?
- Cavernous Depressions in Water Box
- Center trajectory with box dodecahedron
- Centre of mass distance in ABF
- Charmm hybrid topology
- CHARMM Parameter question
- CHARMM36 to Drude conversion for NAMD
- Collaboration offer
- Colvar Flat-bottom potential "distanceXY"
- COLVARs for Cremer-Pople puckering parameters in NAMD Metadynamics
- Colvars Harmonic Bias Force Direction
- colvars.traj file empty
- colvars: Too many iterations in routine jacobi.
- comparing Classical and Accelerated MD results
- Comparison of electric field between MD simulation and Experiments
- Compile NAMD on Windows 64 bit; nocuda, multicore
- Compile NAMD with AMD GPU
- Compile NAMD with PLUMED
- Compiling issue: selfcompiled NAMD2.14 multicore version factor ~2x slower
- Compiling issue: selfcompiled NAMD2.14 multicore version factor ~2x slower - SOLVED
- Compiling namd2 in 2 GPU 2 CPU workstation
- Conformation Sampling tutorial: factor of 2 in monitor.sh
- Constant ph md
- constant pH with NAMD3
- Constraints required for alpha helix secondary structure
- Convert mmCIF to PDB
- CONVERT PSF to TOP grimaces
- Convert solvated CHARMM PDB + PSF to Amber
- converting gromacs topology file to namd
- CpHMD: Warning when building atom of unknown mass (psfgen)
- CPU vs GPU Question
- CPU/GPU Distribution
- Cuboid water box issues
- CUDA Error
- Dcd file abnormal termination please help
- DCD File Not Generating
- Dcdfreq Variable Value Question
- Dealing with lone pairs
- Dealing with lone pairs (LP) during simulation
- Degrees of Freedom in REST2
- difference between numsteps and run in step4_equilibration.inp
- Different Velocity or Margin Errors for Restarted Simulation
- difficulty converting namd2 channel system to namd3 Atom velocity too fast, box too small errors.
- Dihedral parameters for terminal alkyne
- Does CHARMM-GUI Drude-Prepper input generator work for MD simulation of carbon nanotubes?
- Does NAMD have unit tests or how can I confirm the correctness of the simulation results of NAMD?
- DRMS Colvar
- Drude equilibration
- Drude polarizable force field
- Dual topology FEP
- Dual topology questions
- Dynamic switching GPU/CPU minimization
- eABF 3D sampling using distance Colvars + X and Y: averaged PMF difference to 1D sampling
- eABF Improper Protein Seperation
- Efficiency of constant-pH simulations?
- eFieldNormalized
- Empty PMF files after ABF simulation
- Empty PMF files in ABF
- Equilibrated boxes of organic solvents
- Equilibration of a solvated CNT using C36
- Error Analysis in Metadynamics
- Error during simulation
- Error generating files with QwikMD
- Error in calculation dihedral angle
- Error in fftk during bond opt using VMD 1.9.3
- Error in running multiple-walkers metadynamics at Bluewaters
- Error in running simulation
- Error Restarting Simulation
- Error running command for QM forces calculation
- Error Tolerance
- Error when using namdplot
- error with namd2_ti.pl script
- ERROR: Atoms (still) moving too fast
- ERROR: Atoms moving too fast; simulation has become unstable
- ERROR: Atoms moving too fast; simulation has become unstable (2 atoms on patch 42 pe 18).
- ERROR: Atoms moving too fast; simulation has become unstable.
- Error: keyword "abf" found without configuration
- error: minimizer slowly moving xxx atoms with bad contacts downhill
- Error: Number of NGauss expected in AddNewGTOs
- Error: psfgen) unknown atom type H
- Ewald for charged systems
- Exit code 127 with QMMM
- Extra frame at start of each trajectory
- Extracting force on subset of atoms from tclForces
- Farnesylated Cysteine
- FATAL ERROR in protein minimization by drude model : UNABLE TO FIND ANGLE PARAMETERS FOR CD2O1A OD2C1A LPDO1
- FATAL ERROR: can't read "boxtype"
- FATAL ERROR: Charge placement error in QM-MM bond.
- FATAL ERROR: DIDN'T FIND vdW PARAMETER
- FATAL ERROR: DIDN'T FIND vdW PARAMETER FOR ATOM TYPE N238
- FATAL ERROR: EOF ENCOUNTERED WHILE READING BONDS FROM PSF FILE
- FATAL ERROR: Error in QM-MM bond assignment (NAMD-ORCA)
- FATAL ERROR: Error in the collective variables module
- Fatal Error: Error in the configuration file
- FATAL ERROR: Error running command for QM forces calculation
- FATAL ERROR: Error running command for QM forces calculation.
- FATAL ERROR: must have same number of LP hosts as lone pairs
- FATAL ERROR: patch has 127043 atoms, maximum allowed is 65535
- FATAL ERROR: UNABLE TO FIND BOND PARAMETERS
- FATAL ERROR: UNABLE TO FIND BOND PARAMETERS FOR CD2R6A LPA1
- FEP calculation for Binding of a potassium ion to 18Q=80=93crown=E2=80=936?=
- FEP calculations - membrane protein
- Fep setup membrane protein-Drug complex
- FEP with cudaSOAIntegrate in NAMD 3.0alph9
- FEP/λ-REMD Simulation error
- Files from "Hands-on" Workshop on Structural DNA Nanotechnology at Urbana
- Flat-bottom harmonic position restraints using colvars
- Force field for Li-ion batteries electrolytes based on ionic liquids
- Force Field Parametrization
- Forces in QM/MM calculations
- Format of 'dcdfreq' field in conf file
- Formation of nanoparticle ligand complex
- Free energy calculations
- Free Energy Calculations on Helical Dimer: Separation Run Snaps Back
- Free Energy Pertubation simulation set-up
- Free-energy of association of transmembrane helices
- Fujitsu A64FX CPU processor-suitable NAMD
- Fwd: Bypassing MM parameterization of ligand in QMMM
- Fwd: Error: Number of NGauss expected in AddNewGTOs
- Fwd: FATAL ERROR: Charge placement error in QM-MM bond.
- Fwd: fatal error: error in qm-mm bond assignment
- Fwd: Fwd: impropers for protonated 1-methyladenosine
- Fwd: GaMD config file
- Fwd: impropers for protonated 1-methyladenosine
- Fwd: Inquiry regarding benchmark simulations
- Fwd: QMMM convergence/optimization issues in CHCL3 solvent
- Fwd: QMMM param issue
- Fwd: vdW for atom NRN1
- Gallium parameters
- GaMD config file
- GaMD is slower on GPU compared to cMD
- GaMD with nucleotides
- Geometrical pathCV relies on the assumption that the second closest frame is the neighbouring frame
- Getting high performance on multi-copy (replica) GPU simulations
- Getting the z coordinate
- Glycoprotein-flavonoid complex
- GPU Acceleration and Drude Simulations
- gpu performance
- graphene sheet as a rigid piston
- harmonic-restraints/colvars
- HarmonicWall colvar
- Hi
- How are the virial related variables passed from GPU to CPU memory?
- how can email dcd files
- How can I analyse QMMM log file?
- how does NAMD know which residue to (de)couple
- how i can utilize 4 GPU in simulation with poor performance
- How to avoid producing a huge DCD file?
- How to best use GPUs
- How to deal with trajectories from RAMD in NAMD?
- How to determine the residue of qmLSSRef in QwikMD?
- how to disable the periodic condition tracking two atom distance
- How to fix mutex error
- how to properly end NAMD replica job on slurm batch system
- How to protonate GLU
- How to restart a FEP simulation
- how to run flexible fitting for structure with helical symmetry
- How to run on multi-node environment
- How to Selectively Scale Interactions
- how to set the input file for the free energy calculations with CHARMM Drude force field
- How to treat electrostatics in crystal lattice MD simulation
- Hybrid Coarse Grain/ all atom simulation in NAMD
- Hydrogen bond energy for TIP3 water
- Hydrogen Mass Repartitioning
- Hydrogen Mass Repartitioning -> NVE energy loss due to rigidBonds
- I frequently get FATAL ERROR: Unable to open text file clc_test.equil.1.colvars.state: File exists when running across multiple nodes
- IMD simulation
- Implementing decaying potential (non-linear potential)
- Implicit MD is slower than explcit MD!
- impropers for protonated 1-methyladenosine
- Improve performance
- Incorrect restarting velocities
- Infrared spectrum prediction
- Initial force for steered MD simulations
- Inquiry about NAMD beta
- Installation with tcl
- Installing NAMD in Ethernet (1Gbps) cluster
- Is there a way to stop a MD run before the END_OF_RUN timestep?
- Issue about replica exchange molecular dynamics
- Issue about replica-exchangeumbrella sampling by 16 threads
- Issue in reading the soluteScalingFile for REST2
- Issue regarding to the speed of QM/MM
- Issue with preparing QM-MM
- issues with QMMM and parameters
- Issues with vdW for non existing atom
- Jarzynski calculate
- Job stopped without any error message (probably a load balancing issue?)
- JS plugin issues when constructing large systems
- Judging Convergence on Free Energy Calculations
- Langevin dynamics and random seeds
- libcufft_static.a error
- LIE protocol in QM/MM
- Ligand coated Silver Nanoparticle.
- Ligand concentration
- Lipid into sphere
- Lipids generated by VMD could not use "coordpdb" to read
- log file
- Lone pair disconnected after minimization
- Lone pair forces
- Low simulation speed with 24 processors
- Lowe-Andersen Thermostat default damping value
- Mail about Alchemify error
- mail about cuda exculssion count
- Mail about error in Alchemify programme in namd
- Mail About error in CV
- Mail about error in namd
- mail about error in namd configuration file
- Mail about path CV
- Maximum and minimum box size
- MD run terminated with singnal 11
- MD simulation
- MD simulation of a molecule with a halogen
- MD with 3-site CO model
- MDFF chirality restrain error - measure imprp: empty atom index
- Meaning of the warning: Low global exclusion count!
- Measuring Kinetic Energy of Solvent
- Membrana-protein-lig protocol
- Membrane protein
- Membrane Protein Flipping in ABF
- membrane system displacing in z during ABF or metadynamics
- Merge ABF windows
- Metadynamics
- Metadynamics problems
- minimise in restarting first equilibration step
- Missing frames in DCD header when continue from segment without DCD output
- MM/QM with namd
- MMGBSA binding free energy by MolAICal and NAMD
- MMPBSA calculation using CAFE plugin vmd
- MMPBSA standard deviation
- model with TIP4 water minimization getting crashed every time
- modelling an aqueous solution of protein+hydrogen peroxide
- Modifying a DRUDE pdb file and producing a new psf file
- MOPAC output file analysis
- Multi-node-gpu NAMD
- Multiple replica WTM-eABF simulations interrupted during replica sharing step
- N-glycosylation bond not view after patching
- NAMD 2.14 fatal error executing tcl script
- NAMD 3.0 alpha, operating system requirements
- NAMD 3.0 FEP Atoms moving too fast error
- NAMD and VMD on AMAZON instances
- Namd can not be launched for umbrella sample
- Namd can not find parameters for chlorine lonepairs
- NAMD configuration file error
- NAMD CUDA
- NAMD Cuda on more than one node
- NAMD CUDA specification
- NAMD doesn't use my CUDA enabled GPU
- NAMD download form unavailable?
- NAMD error : alloc_mempool_block: posix_memalign failed
- NAMD job takes long time to finish 1 ns equilibration
- NAMD jobs in SLURM environment, not entering queueing system
- namd minimization looking for wrong angle
- NAMD on 24 threads
- NAMD on AMD GPU
- NAMD overestimates the hydration free energy with Drude force field
- NAMD performance
- NAMD performance on a supercomputer with Intel Xeon Platinum 8160 and 100Gb Intel Omni-Path Full-Fat Tree
- NAMD QM/MM multi nodes performance bad
- namd QM/MM on oak ridge ANDES cluster
- NAMD QM/MM simulations
- NAMD qm/mm: QM charge not integer
- NAMD QMMM Scheme
- NAMD QMMM: Electrostatic energy and PMECORRENERGY
- NAMD speed and Scaling
- NAMD took more than 1 day on 36 cpu to complete 1ns simulation for a 77000 system
- NAMD trajectory with MMPBSA.py
- NAMD web/email outage today Tuesday 4/6
- Namd-3 alpha 7 error
- namd-I: Request for help in error fixing
- namd-l digest V1 #2923
- namd-l digest V1 #2927
- namd-l digest V1 #3135
- namd-l digest V1 #3189
- NAMD3 Alpha7 MultiGPU errors
- Namd3 error message
- NAMD3 information
- NAMD3 multiGPU: invalid device function error
- NAMD3 Multiple Instances
- namd3 on centos 6
- NAMD3 segfault while writing restart files
- NAMD3: how to get the best performance in one gpu node?
- namdEnergy empy output file
- namdEnergy execution issue -path for namd2 in server
- NamdEnergy Nonbonded H-bonds
- NAN in output of aMD
- Negative current in open pore simulation
- Negative Forces in SMD Simulations
- newby in NAMD
- NGRP NST2
- Non-SLI GPUs in NAMD
- not getting NAMD multicopy simulation started
- npt simulation where only one of the dimensions is fixed
- NPT then NVT simulation in a single config file for water box?
- NUMA Node and CUDA GPU Acceleration
- Numsteps or Runs?
- obtaining the viscosity of mixture from NAMD output file
- Optimum time for md run in i3 laptop
- Order of Minimizing/Heating/Equilibrating
- Output of harmonic restrains effect in alchemical route of protein-ligand binding free energy calculation
- output results to phenix
- Pair interaction calculation is not supported in CUDA version
- Pair interaction calculations of the QM/MM system
- Parameters and topology files regarding arsorite(ASO3 - - -)
- Parameters for molecular N2
- Parametrization of zinc ion (+2) in using CHARMM force field.
- Patch bond not formed
- Patch for non protonated lysine
- Patch grid too small error in first production run
- path CV
- pbc correction for nve unwrap trajectory aiming calculation of diffusion coefficient
- performance scaling of CUDA accelerated NAMD over multiple nodes
- performing SMD in Z using colvar module
- PhD Position In Computational Structural Biology Of Membrane Proteins
- Picking a GPU for namd 3.0
- Placed random molecules into Box
- Please ignore previous poor formatted: difficulty converting namd2 channel system to namd3 Atom velocity too fast, box too small errors.
- PME in PairInteraction Calculations
- Position restrain in ABF
- Possible issue with NAMD_2.13_Linux-x86_64-multicore-CUDA version for Drude support
- Post processing NAMD trajectory
- Postdoctoral opening at MSU
- POSTDOCTORAL POSITION at CFM/MPC (Donostia, San Sebastian - SPAIN)
- potential bug while compiling the Windows version of NAMD
- Potential NAMD Update Bug
- Problem
- Problem in running constant pH NAMD job
- Problem of calculating PMF changed by tilt angle using extended ABF
- Problem with BEUS in NAMD 2.14
- Problem with creating Drude-compatible .psf file for amino acid
- Problem with FEP simulations
- Problem with running NAMD config file
- Problem with running replica-exchange umbrella sampling of polarizable system
- Problem with speed of QMMM (namd2-ORCA)
- problem with TIP4P on nightly version
- Problem with titration curve with cphanalyze script CYS and LYS (Constant pH Molecular Dynamics )
- Problems Building Circular DNA
- Problems in sharing of replicas in REMD
- Protein equilibration
- Protein RMSF in replica exchange simulations
- Protein simulations: why does the structure change so much?
- Protein-ligand complex
- Protein-ligand complex is coming out of the water box
- Protein:ligand standard binding free energies clarification question
- Protocol share Ribosome
- PSF file format
- PSF for Cyclic-Branched Peptides
- psf generation
- psf generation for multiple trehalose molecules
- psfgen problem for membrane, LPSA and bacterial lipids
- Psfgen, Disulfide Linkages, and the Drude Polarizable Force Field
- QM atom cannot be fixed in space
- QM/MM biding free energy
- QM/MM error in the charges
- QM/MM live solvent selection - segmentation fault (with ORCA)
- QM/MM orbitals visualization
- QM/MM simulations with live solvent
- QMMM convergence/optimization issues in CHCL3 solvent
- QMMM latency in PME correction
- QMMM param issue
- qmmm simulation and question for md analysis
- Quantifying Error for Free Energy Calculations
- Quary resgading Adaptive biasing force
- Query about post-process of DCD
- Query in running NAMD
- Query regarding 'Protein:ligand Standard Binding Free Energies' tutorial
- Question about CHARMM-GUI NAMD Inputs
- question about free energy calculation through FEP method in NAMD
- question about In silico alchemy: tutorial for alchemical free-energy perturbation calculations with NAMD
- Question about merging MW-eABF
- Question about PBC and RMSD
- Question about QMMM simulation
- Question about Radius of hexagon;
- Question Colvar o tclforces
- question to run namd2 with multiple CPUs
- Questions about soluteScalingFactor in REST2
- QwikMD Error: child killed: unknown signal
- QwikMD--ERROR) Unable to ascertain relative endianness of remote machine
- RAMD seed number
- Rattle algorithm error: when to minimise
- Rattle algorithm failure while restarting metadynamics simulation
- Re-center membrane protein
- Receptor-ligand binding energy from QMMM
- Reducing the system size
- Regarding "lossiness" of namd on GPUs
- regarding constant PH simulation
- Regarding Parameter file
- Regarding to the parameters of QwikMD
- REMD Problem
- renumbering and rewriting a trajectory
- Replica exchange on GPU with OPA network and Slurm
- Replica exchange problem
- Replica run of Constant pH MD
- Repulsive wall potential or spherical boundry conditions
- Request for help on error fixing
- residue_rmsd.tcl script
- REST2 soluteScalingFactor fluctuating between runs
- restart file
- Restarting aborted NAMD run
- restarting eABF jobs
- Restarting QMMM
- Resuming / Resubmitting RAMD simulations on a HPC
- REUS
- rmsd
- RMSD and RMSF of ligand Only
- Rmsd calculation
- rmsd colvar
- rmsd colvars atom definition
- Rule of thumb for choosing time step in MD
- Run NAMD without GPU
- Running multiple walker metadynamics replicas as a bundle
- Running NAMD - 2.14 - SMP - Verbs - CUDA
- Running NAMD 3.0
- Running on GPU multiple nodes
- Salt bridge selection
- Script for contact Vs Freq
- scripts to generate initial boxes of solvents
- Senior Investigator/ Investigator Position (Molecular Dynamics) at Silicon Therapeutics
- Senior Investigator/ Investigator Position (Quantum Mechanics) at Silicon Therapeutics
- setting the value of qmLinkElement in NAMD/QMMM script
- Setting up / Running NAMD on HPC
- Setting up QM-MM with homotrimer
- shifting of ions from -z to +z in a single frame(1ps)
- simulated annealing
- Simulation Box Size & Simulation speed
- Simulation Crash SMD Coarse-Grained
- simulation of protein DNA complex
- Simulation of protein-lipid complex by NAMD with OPLS3e ff?
- simulations space partitioning parameters
- simulations under a periodic electric field - possible bug
- Slow performance over multi-core processor and CUDA build
- Small molecule simulation error NAMD
- SMD at constant velocity
- SMD for predetermined Umbrella sampling Windows
- SMD in lipid
- SMD on Intermembrane Helices
- SMD: Fixing centroid
- solvation with SWM4 water model
- Solvent Heating with Rigid Bonds
- Some Basic queries for FEP and TI
- Specifying a pull direction with COLVARS
- Spherical restraints
- sphingosine topology and parameter files
- spontaneous binding pathway with PMF calculation?
- Stability issues with POPC membrane using Drude force field
- Supervised MD using NAMD
- Support for drudeNbthole on CUDA version of NAMD
- Swarms of Trajectrories MPI NAMD Run
- Switching from GPU to CPU: failing with too many CPUs?
- System Drifts Along Z-Axis
- System with two membranes
- Targeted MD in NAMD 3.0?
- tclForce not recognizing group option during cphmd job
- Tclforces
- Technical specifications for the V100 and GTX gpu cards
- Temperature accelerated MD with Colvar or TclForces
- Termination between Minimization to Equilibration
- The best initial structure of Protein-Protein complex
- the centers value in colvar.in file for binding free energy (BFEE)
- The HIP version of NAMD gets wrong results when computing on more than one node
- TI alchemical transformation of a ring atom: small partial charge difference affects strongly dG
- TMD config parameters
- TMD questions - refined
- Topology and parameter files for flavonoid compounds
- toppar_water_ions.str NAMD format for last version of C36 (on July 2020)
- Transforming ORCA data to CHARMM format
- Transition State Search BY NAMD
- Trouble in fep.tcl file for FEP run in NAMD
- Truncated solvate plugin
- Ultra-violet environment simulation in NAMD
- Umbrella sampling of AA and CNT dissociation, pmf doesn't flatten & reduces over large distances...
- Umbrella windows
- Unable to calculate SMD for amber topology
- unable to run NAMD+ORCA on more than 1 cpu
- Unpredictably Crashes upon Restarting
- Unrealistically High Keq in eABF Seperation
- User defined signal 2 ERROR: One or more process (first noticed rank 7) terminated with signal 12
- Using a graphene sheet as a rigid piston
- using an Amber topology with OPC water model in NAMD
- Using NAMD and Orca together -- a QM/MM job
- vdW for atom NRN1
- Velocity MAP calculation in VMD
- Visualizing REST2 Simulation
- VMD and NAMD surveys will be coming soon
- VMD nc file problem
- vmd-l: basic procedure for ABF-PMF calculation
- vmd-l: Fwd: Fwd: impropers for protonated 1-methyladenosine
- vmd-l: NAMD and VMD Armv8-A
- vmd-l: Pair interaction calculation is not supported in CUDA version
- vmd-l: PME boolean
- Volumetric map simulations
- Warning: DUPLICATE ANGLE/BOND/DIHEDRAL ENTRY FOR ...............
- Water molecules "flying away" in Gaussian calculation of "water int" step in FFTK
- Water wrapping in the QMMM simulations
- well-tempered metadynamics deforms the water box and the system becomes unstable..
- WHAM
- When to use a semicolon in a *.conf file?
- Why simulation running on linux is damn slow??
- Why very large force reported at the starting point of constant velocity SMD run in NAMD log file?
- Workshop on Free Energy calculations in Muenster March 11-13 2020
- wrap is On to Diffusion phenomena ?
- Wrong number of basis-sets stored!
- xMDFF Error
Last message date: Thu Dec 30 2021 - 09:20:14 CST
Archived on: Fri Dec 31 2021 - 23:17:12 CST
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