Amber Archive Jun 2021: by author

ABDUL BASIT
- Re: [AMBER] Regarding MMPBSA calculation (Wed Jun 02 2021 - 12:20:38 PDT)
- [AMBER] radiopt=1 in not working in MMPBSA.py (Tue Jun 01 2021 - 10:34:41 PDT)
accuratefreeenergy.gmail.com
- Re: [AMBER] Fw: [josiah.bones.anu.edu.au: Calculation of ligand restraints in TI] (Wed Jun 30 2021 - 11:00:21 PDT)
- Re: [AMBER] Fw: [josiah.bones.anu.edu.au: Calculation of ligand restraints in TI] (Mon Jun 21 2021 - 10:46:33 PDT)
Adrian Roitberg
- Re: [AMBER] Constant pH for large number of titratable residues (Mon Jun 28 2021 - 07:27:37 PDT)
- Re: [AMBER] Which gpu should I select between tesla k80 and RTX30 series (Mon Jun 14 2021 - 07:50:03 PDT)
- Re: [AMBER] Identical results from thermodynamics integration runs (Tue Jun 01 2021 - 09:06:16 PDT)
aishen
- Re: [AMBER] Amber20 installation, Amber.pip file broken (Mon Jun 21 2021 - 09:03:37 PDT)
- Re: [AMBER] Amber20 installation, Amber.pip file broken (Mon Jun 21 2021 - 08:57:40 PDT)
- Re: [AMBER] Amber20 installation, Amber.pip file broken (Thu Jun 17 2021 - 09:11:14 PDT)
- [AMBER] about pytraj/cpptraj (Mon Jun 07 2021 - 08:18:41 PDT)
Akinyemi Omoniyi
- Re: [AMBER] Program received signal SIGSEGV: Segmentation fault - invalid memory reference. (Sat Jun 05 2021 - 15:15:00 PDT)
- [AMBER] Program received signal SIGSEGV: Segmentation fault - invalid memory reference. (Sat Jun 05 2021 - 06:22:17 PDT)
Amir Zeb
- [AMBER] Apply negative lateral pressure to membrane (Wed Jun 30 2021 - 06:31:42 PDT)
- Re: [AMBER] Restart the crashed MD run in Amber18 (Sun Jun 20 2021 - 17:54:47 PDT)
- Re: [AMBER] Restart the crashed MD run in Amber18 (Thu Jun 17 2021 - 18:04:39 PDT)
- Re: [AMBER] Restart the crashed MD run in Amber18 (Tue Jun 15 2021 - 18:03:07 PDT)
- [AMBER] Restart the crashed MD run in Amber18 (Mon Jun 14 2021 - 23:42:47 PDT)
ankita mehta
- Re: [AMBER] Execution Trouble (Thu Jun 17 2021 - 20:07:40 PDT)
- [AMBER] Execution Trouble (Tue Jun 15 2021 - 20:04:29 PDT)
Aravind R
- [AMBER] Fluctuation in GPU usage (Tue Jun 15 2021 - 10:34:45 PDT)
Athena N
- [AMBER] Query on Rmsd between clusters and population (Fri Jun 04 2021 - 10:00:06 PDT)
Balogh Álex Kálmán
- Re: [AMBER] Amber20 installation, Amber.pip file broken (Mon Jun 21 2021 - 07:54:30 PDT)
- [AMBER] Amber20 installation, Amber.pip file broken (Thu Jun 17 2021 - 01:34:45 PDT)
Bhattacharjee, Sinjini
- Re: [AMBER] TypeError: %c requires int or char (Thu Jun 10 2021 - 07:31:55 PDT)
- [AMBER] Error in pdb4amber for AmberTools21 (Wed Jun 09 2021 - 06:26:09 PDT)
Carlos Simmerling
- Re: [AMBER] AMBER-Reflector e-mails being sent to SPAM (Mon Jun 28 2021 - 13:53:14 PDT)
- Re: [AMBER] How to use a relatively smaller cutoff in the GB simulation (Wed Jun 23 2021 - 03:14:17 PDT)
- Re: [AMBER] .rst7 output coordinate file error (Tue Jun 22 2021 - 15:04:54 PDT)
- Re: [AMBER] To increase timesteps in MD simulations (Thu Jun 10 2021 - 08:51:03 PDT)
- Re: [AMBER] tleap error creating prmtop file (Wed Jun 09 2021 - 04:10:44 PDT)
- Re: [AMBER] Question about ff14SB parameters/atom types for TYR (Tue Jun 08 2021 - 11:19:30 PDT)
- Re: [AMBER] position coordinate precision (Wed Jun 02 2021 - 13:40:02 PDT)
Computational Chemistry
- [AMBER] TypeError: %c requires int or char (Thu Jun 10 2021 - 06:20:43 PDT)
Cruzeiro, Vinicius
- Re: [AMBER] Constant pH for large number of titratable residues (Thu Jun 24 2021 - 11:41:40 PDT)
- Re: [AMBER] Constant pH for large number of titratable residues (Thu Jun 24 2021 - 11:03:34 PDT)
Daniel Fowles
- [AMBER] What does the UVV file output for a LJ only system and why cant I recreate it? (Mon Jun 07 2021 - 04:59:26 PDT)
Daniel Roe
- Re: [AMBER] .rst7 output coordinate file error (Wed Jun 23 2021 - 06:12:54 PDT)
- Re: [AMBER] Breaking of complex molecule (Wed Jun 23 2021 - 06:09:58 PDT)
- Re: [AMBER] Preparation of i-Motif structures (Wed Jun 23 2021 - 06:08:34 PDT)
- Re: [AMBER] Error in pca analysis (Mon Jun 21 2021 - 07:33:07 PDT)
- Re: [AMBER] RMSD plot in ns (Sun Jun 20 2021 - 07:22:25 PDT)
- Re: [AMBER] error with solvate.sh at remove command tleap (Sun Jun 20 2021 - 07:14:39 PDT)
- Re: [AMBER] Error in pca analysis (Thu Jun 17 2021 - 08:06:12 PDT)
- Re: [AMBER] cpptraj align using the same numbering (Wed Jun 16 2021 - 12:15:34 PDT)
- Re: [AMBER] cpptraj align using the same numbering (Wed Jun 16 2021 - 06:23:08 PDT)
- Re: [AMBER] Error in pca analysis (Wed Jun 16 2021 - 06:18:39 PDT)
- Re: [AMBER] CMAP topology flag skipped (Fri Jun 11 2021 - 11:40:36 PDT)
- Re: [AMBER] how does amber calculate the water bridge fraction (Fri Jun 11 2021 - 10:48:18 PDT)
- Re: [AMBER] How to fix the numbering of amino acid that got shifted in topology file that created in amber Tleap (Mon Jun 07 2021 - 07:10:00 PDT)
- Re: [AMBER] Nastruct reference file format (Fri Jun 04 2021 - 10:30:57 PDT)
- Re: [AMBER] CMAP topology flag skipped (Fri Jun 04 2021 - 06:20:35 PDT)
- Re: [AMBER] position coordinate precision (Wed Jun 02 2021 - 13:09:50 PDT)
- Re: [AMBER] position coordinate precision (Wed Jun 02 2021 - 13:06:54 PDT)
- Re: [AMBER] Error in pca analysis (Wed Jun 02 2021 - 11:02:18 PDT)
- Re: [AMBER] Running cpptraj in hpc (Wed Jun 02 2021 - 10:48:40 PDT)
- Re: [AMBER] Error in pca analysis (Tue Jun 01 2021 - 06:03:11 PDT)
David A Case
- Re: [AMBER] Amber for AMD GPUs? (Wed Jun 30 2021 - 06:07:16 PDT)
- Re: [AMBER] Estimating protein-protein interactions (Wed Jun 30 2021 - 06:01:29 PDT)
- Re: [AMBER] How to create a model of a G-Quadruplex and imotif structure using the sequence information (Mon Jun 28 2021 - 05:31:22 PDT)
- Re: [AMBER] Installation error AMBERTOOLS21 (Fri Jun 25 2021 - 05:31:12 PDT)
- Re: [AMBER] How to use a relatively smaller cutoff in the GB simulation (Thu Jun 24 2021 - 05:46:31 PDT)
- Re: [AMBER] Installation error AMBERTOOLS21 (Wed Jun 23 2021 - 14:45:26 PDT)
- Re: [AMBER] Antechamber error when attempting Tutorial B5 (Wed Jun 23 2021 - 08:56:48 PDT)
- Re: [AMBER] ambertools20 - request for older version (Wed Jun 23 2021 - 06:07:12 PDT)
- Re: [AMBER] How to use a relatively smaller cutoff in the GB simulation (Wed Jun 23 2021 - 05:48:49 PDT)
- Re: [AMBER] Installation error AMBERTOOLS21 (Wed Jun 23 2021 - 05:41:49 PDT)
- Re: [AMBER] .rst7 output coordinate file error (Wed Jun 23 2021 - 05:34:22 PDT)
- Re: [AMBER] Preparation of i-Motif structures (Tue Jun 22 2021 - 12:58:54 PDT)
- Re: [AMBER] Amber20 installation, Amber.pip file broken (Mon Jun 21 2021 - 13:37:54 PDT)
- Re: [AMBER] Installation error AMBERTOOLS21 (Mon Jun 21 2021 - 05:50:27 PDT)
- Re: [AMBER] Amber20 installation, Amber.pip file broken (Mon Jun 21 2021 - 05:43:37 PDT)
- Re: [AMBER] install Amber20 GPU Centos 7 (Fri Jun 18 2021 - 05:22:30 PDT)
- Re: [AMBER] Execution Trouble (Fri Jun 18 2021 - 05:13:11 PDT)
- Re: [AMBER] Restart the crashed MD run in Amber18 (Fri Jun 18 2021 - 05:10:10 PDT)
- Re: [AMBER] error with solvate.sh at remove command tleap (Fri Jun 18 2021 - 05:02:21 PDT)
- Re: [AMBER] Restart the crashed MD run in Amber18 (Wed Jun 16 2021 - 06:00:52 PDT)
- Re: [AMBER] cpptraj align using the same numbering (Wed Jun 16 2021 - 05:55:05 PDT)
- Re: [AMBER] Execution Trouble (Wed Jun 16 2021 - 05:46:01 PDT)
- Re: [AMBER] Restart the crashed MD run in Amber18 (Tue Jun 15 2021 - 06:05:14 PDT)
- Re: [AMBER] Amber20 5 times slower than Amber18? (Tue Jun 15 2021 - 06:02:19 PDT)
- Re: [AMBER] Problem of running a simulation in A100 GPU server. (Sun Jun 13 2021 - 18:47:17 PDT)
- Re: [AMBER] strange tleap error with bond command (Sun Jun 13 2021 - 18:37:14 PDT)
- Re: [AMBER] NAB superimpose issue (Fri Jun 11 2021 - 06:44:42 PDT)
- Re: [AMBER] Norleucine in ff99sb_ildn? (Thu Jun 10 2021 - 13:05:44 PDT)
- Re: [AMBER] an illegal memory access (Thu Jun 10 2021 - 13:00:08 PDT)
- Re: [AMBER] TypeError: %c requires int or char (Thu Jun 10 2021 - 07:17:19 PDT)
- Re: [AMBER] NAB superimpose issue (Thu Jun 10 2021 - 05:56:38 PDT)
- Re: [AMBER] Some Problems by using NAB of AmberTools21 to model Circle-DNA (Thu Jun 10 2021 - 05:44:54 PDT)
- Re: [AMBER] pKa Calculation using PMEMD (Thu Jun 10 2021 - 05:06:47 PDT)
- Re: [AMBER] Error in pdb4amber for AmberTools21 (Wed Jun 09 2021 - 07:13:16 PDT)
- Re: [AMBER] Adding several Helium atoms to a Lipid bilayer structure in AMBER (Wed Jun 09 2021 - 06:08:40 PDT)
- Re: [AMBER] What does the UVV file output for a LJ only system and why cant I recreate it? (Wed Jun 09 2021 - 05:59:07 PDT)
- Re: [AMBER] Incomplete trajectory due to calculation halted error (Wed Jun 09 2021 - 05:48:59 PDT)
- Re: [AMBER] NAB superimpose issue (Tue Jun 08 2021 - 10:07:03 PDT)
- Re: [AMBER] knlskintest error when using HMR with 4fs (Mon Jun 07 2021 - 11:47:40 PDT)
- Re: [AMBER] about pytraj/cpptraj (Mon Jun 07 2021 - 11:30:55 PDT)
- Re: [AMBER] How to fix the numbering of amino acid that got shifted in topology file that created in amber Tleap (Mon Jun 07 2021 - 04:46:50 PDT)
- Re: [AMBER] Program received signal SIGSEGV: Segmentation fault - invalid memory reference. (Sun Jun 06 2021 - 05:18:44 PDT)
- Re: [AMBER] Program received signal SIGSEGV: Segmentation fault - invalid memory reference. (Sat Jun 05 2021 - 09:28:39 PDT)
David Wright
- Re: [AMBER] Antechamber error when attempting Tutorial B5 (Thu Jun 24 2021 - 03:16:04 PDT)
- [AMBER] Antechamber error when attempting Tutorial B5 (Wed Jun 23 2021 - 08:41:22 PDT)
Dickson, Callum
- Re: [AMBER] Absolute Binding Free Energy of Protein+Ligand Complex in AMBER20 - Boresch restraints, Smoothstep (Fri Jun 18 2021 - 07:48:02 PDT)
Dr. Anselm Horn
- Re: [AMBER] How to set a check point in Amber (Tue Jun 29 2021 - 01:20:45 PDT)
- Re: [AMBER] Multi-Monomer Polymer (Fri Jun 25 2021 - 03:55:24 PDT)
- Re: [AMBER] Breaking of complex molecule (Wed Jun 23 2021 - 05:35:32 PDT)
- Re: [AMBER] RMSD plot in ns (Mon Jun 21 2021 - 00:11:27 PDT)
- Re: [AMBER] Error in pca analysis (Thu Jun 17 2021 - 02:21:40 PDT)
- [AMBER] Question about ff14SB parameters/atom types for TYR (Tue Jun 08 2021 - 02:56:36 PDT)
- Re: [AMBER] How to fix the numbering of amino acid that got shifted in topology file that created in amber Tleap (Mon Jun 07 2021 - 00:42:34 PDT)
Dr. Srinivasa B. Ramisetti
- [AMBER] issues with non-bonded and bonded force field parameterisation for Arsenic (Wed Jun 16 2021 - 22:45:06 PDT)
- [AMBER] issues in non-bonded and bonded force parameters (Wed Jun 16 2021 - 02:58:54 PDT)
Eduardo R. Almeida
- [AMBER] TI for inclusion complexes (Thu Jun 17 2021 - 06:27:28 PDT)
Ephraim Marondedze
- [AMBER] Error in TI analysis (Sat Jun 26 2021 - 04:22:37 PDT)
Fabian Glaser
- [AMBER] A40 vs A5000 (Wed Jun 02 2021 - 05:45:55 PDT)
GALLO FACUNDO NAHUEL
- [AMBER] .rst7 output coordinate file error (Tue Jun 22 2021 - 12:36:37 PDT)
Gerald Monard
- Re: [AMBER] Installing compilers/libraries on Ubuntu 18.04 without root access (Tue Jun 29 2021 - 22:43:47 PDT)
Gustaf Olsson
- Re: [AMBER] [MCPB.py]_KeyError: 'HZ3' (Tue Jun 08 2021 - 06:46:26 PDT)
- Re: [AMBER] [MCPB.py]_KeyError: 'HZ3' (Mon Jun 07 2021 - 05:26:57 PDT)
Gustavo Seabra
- Re: [AMBER] AMBER-Reflector e-mails being sent to SPAM (Mon Jun 28 2021 - 13:56:26 PDT)
- [AMBER] AMBER-Reflector e-mails being sent to SPAM (Mon Jun 28 2021 - 13:48:53 PDT)
Holly Freedman
- [AMBER] gti_add_sc (Thu Jun 03 2021 - 11:02:56 PDT)
Jaime Rubio Martinez
- [AMBER] 3080Ti Nvidia (Mon Jun 21 2021 - 14:06:57 PDT)
jamal kazazi
- Re: [AMBER] Amber20 installation, Amber.pip file broken (Thu Jun 17 2021 - 09:55:05 PDT)
- [AMBER] compilation error (Wed Jun 16 2021 - 22:36:40 PDT)
James Almeida
- [AMBER] Pressure tensor components in the GPU code. (Wed Jun 09 2021 - 06:36:21 PDT)
James Moraes de Almeida
- [AMBER] Pressure tensor components in the GPU code. (Mon Jun 07 2021 - 15:06:23 PDT)
Jason Swails
- Re: [AMBER] AMBER-Reflector e-mails being sent to SPAM (Wed Jun 30 2021 - 20:04:20 PDT)
- Re: [AMBER] HREMD with similar replicas (Wed Jun 30 2021 - 20:02:20 PDT)
Jenny 148
- [AMBER] Running cpptraj in hpc (Wed Jun 02 2021 - 08:27:13 PDT)
jinfeng liu
- Re: [AMBER] How to use a relatively smaller cutoff in the GB simulation (Thu Jun 24 2021 - 02:10:35 PDT)
- [AMBER] How to use a relatively smaller cutoff in the GB simulation (Wed Jun 23 2021 - 03:16:11 PDT)
Jong Young Joung
- [AMBER] Problem of running a simulation in A100 GPU server. (Sun Jun 13 2021 - 06:36:48 PDT)
Josiah Bones
- Re: [AMBER] Fw: [josiah.bones.anu.edu.au: Calculation of ligand restraints in TI] (Tue Jun 29 2021 - 23:17:46 PDT)
- Re: [AMBER] Fw: [josiah.bones.anu.edu.au: Calculation of ligand restraints in TI] (Tue Jun 29 2021 - 22:36:44 PDT)
- [AMBER] Absolute Binding Free Energy of Protein+Ligand Complex in AMBER20 - Boresch restraints, Smoothstep (Thu Jun 17 2021 - 23:29:58 PDT)
- [AMBER] Fw: [josiah.bones.anu.edu.au: Calculation of ligand restraints in TI] (Thu Jun 17 2021 - 15:08:33 PDT)
- [AMBER] Calculation of ligand restraints in TI (Wed Jun 16 2021 - 18:13:46 PDT)
Kenneth Huang
- [AMBER] Norleucine in ff99sb_ildn? (Thu Jun 10 2021 - 11:02:47 PDT)
Kevin Keane
- Re: [AMBER] Troubleshooting long idle times in pmemd.MPI (Wed Jun 16 2021 - 21:45:31 PDT)
Lambach, Lauren
- Re: [AMBER] position coordinate precision (Wed Jun 02 2021 - 14:55:31 PDT)
- [AMBER] position coordinate precision (Wed Jun 02 2021 - 12:46:46 PDT)
Loki
- Re: [AMBER] CMAP topology flag skipped (Thu Jun 10 2021 - 02:42:40 PDT)
- Re: [AMBER] CMAP topology flag skipped (Fri Jun 04 2021 - 07:57:13 PDT)
Maghsoud, Yazdan
- [AMBER] Adding several Helium atoms to a Lipid bilayer structure in AMBER (Fri Jun 04 2021 - 16:12:45 PDT)
Mandar Kulkarni
- Re: [AMBER] Installation error AMBERTOOLS21 (Sat Jun 26 2021 - 07:59:51 PDT)
- Re: [AMBER] Installation error AMBERTOOLS21 (Thu Jun 24 2021 - 11:38:46 PDT)
- Re: [AMBER] Installation error AMBERTOOLS21 (Wed Jun 23 2021 - 13:48:47 PDT)
- Re: [AMBER] Installation error AMBERTOOLS21 (Wed Jun 23 2021 - 01:47:10 PDT)
- [AMBER] Installation error AMBERTOOLS21 (Sun Jun 20 2021 - 05:22:22 PDT)
- Re: [AMBER] NAB superimpose issue (Sat Jun 12 2021 - 02:01:24 PDT)
- Re: [AMBER] NAB superimpose issue (Thu Jun 10 2021 - 13:44:55 PDT)
- Re: [AMBER] NAB superimpose issue (Thu Jun 10 2021 - 06:39:43 PDT)
- Re: [AMBER] NAB superimpose issue (Thu Jun 10 2021 - 02:07:38 PDT)
- [AMBER] NAB superimpose issue (Mon Jun 07 2021 - 14:52:04 PDT)
Martin Rosellen
- Re: [AMBER] cpptraj align using the same numbering (Wed Jun 16 2021 - 09:05:42 PDT)
- [AMBER] cpptraj align using the same numbering (Wed Jun 16 2021 - 04:09:09 PDT)
Matthew Guberman-Pfeffer
- Re: [AMBER] Estimating protein-protein interactions (Wed Jun 30 2021 - 06:31:19 PDT)
- [AMBER] Estimating protein-protein interactions (Mon Jun 28 2021 - 19:21:44 PDT)
- Re: [AMBER] Constant pH for large number of titratable residues (Mon Jun 28 2021 - 07:47:01 PDT)
- Re: [AMBER] Constant pH for large number of titratable residues (Thu Jun 24 2021 - 11:47:06 PDT)
- Re: [AMBER] Constant pH for large number of titratable residues (Thu Jun 24 2021 - 11:22:20 PDT)
- [AMBER] Constant pH for large number of titratable residues (Thu Jun 24 2021 - 09:35:28 PDT)
Ming Tang
- Re: [AMBER] how does amber calculate the water bridge fraction (Fri Jun 11 2021 - 16:27:16 PDT)
- [AMBER] how does amber calculate the water bridge fraction (Fri Jun 11 2021 - 02:47:02 PDT)
Monika Pareek
- [AMBER] pKa Calculation using PMEMD (Wed Jun 09 2021 - 23:07:14 PDT)
Neville Bethel
- Re: [AMBER] knlskintest error when using HMR with 4fs (Thu Jun 10 2021 - 15:30:47 PDT)
- [AMBER] knlskintest error when using HMR with 4fs (Mon Jun 07 2021 - 09:48:53 PDT)
Pengfei Li
- Re: [AMBER] issues with non-bonded and bonded force field parameterisation for Arsenic (Thu Jun 17 2021 - 15:21:59 PDT)
- Re: [AMBER] Error: Could not open file frcmod.ions1lm_126_hfe_opc: not found (Wed Jun 09 2021 - 15:52:32 PDT)
- Re: [AMBER] [MCPB.py]_KeyError: 'HZ2' (Tue Jun 08 2021 - 19:14:26 PDT)
Petr Stadlbauer
- Re: [AMBER] Preparation of i-Motif structures (Sat Jun 19 2021 - 02:58:20 PDT)
Pietro Amodeo
- [AMBER] Possible impact of cryptomining limitations on new NVidia GPUs on pmemd performances (Sun Jun 06 2021 - 01:28:40 PDT)
priya murugan
- [AMBER] How to fix the numbering of amino acid that got shifted in topology file that created in amber Tleap (Sun Jun 06 2021 - 21:11:34 PDT)
raissa.conceicao.bol.com.br
- [AMBER] mmgbsa results (Mon Jun 14 2021 - 12:50:33 PDT)
Ramanathan Rajesh
- [AMBER] How to create a model of a G-Quadruplex and imotif structure using the sequence information (Fri Jun 25 2021 - 07:48:58 PDT)
Ramin Mehrani
- [AMBER] How to set a check point in Amber (Mon Jun 28 2021 - 11:04:30 PDT)
Rana Rehan Khalid
- Re: [AMBER] APR- Umbrella sampling of Receptor- ligand complex (Tue Jun 01 2021 - 09:48:07 PDT)
Ray Luo
- Re: [AMBER] radiopt=1 in not working in MMPBSA.py (Tue Jun 01 2021 - 11:57:31 PDT)
Razil Tahir
- [AMBER] Incomplete trajectory due to calculation halted error (Tue Jun 08 2021 - 12:07:35 PDT)
Renato Araujo
- [AMBER] Error charges ligand having Selenium (Wed Jun 30 2021 - 14:44:05 PDT)
Reza Esmaeeli
- Re: [AMBER] RMSD plot in ns (Sun Jun 20 2021 - 05:10:06 PDT)
- [AMBER] an illegal memory access (Thu Jun 10 2021 - 07:12:48 PDT)
richa anand
- [AMBER] Breaking of complex molecule (Tue Jun 22 2021 - 21:00:27 PDT)
Richard Kullmann
- [AMBER] HREMD with similar replicas (Tue Jun 22 2021 - 06:29:41 PDT)
Rinsha Chk
- [AMBER] Regarding MMPBSA calculation (Wed Jun 02 2021 - 10:42:58 PDT)
Robert Molt
- [AMBER] Nastruct reference file format (Fri Jun 04 2021 - 08:42:27 PDT)
- [AMBER] Nastruct reference file format (Tue Jun 01 2021 - 13:58:12 PDT)
Roitberg,Adrian E
- Re: [AMBER] sqm seeks the Boron parameter file instead of Bromine (Sat Jun 26 2021 - 12:13:09 PDT)
Ross Walker
- Re: [AMBER] 3080Ti Nvidia (Mon Jun 21 2021 - 14:14:44 PDT)
- Re: [AMBER] Fluctuation in GPU usage (Tue Jun 15 2021 - 10:52:10 PDT)
- Re: [AMBER] Which gpu should I select between tesla k80 and RTX30 series (Mon Jun 14 2021 - 09:27:53 PDT)
Ruben Cruz
- [AMBER] ambertools20 - request for older version (Wed Jun 23 2021 - 04:57:52 PDT)
sabrine kh
- Re: [AMBER] [MCPB.py]_KeyError: 'HZ3' (Tue Jun 08 2021 - 06:16:42 PDT)
- Re: [AMBER] [MCPB.py]_KeyError: 'HZ3' (Mon Jun 07 2021 - 08:40:48 PDT)
- [AMBER] [MCPB.py]_KeyError: 'HZ3' (Mon Jun 07 2021 - 05:03:25 PDT)
- [AMBER] [MCPB.py]_KeyError: 'HZ2' (Mon Jun 07 2021 - 04:59:00 PDT)
Sadaf Rani
- [AMBER] RMSD plot in ns (Sun Jun 20 2021 - 04:58:20 PDT)
Sayilpreet Kaur
- [AMBER] regarding parameters for protonated guanosine (Wed Jun 23 2021 - 22:28:49 PDT)
Sebastian Brickel
- [AMBER] install Amber20 GPU Centos 7 (Fri Jun 18 2021 - 02:30:20 PDT)
Shenglong Wang
- [AMBER] Amber for AMD GPUs? (Tue Jun 29 2021 - 09:31:19 PDT)
Smith, Ally
- [AMBER] Installing compilers/libraries on Ubuntu 18.04 without root access (Mon Jun 28 2021 - 11:52:52 PDT)
Souvik Dey
- [AMBER] Can not locate tordef.lib file (Wed Jun 16 2021 - 16:28:31 PDT)
Srinivasa Ramisetti
- [AMBER] issues with non-bonded and bonded force field parameterisation for Arsenic (Thu Jun 17 2021 - 07:52:26 PDT)
Sruthi Sudhakar
- [AMBER] Regarding protein - nucleic acid contacts (Tue Jun 29 2021 - 03:44:17 PDT)
- Re: [AMBER] Error in pca analysis (Fri Jun 25 2021 - 22:53:16 PDT)
- Re: [AMBER] Preparation of i-Motif structures (Tue Jun 22 2021 - 11:37:02 PDT)
- Re: [AMBER] Preparation of i-Motif structures (Sat Jun 19 2021 - 00:36:31 PDT)
- Re: [AMBER] Error in pca analysis (Fri Jun 18 2021 - 23:12:37 PDT)
- Re: [AMBER] Error in pca analysis (Thu Jun 17 2021 - 09:06:40 PDT)
- Re: [AMBER] Error in pca analysis (Thu Jun 17 2021 - 04:22:36 PDT)
- Re: [AMBER] Error in pca analysis (Tue Jun 15 2021 - 20:57:22 PDT)
- Re: [AMBER] Error in pca analysis (Sat Jun 12 2021 - 14:16:10 PDT)
- [AMBER] query on principal component analysis trajectory (Fri Jun 11 2021 - 23:53:33 PDT)
- Re: [AMBER] Error in pca analysis (Fri Jun 11 2021 - 23:41:41 PDT)
- Re: [AMBER] Error in pca analysis (Wed Jun 02 2021 - 11:28:57 PDT)
- Re: [AMBER] Error in pca analysis (Tue Jun 01 2021 - 12:22:59 PDT)
- Re: [AMBER] Error in pca analysis (Tue Jun 01 2021 - 06:51:52 PDT)
Swisher, Justin S
- [AMBER] Multi-Monomer Polymer (Thu Jun 24 2021 - 12:54:04 PDT)
Syeda Amna Arshi
- [AMBER] To increase timesteps in MD simulations (Thu Jun 10 2021 - 08:05:16 PDT)
Thomas Evangelidis
- Re: [AMBER] sqm seeks the Boron parameter file instead of Bromine (Mon Jun 28 2021 - 05:33:06 PDT)
- Re: [AMBER] sqm seeks the Boron parameter file instead of Bromine (Mon Jun 28 2021 - 05:29:41 PDT)
- [AMBER] sqm seeks the Boron parameter file instead of Bromine (Sat Jun 26 2021 - 08:31:25 PDT)
Umesh Roy
- [AMBER] Error in calculating pair distribution function (Mon Jun 07 2021 - 21:11:42 PDT)
Vaibhav Dixit
- Re: [AMBER] error with solvate.sh at remove command tleap (Fri Jun 18 2021 - 06:12:37 PDT)
- Re: [AMBER] error with solvate.sh at remove command tleap (Fri Jun 18 2021 - 02:07:45 PDT)
- [AMBER] error with solvate.sh at remove command tleap (Thu Jun 17 2021 - 10:23:52 PDT)
- Re: [AMBER] strange tleap error with bond command (Sun Jun 13 2021 - 22:01:25 PDT)
- [AMBER] strange tleap error with bond command (Fri Jun 11 2021 - 23:01:45 PDT)
- [AMBER] tleap error creating prmtop file (Wed Jun 09 2021 - 03:17:00 PDT)
wangjianing_mail
- [AMBER] use QUICK for QM/MM simulation accelerated by gpu (Thu Jun 17 2021 - 03:37:40 PDT)
- Re: [AMBER] use QUICK for QM/MM simulation accelerated by gpu (Sun Jun 13 2021 - 09:07:34 PDT)
- [AMBER] use QUICK for QM/MM simulation accelerated by gpu (Sun Jun 13 2021 - 08:23:40 PDT)
Wu Xu
- Re: [AMBER] xleap (Tue Jun 01 2021 - 12:04:20 PDT)
Yu Chen
- Re: [AMBER] Amber20 5 times slower than Amber18? (Tue Jun 15 2021 - 12:23:49 PDT)
- [AMBER] Amber20 5 times slower than Amber18? (Mon Jun 14 2021 - 14:08:12 PDT)
zz sheng
- Re: [AMBER] Identical results from thermodynamics integration runs (Tue Jun 01 2021 - 09:14:30 PDT)
- [AMBER] Identical results from thermodynamics integration runs (Tue Jun 01 2021 - 08:43:55 PDT)
Åke Sandgren
- Re: [AMBER] Installing compilers/libraries on Ubuntu 18.04 without root access (Wed Jun 30 2021 - 01:09:10 PDT)
东不拉
- [AMBER] Which gpu should I select between tesla k80 and RTX30 series (Mon Jun 14 2021 - 06:34:06 PDT)
韩正威
- [AMBER] The code for modeling circular DNA is in the attachment (Thu Jun 10 2021 - 00:19:35 PDT)
- [AMBER] Some Problems by using NAB of AmberTools21 to model Circle-DNA (Thu Jun 10 2021 - 00:17:05 PDT)

Amber Archive Jun 2021 by author