Amber Archive Jul 2021: by subject

[AMBER] "idecomp" in pairwise decomposition
- Víctor Vargas (Thu Jul 08 2021 - 10:11:40 PDT)
[AMBER] - Free energy calculations of protein molecule with two binding sites
- David A Case (Thu Jul 08 2021 - 13:31:47 PDT)
- Patil Pranita Uttamrao (Thu Jul 08 2021 - 09:53:52 PDT)
[AMBER] 3D-RISM in amber20
- David A Case (Tue Jul 20 2021 - 18:21:09 PDT)
- Priya Dey (Mon Jul 19 2021 - 23:35:08 PDT)
[AMBER] [cluster] Not all arguments handled: [ sil Sil avgout Avg avgfmt restart ]
- 余鸿艳 (Thu Jul 22 2021 - 18:34:21 PDT)
- Daniel Roe (Tue Jul 20 2021 - 09:12:44 PDT)
- 余鸿艳 (Sat Jul 17 2021 - 01:06:29 PDT)
- 余鸿艳 (Sat Jul 17 2021 - 01:00:39 PDT)
- Víctor Vargas (Thu Jul 15 2021 - 11:38:30 PDT)
- Daniel Roe (Thu Jul 15 2021 - 08:48:17 PDT)
- 余鸿艳 (Thu Jul 15 2021 - 00:03:05 PDT)
[AMBER] A question for cpptraj cluster command
- Daniel Roe (Tue Jul 06 2021 - 06:00:27 PDT)
- Yeng-Tseng Wang (Mon Jul 05 2021 - 11:05:57 PDT)
[AMBER] adding counterions in cpptraj
- Rohanizeidanlou, Sahar (Tue Jul 20 2021 - 11:57:07 PDT)
- Daniel Roe (Tue Jul 20 2021 - 08:43:40 PDT)
- Rohanizeidanlou, Sahar (Mon Jul 19 2021 - 13:48:31 PDT)
[AMBER] Amber Tutorial for QM/MM/MD simulations
- David A Case (Fri Jul 16 2021 - 07:29:39 PDT)
- Stephan Schott (Fri Jul 16 2021 - 05:10:22 PDT)
- Neha Verma (Fri Jul 16 2021 - 04:46:15 PDT)
[AMBER] Building Forcefield for Glycolipid Molecule
- ABEL Stephane (Tue Jul 27 2021 - 09:28:05 PDT)
- Razil Tahir (Tue Jul 27 2021 - 07:42:57 PDT)
- ABEL Stephane (Wed Jul 21 2021 - 02:35:16 PDT)
- Dr. Anselm Horn (Wed Jul 21 2021 - 01:55:30 PDT)
- Razil Tahir (Tue Jul 20 2021 - 18:38:42 PDT)
- Razil Tahir (Tue Jul 20 2021 - 18:36:13 PDT)
- Razil Tahir (Tue Jul 20 2021 - 18:23:34 PDT)
- Dr. Anselm Horn (Mon Jul 19 2021 - 02:11:43 PDT)
- ABEL Stephane (Mon Jul 19 2021 - 01:56:12 PDT)
- Razil Tahir (Sun Jul 18 2021 - 10:02:45 PDT)
[AMBER] Cluster RMSD
- Daniel Roe (Tue Jul 06 2021 - 06:14:45 PDT)
- Jenny 148 (Wed Jun 30 2021 - 22:35:37 PDT)
[AMBER] CompEL in AMBER
- Stephan Schott (Fri Jul 16 2021 - 05:14:13 PDT)
- David A Case (Mon Jul 05 2021 - 05:01:02 PDT)
- Abdul-Rashid III Sampaco (Sun Jul 04 2021 - 22:10:21 PDT)
[AMBER] Constant pH for large number of titratable residues
- Matthew Guberman-Pfeffer (Sat Jul 03 2021 - 08:10:51 PDT)
- Matthew Guberman-Pfeffer (Sat Jul 03 2021 - 08:05:42 PDT)
- Jason Swails (Thu Jul 01 2021 - 08:41:55 PDT)
[AMBER] Convergence issue in 1drism
- tluchko (Wed Jul 28 2021 - 10:11:04 PDT)
- David A Case (Tue Jul 27 2021 - 14:16:08 PDT)
- angad sharma (Tue Jul 27 2021 - 11:51:32 PDT)
[AMBER] Coordinate resetting (SHAKE) cannot be accomplished, deviation is too large
- Adrian Roitberg (Thu Jul 15 2021 - 13:35:35 PDT)
- Rana Rehan Khalid (Thu Jul 15 2021 - 13:32:49 PDT)
[AMBER] Cphstats unable to read cpin
- Cruzeiro, Vinicius (Tue Jul 27 2021 - 20:23:56 PDT)
- Matthew Guberman-Pfeffer (Tue Jul 27 2021 - 19:54:24 PDT)
- Cruzeiro, Vinicius (Tue Jul 27 2021 - 17:43:15 PDT)
- Matthew Guberman-Pfeffer (Tue Jul 27 2021 - 16:41:01 PDT)
- Matthew Guberman-Pfeffer (Mon Jul 26 2021 - 04:05:55 PDT)
- Cruzeiro, Vinicius (Sun Jul 25 2021 - 23:30:18 PDT)
- Matthew Guberman-Pfeffer (Sun Jul 25 2021 - 20:50:46 PDT)
[AMBER] cudaMemcpy GpuBuffer ERROR
- Ross Walker (Tue Jul 20 2021 - 16:09:35 PDT)
- Gerardo Zerbetto De Palma (Tue Jul 20 2021 - 09:15:51 PDT)
- Gerardo Zerbetto De Palma (Mon Jul 19 2021 - 08:13:11 PDT)
- Carlos Simmerling (Mon Jul 19 2021 - 08:03:42 PDT)
- Gerardo Zerbetto De Palma (Mon Jul 19 2021 - 08:00:22 PDT)
- Carlos Simmerling (Mon Jul 19 2021 - 07:08:04 PDT)
- Gerardo Zerbetto De Palma (Mon Jul 19 2021 - 06:46:05 PDT)
- Rafał Madaj (Fri Jul 16 2021 - 14:28:43 PDT)
- Gerardo Zerbetto De Palma (Fri Jul 16 2021 - 09:01:56 PDT)
[AMBER] Displacement of coordinated Zn during the simulation
- Amit Sharma (Asstt. Prof., MCARS) (Wed Jul 21 2021 - 08:27:08 PDT)
[AMBER] DNA Strand Broken after minimization
- Sumon Naskar (Wed Jul 14 2021 - 14:05:31 PDT)
- David A Case (Tue Jul 13 2021 - 15:15:37 PDT)
- Sumon Naskar (Tue Jul 13 2021 - 11:28:55 PDT)
- Carlos Simmerling (Tue Jul 13 2021 - 10:13:20 PDT)
- Sumon Naskar (Tue Jul 13 2021 - 03:22:44 PDT)
[AMBER] Error charges ligand having Selenium
- Dr. Anselm Horn (Thu Jul 01 2021 - 12:34:27 PDT)
[AMBER] Error in MC/MD+TI
- ABDUL BASIT (Sat Jul 10 2021 - 22:30:29 PDT)
[AMBER] Error message
- David A Case (Thu Jul 29 2021 - 10:55:29 PDT)
- Vento, Gabby (Wed Jul 28 2021 - 14:30:59 PDT)
[AMBER] Error:[cluster] Not all arguments handled: [ sil Sil avgout Avg avgfmt restart ]
- Daniel Roe (Thu Jul 15 2021 - 08:52:27 PDT)
- 余鸿艳 (Thu Jul 15 2021 - 00:06:02 PDT)
[AMBER] Estimating protein-protein interactions
- Daniel Roe (Tue Jul 06 2021 - 06:32:42 PDT)
[AMBER] Ferrocene simulation
- Gustaf Olsson (Thu Jul 08 2021 - 01:52:33 PDT)
[AMBER] fitpkaeo.py not reading input from cestats
- Matthew Guberman-Pfeffer (Sat Jul 17 2021 - 18:55:52 PDT)
- Cruzeiro, Vinicius (Sat Jul 17 2021 - 18:35:58 PDT)
- Matthew Guberman-Pfeffer (Sat Jul 17 2021 - 18:22:54 PDT)
- Cruzeiro, Vinicius (Sat Jul 17 2021 - 18:17:11 PDT)
- Matthew Guberman-Pfeffer (Sat Jul 17 2021 - 15:40:06 PDT)
[AMBER] Forcefield for alkyl chain in glycolipid molecule
- Razil Tahir (Sun Jul 18 2021 - 09:56:19 PDT)
[AMBER] Fortran runtime error: Bad value during integer read
- Sadaf Rani (Fri Jul 09 2021 - 19:23:39 PDT)
- David A Case (Fri Jul 09 2021 - 10:11:17 PDT)
- Sadaf Rani (Fri Jul 09 2021 - 06:59:18 PDT)
- Adrian Roitberg (Fri Jul 09 2021 - 06:51:33 PDT)
- Sadaf Rani (Fri Jul 09 2021 - 06:48:06 PDT)
[AMBER] Gas phase Simulations
- Kolattukudy P. Santo (Wed Jul 21 2021 - 10:38:19 PDT)
- David A Case (Wed Jul 21 2021 - 06:57:07 PDT)
- Kolattukudy P. Santo (Tue Jul 20 2021 - 18:55:57 PDT)
- David A Case (Tue Jul 20 2021 - 18:06:57 PDT)
- Kolattukudy P. Santo (Tue Jul 20 2021 - 11:17:32 PDT)
[AMBER] gpu error
- David A Case (Sat Jul 24 2021 - 18:31:40 PDT)
- Debarati DasGupta (Sat Jul 24 2021 - 17:41:35 PDT)
- David A Case (Sat Jul 24 2021 - 04:37:33 PDT)
- Debarati DasGupta (Fri Jul 23 2021 - 06:25:28 PDT)
[AMBER] Help with imagining curled protein
- Matthew Guberman-Pfeffer (Thu Jul 15 2021 - 06:33:53 PDT)
- Dr. Anselm Horn (Thu Jul 15 2021 - 03:25:19 PDT)
- Matthew Guberman-Pfeffer (Wed Jul 14 2021 - 08:11:43 PDT)
- Daniel Roe (Tue Jul 13 2021 - 10:06:10 PDT)
- Matthew Guberman-Pfeffer (Tue Jul 13 2021 - 06:31:03 PDT)
[AMBER] How can I use desmond trajectory in Amber
- Daniel Roe (Sat Jul 03 2021 - 09:39:13 PDT)
- BAS071501 Anupama KP PhD ANS (Sat Jul 03 2021 - 09:08:12 PDT)
[AMBER] How to assign/apply the negative lateral pressure to lipid bilayer in AMBER?
- Amir Zeb (Sun Jul 04 2021 - 22:36:04 PDT)
[AMBER] How to study the redox properties of a partially dried protein
- Matthew Guberman-Pfeffer (Fri Jul 09 2021 - 13:41:45 PDT)
[AMBER] Include specific solvent in constant pH MD simulation by CPHFIRST_SOL
- He, Amy (Sun Jul 25 2021 - 06:05:16 PDT)
- David A Case (Sun Jul 25 2021 - 05:24:03 PDT)
- He, Amy (Sat Jul 24 2021 - 23:12:27 PDT)
[AMBER] installation error: /usr/bin/ld: final link failed: Nonrepresentable section on output
- jinfeng liu (Mon Jul 12 2021 - 18:10:36 PDT)
- David A Case (Mon Jul 12 2021 - 06:33:30 PDT)
- David A Case (Mon Jul 12 2021 - 06:30:18 PDT)
- jinfeng liu (Sun Jul 11 2021 - 18:47:22 PDT)
- David A Case (Sun Jul 11 2021 - 12:52:47 PDT)
- jinfeng liu (Sun Jul 11 2021 - 02:30:14 PDT)
[AMBER] Installing AmberTools with C++11 support
- David A Case (Wed Jul 28 2021 - 04:49:08 PDT)
- Shawn Brown (Wed Jul 28 2021 - 04:09:39 PDT)
- Muhammad Ayaz Anwar (Wed Jul 28 2021 - 02:20:22 PDT)
[AMBER] Is Amber18 compatible with AmberTools21
- David A Case (Tue Jul 13 2021 - 11:29:36 PDT)
- Francis Acquah (Tue Jul 13 2021 - 07:31:41 PDT)
[AMBER] Ligand clustering input .pdb file.
- Daniel Roe (Tue Jul 20 2021 - 09:06:44 PDT)
- Samuele Di Cristofano (Mon Jul 19 2021 - 02:13:50 PDT)
[AMBER] MCPB.py 'OW' type error in AmberTools21
- David William Kastner (Tue Jul 20 2021 - 07:51:12 PDT)
[AMBER] MCPB.py tutorial issues
- Pengfei Li (Tue Jul 13 2021 - 19:49:53 PDT)
- Pengfei Li (Tue Jul 13 2021 - 19:47:27 PDT)
- James Kress (Fri Jul 09 2021 - 11:43:57 PDT)
- Charo del Genio (Fri Jul 09 2021 - 09:44:54 PDT)
- Gustaf Olsson (Fri Jul 09 2021 - 07:54:59 PDT)
- Gustaf Olsson (Fri Jul 09 2021 - 02:12:32 PDT)
- Vaibhav Dixit (Fri Jul 09 2021 - 01:58:55 PDT)
- Gustaf Olsson (Fri Jul 09 2021 - 01:45:14 PDT)
[AMBER] MD run on RTX-3070 gpu card is much slower than that on RTX-2080ti
- Ross Walker (Fri Jul 16 2021 - 05:43:44 PDT)
- jinfeng liu (Thu Jul 15 2021 - 21:40:18 PDT)
[AMBER] MD with emap restraints, restraints have no effect
- David A Case (Mon Jul 05 2021 - 05:11:50 PDT)
- Will Gerrard (Mon Jul 05 2021 - 01:53:15 PDT)
- David A Case (Sun Jul 04 2021 - 10:28:51 PDT)
- Will Gerrard (Sat Jul 03 2021 - 02:51:42 PDT)
[AMBER] Missing mtkpp directory after installation of AmberTools21
- Anthony Nash (Fri Jul 23 2021 - 08:38:17 PDT)
- Anthony Nash (Fri Jul 23 2021 - 02:26:25 PDT)
- Pengfei Li (Thu Jul 22 2021 - 19:24:56 PDT)
- Anthony Nash (Wed Jul 21 2021 - 06:10:41 PDT)
- Pengfei Li (Tue Jul 20 2021 - 19:29:30 PDT)
- Anthony Nash (Tue Jul 20 2021 - 07:55:59 PDT)
- David A Case (Mon Jul 19 2021 - 09:32:03 PDT)
- Anthony Nash (Mon Jul 19 2021 - 06:37:03 PDT)
[AMBER] MMGBSA bad atom type error not fixed by source code edits
- Matthew Guberman-Pfeffer (Sat Jul 03 2021 - 05:12:09 PDT)
- David A Case (Sat Jul 03 2021 - 05:04:07 PDT)
- Matthew Guberman-Pfeffer (Fri Jul 02 2021 - 23:30:30 PDT)
[AMBER] MMGBSA CalcError: mmpbsa_py_energy failed with prmtop
- Maschietto, Federica (Wed Jul 28 2021 - 10:46:46 PDT)
[AMBER] MMPBSA.py error with "Error occured on rank 1"
- Mohamed M. Aboelnga (Wed Jul 14 2021 - 07:34:02 PDT)
[AMBER] Modeling 2D material with a bio-molecule/protein
- Kashyap, Jatin (Fri Jul 09 2021 - 22:56:47 PDT)
[AMBER] N_OF_BONDS colvar and PBC
- David A Case (Fri Jul 30 2021 - 18:25:01 PDT)
- Hugo Macdermott-Opeskin (Fri Jul 30 2021 - 17:10:57 PDT)
[AMBER] old PREP-specified impropers
- Sadaf Rani (Sun Jul 11 2021 - 22:14:42 PDT)
- David A Case (Sun Jul 11 2021 - 12:44:48 PDT)
- Sadaf Rani (Sat Jul 10 2021 - 08:57:05 PDT)
[AMBER] pc1 vs pc2 principal component analysis
- Jenny 148 (Wed Jul 21 2021 - 00:57:51 PDT)
- Daniel Roe (Tue Jul 20 2021 - 11:10:40 PDT)
- Jenny 148 (Fri Jul 16 2021 - 12:42:29 PDT)
[AMBER] PCA inconsistency on number of frames
- Daniel Roe (Tue Jul 13 2021 - 06:31:24 PDT)
- Mac Kevin Braza (Sat Jul 10 2021 - 15:53:05 PDT)
[AMBER] pdb4amber
- David A Case (Fri Jul 16 2021 - 08:12:00 PDT)
- Sadaf Rani (Thu Jul 15 2021 - 23:17:34 PDT)
[AMBER] Physical chemistry question regarding entropy calculations in ligand-receptor system
- David A Case (Thu Jul 29 2021 - 04:59:46 PDT)
- Liao (Wed Jul 28 2021 - 12:33:34 PDT)
[AMBER] Protein-protein interaction energy calculation
- SATYAJIT KHATUA (Sun Jul 25 2021 - 06:33:41 PDT)
[AMBER] Question about bilayer lipid dimension estimation (online tutorial: 1.7 An Amber Lipid Force Field Tutorial: Lipid14)
- 王维 (Tue Jul 06 2021 - 03:01:32 PDT)
[AMBER] Question of Amber_ Sasaki
- David A Case (Wed Jul 14 2021 - 19:25:53 PDT)
- Shiho Ohno (Wed Jul 14 2021 - 16:14:59 PDT)
[AMBER] Questions about dPCA.
- Daniel Roe (Tue Jul 13 2021 - 06:20:10 PDT)
- 刘保艳 (Thu Jul 08 2021 - 21:29:47 PDT)
[AMBER] questions about unbond parameters
- 李政新 (Sat Jul 31 2021 - 05:50:15 PDT)
- David A Case (Sat Jul 31 2021 - 05:11:31 PDT)
- 李政新 (Fri Jul 30 2021 - 18:29:46 PDT)
- David A Case (Fri Jul 30 2021 - 05:52:42 PDT)
- 李政新 (Thu Jul 29 2021 - 18:29:01 PDT)
- David A Case (Thu Jul 29 2021 - 04:54:42 PDT)
- 李政新 (Wed Jul 28 2021 - 17:33:50 PDT)
- David A Case (Wed Jul 28 2021 - 04:40:20 PDT)
- 李政新 (Tue Jul 27 2021 - 21:01:00 PDT)
[AMBER] Regarding SHAKE Parameter
- David A Case (Fri Jul 23 2021 - 06:17:25 PDT)
- Sumon Naskar (Fri Jul 23 2021 - 03:38:01 PDT)
[AMBER] Reweighting aMD conformations
- Matthew Guberman-Pfeffer (Wed Jul 14 2021 - 06:42:51 PDT)
- Charo del Genio (Tue Jul 13 2021 - 06:30:48 PDT)
- Matthew Guberman-Pfeffer (Tue Jul 13 2021 - 05:54:26 PDT)
[AMBER] RNA chiOL3 and LJbb with epsilon-zeta correction
- Mandar Kulkarni (Fri Jul 09 2021 - 03:02:53 PDT)
[AMBER] RNA chiOL3 tleap and ACPYPE conversion
- Mandar Kulkarni (Wed Jul 07 2021 - 06:59:37 PDT)
- Mandar Kulkarni (Wed Jul 07 2021 - 04:47:50 PDT)
[AMBER] running Free Energy Perturbation with amber20
- Laura SCALVINI (Mon Jul 26 2021 - 23:58:30 PDT)
[AMBER] Running in a loop
- Matthew Guberman-Pfeffer (Thu Jul 08 2021 - 08:29:43 PDT)
- ankita mehta (Thu Jul 08 2021 - 07:37:40 PDT)
[AMBER] sampling issue
- Carlos Simmerling (Mon Jul 19 2021 - 07:14:07 PDT)
- angad sharma (Sun Jul 18 2021 - 11:28:11 PDT)
[AMBER] Scripting
- Carlos Simmerling (Thu Jul 08 2021 - 05:17:21 PDT)
- ankita mehta (Thu Jul 08 2021 - 05:12:14 PDT)
[AMBER] SEBOMD topology issue
- Gerald Monard (Mon Jul 26 2021 - 16:57:11 PDT)
- Daniel Konstantinovsky (Mon Jul 26 2021 - 12:21:44 PDT)
- Adrian Roitberg (Mon Jul 26 2021 - 12:08:52 PDT)
- Daniel Konstantinovsky (Mon Jul 26 2021 - 12:03:29 PDT)
[AMBER] Segmentation Fault
- David A Case (Fri Jul 02 2021 - 19:21:43 PDT)
- Adrian Roitberg (Fri Jul 02 2021 - 13:33:48 PDT)
- Swisher, Justin S (Fri Jul 02 2021 - 13:30:19 PDT)
- Adrian Roitberg (Fri Jul 02 2021 - 11:37:42 PDT)
- Swisher, Justin S (Fri Jul 02 2021 - 11:32:58 PDT)
[AMBER] Simulating dehydrated bilayers with a vacuum above and below
- Blake Armstrong (Fri Jul 23 2021 - 00:50:52 PDT)
[AMBER] Simulation of protein immobilization
- Markowska (Thu Jul 29 2021 - 05:13:36 PDT)
[AMBER] Solvate and manipulate order of atoms in Leap
- He, Amy (Sun Jul 25 2021 - 15:26:06 PDT)
[AMBER] Split Coordinate files in Amber
- Rohanizeidanlou, Sahar (Fri Jul 16 2021 - 09:03:43 PDT)
- Matthew Guberman-Pfeffer (Tue Jul 13 2021 - 10:54:04 PDT)
- Rohanizeidanlou, Sahar (Tue Jul 13 2021 - 10:49:03 PDT)
[AMBER] Stop PMEMD Terminated Aborally. Tutorial 1.7 An Amber Lipid Force Field Tutorial: Lipid14.
- David A Case (Fri Jul 09 2021 - 04:56:45 PDT)
- 王维 (Fri Jul 09 2021 - 00:03:54 PDT)
- Carlos Simmerling (Thu Jul 08 2021 - 06:18:42 PDT)
- 王维 (Thu Jul 08 2021 - 05:59:47 PDT)
[AMBER] Structure alteration and shortening of loops using xleap
- Sruthi Sudhakar (Mon Jul 19 2021 - 07:58:00 PDT)
- Carlos Simmerling (Mon Jul 19 2021 - 07:10:51 PDT)
- Sruthi Sudhakar (Mon Jul 19 2021 - 04:41:41 PDT)
[AMBER] The protonation state model of TYR in CpHMD
- He, Amy (Mon Jul 19 2021 - 15:02:45 PDT)
- Adrian Roitberg (Mon Jul 19 2021 - 14:26:44 PDT)
- He, Amy (Mon Jul 19 2021 - 11:14:21 PDT)
[AMBER] tleap does not recognize inosine
- Mariangela Dametto (Wed Jul 21 2021 - 14:16:26 PDT)
- Thamires Rocco Machado (Wed Jul 21 2021 - 13:59:31 PDT)
- David A Case (Tue Jul 20 2021 - 18:03:19 PDT)
- Hector A. Baldoni (Tue Jul 20 2021 - 15:29:00 PDT)
- Thamires Rocco Machado (Tue Jul 20 2021 - 14:42:46 PDT)
- Maria Nagan (Tue Jul 20 2021 - 08:51:30 PDT)
- David A Case (Tue Jul 20 2021 - 08:10:56 PDT)
- Thamires Rocco Machado (Tue Jul 20 2021 - 07:12:54 PDT)
[AMBER] To build a single covalent bond between a protein and a ligand.
- Song, Lin (Thu Jul 08 2021 - 10:19:26 PDT)
- PRIYANKA PUROHIT (Wed Jul 07 2021 - 23:14:46 PDT)
[AMBER] To build a single covalent bond in a protein-ligand complex using AMBER18.
- David A Case (Mon Jul 19 2021 - 09:15:39 PDT)
- Elvis A F Martis (Mon Jul 19 2021 - 05:35:04 PDT)
- PRIYANKA PUROHIT (Mon Jul 19 2021 - 05:05:21 PDT)
- Elvis A F Martis (Sat Jul 03 2021 - 03:28:52 PDT)
- PRIYANKA PUROHIT (Sat Jul 03 2021 - 00:44:59 PDT)
[AMBER] unexpected missing parameters for protein atoms?
- Vaibhav Dixit (Fri Jul 30 2021 - 08:05:37 PDT)
- Matthew Guberman-Pfeffer (Fri Jul 30 2021 - 07:35:41 PDT)
- Kenneth Huang (Fri Jul 30 2021 - 07:15:08 PDT)
- Vaibhav Dixit (Fri Jul 30 2021 - 06:55:26 PDT)
- David A Case (Fri Jul 30 2021 - 06:03:47 PDT)
- Vaibhav Dixit (Fri Jul 30 2021 - 04:09:08 PDT)
[AMBER] Using ParmEd to convert gromacs truncated octahedron box to amber
- Jason Swails (Sun Jul 18 2021 - 07:42:52 PDT)
- amin sagar (Sat Jul 03 2021 - 08:13:25 PDT)
[AMBER] velocity trajectory output
- Daniel Roe (Tue Jul 20 2021 - 08:41:06 PDT)
- David A Case (Mon Jul 19 2021 - 18:25:16 PDT)
- Daniel Konstantinovsky (Mon Jul 19 2021 - 12:53:50 PDT)
[AMBER] vlimit exceeded for some step
- Carlos Simmerling (Mon Jul 12 2021 - 07:44:24 PDT)
- Sadaf Rani (Mon Jul 12 2021 - 00:06:18 PDT)
[AMBER] Warning of sp2 improper torsion from Amber tutorial 1.1.4 "Building Protein Systems in Explicit Water"
- David A Case (Thu Jul 01 2021 - 05:14:00 PDT)
- 王维 (Thu Jul 01 2021 - 02:39:24 PDT)
[AMBER] What exactly calculates MMPBSA.py?
- Farkhad Maksudov (Wed Jul 14 2021 - 16:44:46 PDT)
[AMBER] Where are the parameters for the SCREEN RADII section in prmtop
- David A Case (Tue Jul 20 2021 - 08:03:51 PDT)
- Maximilian Ebert (Tue Jul 20 2021 - 05:21:33 PDT)
- Carlos Simmerling (Mon Jul 19 2021 - 05:14:02 PDT)
- Maximilian Ebert (Mon Jul 19 2021 - 05:06:24 PDT)
- Carlos Simmerling (Tue Jul 13 2021 - 13:27:25 PDT)
- Maximilian Ebert (Tue Jul 13 2021 - 11:26:28 PDT)
- David A Case (Wed Jul 07 2021 - 13:26:07 PDT)
- Maximilian Ebert (Wed Jul 07 2021 - 07:15:58 PDT)

Amber Archive Jul 2021 by subject